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Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
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We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


1

Implications of thermal events on thrust emplacement sequence in the Appalachian fold and thrust belt: Some new vitrinite reflectance data  

SciTech Connect (OSTI)

Interpretation of existing geothermometry data combined with new vitrinite reflectance data, within the framework of a detailed composite tectonic setting, elucidates the evolution of structural sequencing of thrust sheets during the Alleghanian event in the Valley and Ridge Province in Virginia. That the Pulaski thrust sheet preceded the Saltville thrust sheet in the emplacement sequence, and that both reached thermal maxima prior to, or during, respective emplacement may be inferred from vitrinite and other geothermometry data. In contrast, the Narrows and St. Clair thrust sheets probably each attained their thermal maximum after emplacement. New vitrinite reflectance data are consistent with CAI and other temperature-sensitive information heretofore ascertained in the Valley and Ridge Province and support previously established maximum temperatures of ca. 200C for strata of the Saltville thrust sheet as young as Mississippian. R{sub max} values from Mississippian coals in the Price Formation of the Saltville sheet, beneath but near the Pulaski thrust, range from 1.61% to 2.60%. At the structural front of the fold and thrust belt, a single Mississippian coal sample from the Bluefield Formation yields an R{sub max} value of 1.35%. Those coals showing highest R{sub max} values are more intensely fractured with secondary minerals filling the fractures. Warm fluids introduced during tectonic events may have played at least as important a role as that of combined stratigraphic and tectonic burial.

Lewis, S.E.; Hower, J.C. (Montana Tech, Butte (USA))

1990-11-01T23:59:59.000Z

2

The Role of Climate in the Deformation of a Fold and Thrust Belt  

E-Print Network [OSTI]

and uplifted in large folds. In order to test this and related ideas in a natural example, we have compared modeled rainfall to measured thrust sheet displacement, geometry, and internal deformation in the Appalachian fold and thrust belt. We use mean annual...

Steen, Sean Kristian

2012-02-14T23:59:59.000Z

3

E-Print Network 3.0 - abakaliki fold belt Sample Search Results  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

exploration province located in deep waters... as detachment folds cored by autochthonous Middle Jurassic Louann Salt. The fold belt overlies rifted... Blickwede and Tom Queffelec...

4

Late Cenozoic partitioning of oblique plate convergence in the Zagros fold-and-thrust belt (Iran)  

E-Print Network [OSTI]

Late Cenozoic partitioning of oblique plate convergence in the Zagros fold-and-thrust belt (Iran of oblique plate convergence in the Zagros fold-and-thrust belt (Iran), Tectonics, 25, TC3002, doi:10.1029/2005TC001860. 1. Introduction [2] The Zagros fold-and-thrust belt of southern Iran, the longest

Paris-Sud XI, Université de

5

The evolution and hydrocarbon habitat of the Papuan fold belt, PNG  

SciTech Connect (OSTI)

After over 70 years of hydrocarbon exploration in the Papuan fold belt of PNG (Papua New Guinea) there have been a number of hydrocarbon discoveries over recent years that have confirmed its potential as a significant producing province. The Papuan basin developed during the early Mesozoic as part of the northeast corner of the Australian passive margin. The basin's tertiary evolution and the development of the Papuan fold belt within the Papuan basin has evolved in response to oblique convergence between the northerly moving Australian plate and westerly moving Pacific plate. Restacking of the Mesozoic passive margin sequence within the Papuan Basin was initiated in the early miocene by southward abduction of the Solomon Sea plate and the subsequent collision, in the late Miocene, of the Melanesian Island arc along the northeastern margin of PNG. This later collision provided the driving mechanism for the development of the papuan thrust belt. To date, all the significant hydrocarbon discoveries made within the Papuan fold belt have been located within the frontal zone of the fold belt, which is characterized by relatively simple ramp anticlines and thick-skinned inversion structures. The primary proven reservoir fairway is the Jurassic Toro formation, which is a sequence of stacked submarine bars prograding out across a shallow-marine low-gradient shelf. Geochemical analysis of produced hydrocarbons and samples collected from the many surface seeps found in the fold belt indicate two main families of oil. A model explains the distribution of hydrocarbons discovered to date, which involves Jurassic and Cretaceous source intervals and a complex history of secondary migration and entrapment. The unique technical problems associated with exploration of the Papuan fold belt leave many elements of the proven play systems uncertain, but in so doing, they present many challenges and opportunities for the future.

Dalton, D.G.; Smith, R.I.; Cawley, S.J. (BP Australia Ltd., Melbourne, Victoria (Australia))

1990-05-01T23:59:59.000Z

6

Structural analysis of the perdido fold belt: timing, evolution, and structural style  

E-Print Network [OSTI]

area is outlin ed with a bo x. AC=Alaminos Canyon ; AW=Atwater Valley; CC= Corpus Christi; EB = E ast Breaks; GB= G arden Banks; GC= G re ens Can yon ; KC=Keathly Canyon; L=Lund; PI=Port Isabel ; WR=Walk er Ridge. Modified from Trudgill et al... in the Perdido fold belt. The excess extension could have been taken up in either the Port Isabel fold belt, located west of the PFB, along with influences of salt deformation. Winker (2004), along with Fiduk et al. (1997), Trudgill et al. (1999) and many...

Waller, Troy Dale, II

2007-09-17T23:59:59.000Z

7

Mechanical characteristics of folds in Upper Cretaceous strata in the Disturbed Belt of northwestern Montana  

E-Print Network [OSTI]

controlled cross section through a wave trai. n of these folds, The citations on these pages follow the style of the U. S. Geological Survey Bulletin. other field observations, laboratory analysis of collected samples, and theoretical considerations...MECHANICAL CHARACTERISTICS OF FOLDS IN UPPER CRETACEOUS STRATA IN THE DISTURBED BELT OF NORTHWESTERN MONTANA A Thesis by PAT KADER GILBERT Submitted to the Graduate College of Texas A&M University in partial fulfillment of the requirements...

Gilbert, Pat Kader

1974-01-01T23:59:59.000Z

8

Timing of granite emplacement and cooling in the SongpanGarze^ Fold Belt (eastern Tibetan Plateau) with tectonic implications  

E-Print Network [OSTI]

Timing of granite emplacement and cooling in the Songpan­Garze^ Fold Belt (eastern Tibetan Plateau Abstract New U­Pb and Rb­Sr geochronology on syn- and post-orogenic granites provide constraints on the timing of major tectonic events in the Songpan­Garze^ fold belt, west Sichuan, China. The Ma Nai granite

9

Mass movement-induced fold-and-thrust belt structures in unconsolidated sediments in Lake Lucerne (Switzerland)  

E-Print Network [OSTI]

Mass movement-induced fold-and-thrust belt structures in unconsolidated sediments in Lake Lucerne-lying, unconsolidated sediment at the foot of subaqueous slopes. These deformation structures appear beneath wedges

Gilli, Adrian

10

Appalachian Energy Center Appalachian State University  

E-Print Network [OSTI]

technologies, conservation, and policy. HISTORY Appalachian Energy Center at Appalachian State UniversityAppalachian Energy Center Appalachian State University Annual Report, 2009 & 2010 December 2010 Appalachian Energy Center MISSION Appalachian Energy Center (AEC) is committed to research, development

Rose, Annkatrin

11

Growth and erosion of fold-and-thrust belts with an application to the Aconcagua fold-and-thrust belt, Argentina  

E-Print Network [OSTI]

-and-thrust belt, Argentina G. E. Hilley1 and M. R. Strecker Institut fu¨r Geowissenschaften, Universita¨t Potsdam, Potsdam, Germany V. A. Ramos Department de Geologia, Universidad de Buenos Aires, Buenos Aires, Argentina in the central Andes of Argentina where wedge development over time is well constrained. We solve

Hilley, George

12

A Summary of Information on the Behavior of the Yakima Fold Belt as a Structural Entity -- Topical Report  

SciTech Connect (OSTI)

This document is one in a series of topical reports compiled by the Pacific Northwest National Laboratory to summarize technical information on selected topics important to the performance of a probabilistic seismic hazard analysis (PSHA) of the Hanford Site. The purpose of this report is to summarize available data and analyses relevant to the Yakima Fold Belt (YFB) that may bear on the question of whether or not the YFB behaves as a single seismotectonic province in which activity along one fold structure is representative of behavior along all other fold structures. This topic has met with a fairly high level of contention in the expert community and has the potential to result in significant impacts on an evaluation of seismic hazard at the Hanford Site. This report defines the relevant alternative conceptual models relevant to this technical issue and the arguments and data that support those models. It provides a brief description of the technical issue and principal uncertainties; a general overview on the nature of the technical issue, along with alternative conceptual models, supporting arguments and information, and uncertainties; and finally, it suggests some possible approaches for reducing uncertainties regarding this issue.

Last, George V.; Winsor, Kelsey; Unwin, Stephen D.

2012-08-01T23:59:59.000Z

13

A Summary of Coupled, Uncoupled, and Hybrid Tectonic Models for the Yakima Fold Belt--Topical Report  

SciTech Connect (OSTI)

This document is one in a series of topical reports compiled by the Pacific Northwest National Laboratory to summarize technical information on selected topics important to the performance of a probabilistic seismic hazard analysis of the Hanford Site. The purpose of this report is to summarize the range of opinions and supporting information expressed by the expert community regarding whether a coupled or uncoupled model, or a combination of both, best represents structures in the Yakima Fold Belt. This issue was assessed to have a high level of contention with up to moderate potential for impact on the hazard estimate. This report defines the alternative conceptual models relevant to this technical issue and the arguments and data that support those models. It provides a brief description of the technical issue and principal uncertainties; a general overview on the nature of the technical issue, along with alternative conceptual models, supporting arguments and information, and uncertainties; and finally, suggests some possible approaches for reducing uncertainties regarding this issue.

Chamness, Michele A.; Winsor, Kelsey; Unwin, Stephen D.

2012-08-01T23:59:59.000Z

14

The vertical separation of mainshock rupture and microseismicity at Qeshm island in the Zagros fold-and-thrust belt, Iran  

E-Print Network [OSTI]

-and-thrust belt, Iran E. Nissen a, , F. Yamini-Fard b , M. Tatar b , A. Gholamzadeh b,1 , E. Bergman c , J Engineering and Seismology, PO Box 19395-3913, Tehran, Iran c Department of Physics, University of Colorado rights reserved. 1. Introduction The Zagros mountains in south-western Iran are one of the most rapidly

Elliott, John

15

Appalachian Studies Student Survey Items  

E-Print Network [OSTI]

about Appalachian culture/history Historical Survey Data (Prior to 2006) ACT Appalachian Region Alumni selected Berea College. Major Reason Minor Reason Not a Reason Cost of attendance/affordable price Close

Baltisberger, Jay H.

16

Office of Sustainability Appalachian State University  

E-Print Network [OSTI]

1 Office of Sustainability Appalachian State University September 2010 Toward Climate Neutrality A 100kw wind turbine stands atop campus' highest point #12;sustain Appalachian Climate Action Plan Towards Climate Neutrality 2 September 2010 Submitted to: American College & University

Rose, Annkatrin

17

Photo courtesy of Appalachian State University Appalachian State University  

E-Print Network [OSTI]

4 Report from the Appalachian State University Office of Sustainability to the American College of Sustainability Matt Parsons, Graduate Assistant Published spring 2010 A comparative survey of emissions from year to the greenhouse gas inventory completed fall 2009 by per the requirements of the American College and University

Rose, Annkatrin

18

Solar Decathlon: Appalachian State Wins People's Choice Award...  

Broader source: Energy.gov (indexed) [DOE]

Decathlon: Appalachian State Wins People's Choice Award Solar Decathlon: Appalachian State Wins People's Choice Award October 3, 2011 - 10:38am Addthis On Friday, Sept. 30, 2011,...

19

Facility Design Manual Appalachian State University  

E-Print Network [OSTI]

at Charlotte Design and Construction Manual University of South Carolina Sustainable Design Guidelines US DOE & US Green Building Council (USGBC) Sustainable Building Technical Manual #12;A p p a l a c h i a nFacility Design Manual Appalachian State University #12;#12;© 2009 by Appalachian State University

Thaxton, Christopher S.

20

Laterally bendable belt conveyor  

DOE Patents [OSTI]

An endless, laterally flexible and bendable belt conveyor particularly adapted for coal mining applications in facilitating the transport of the extracted coal up- or downslope and around corners in a continuous manner is disclosed. The conveying means includes a flat rubber belt reinforced along the middle portion thereof along which the major portion of the belt tension is directed so as to cause rotation of the tubular shaped belt when trammed around lateral turns thus preventing excessive belt bulging distortion between adjacent belt supports which would inhibit belt transport. Pretension induced into the fabric reinforced flat rubber belt by conventional belt take-up means supports the load conveyed when the belt conveyor is making lateral turns. The carrying and return portions of the belt are supported and formed into a tubular shape by a plurality of shapers positioned along its length. Each shaper is supported from above by a monorail and includes clusters of idler rollers which support the belt. Additional cluster rollers in each shaper permit the belt supporting roller clusters to rotate in response to the belt's operating tension imposed upon the cluster rollers by induced lateral belt friction forces. The freely rotating roller clusters thus permit the belt to twist on lateral curves without damage to itself while precluding escape of the conveyed material by effectively enclosing it in the tube-shaped, inner belt transport length.

Peterson, William J. (Coraopolis, PA)

1985-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


21

Appalachian State University October 11, 2010  

E-Print Network [OSTI]

of Ad-hoc Committee, Chair Michael Ramey, Chair Eric Marland, Vice-Chair Jeff Butts, Parliamentarian and its functions within Appalachian State University. Peter Petschauer, Chair Steve Williams, Vice Chair

Rose, Annkatrin

22

APPALACHIAN COLLEGES COMMUNITY ECONOMIC DEVELOPMENT PARTNERSHIP  

E-Print Network [OSTI]

customized community economic development engagement strategies. Provide on-site Partnership evaluation to undertake new economic development programs. Communication, Sustainability, and Evaluation--Years 1, 2 and 3APPALACHIAN COLLEGES COMMUNITY ECONOMIC DEVELOPMENT PARTNERSHIP The UNC-Chapel Hill Office

Engel, Jonathan

23

Page 1 of 3 Appalachian State University  

E-Print Network [OSTI]

with the department head and appropriate vice chancellor. Physical Plant New River Light & Power Food Service In the event of severe weather conditions, emergency situations, or serious public health threats, Appalachian

Rose, Annkatrin

24

Solar Decathlon Team Using Appalachian Mountain History to Model...  

Broader source: Energy.gov (indexed) [DOE]

Using Appalachian Mountain History to Model Home of the Future Solar Decathlon Team Using Appalachian Mountain History to Model Home of the Future March 31, 2011 - 10:52am Addthis...

25

APPALACHIAN STATE UNIVERSITY OFFICE OF GENERAL COUNSEL  

E-Print Network [OSTI]

APPALACHIAN STATE UNIVERSITY OFFICE OF GENERAL COUNSEL MEMORANDUM TO: Faculty and Staff FROM: Dayton T. Cole, General Counsel DATE: October 22, 2013 SUBJECT: Political Activity [Please print and post Resources website: http://hrs.appstate.edu/announcements/552. Questions concerning the interpretation

Thaxton, Christopher S.

26

E-Print Network 3.0 - appalachian margin foundering Sample Search...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

margin foundering Page: << < 1 2 3 4 5 > >> 1 Appalachian State University Foundation, Inc. Monthly Payroll Deduction Form (A-3) Summary: Appalachian State University...

27

E-Print Network 3.0 - appalachian region Sample Search Results  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Appalachians) - May 1996 ... Source: Collection: Geosciences 23 ANALYSIS OF ENHANCED COALBED METHANE RECOVERY THROUGH CARBON SEQUESTRATION IN THE CENTRAL Summary: APPALACHIAN...

28

Folding@HomeFolding@Home Vijay Pande  

E-Print Network [OSTI]

Folding@HomeFolding@Home Vijay Pande #12;http://folding.stanford.edu © Vijay S. Pande 1999,000,000 PCs on the internet Folding@Home People donate their idle computer time They visit our website://folding.stanford.edu © Vijay S. Pande 1999-2003 Folding@HomeFolding@Home:: VeryVery powerful & cost effectivepowerful & cost

Dally, William J.

29

appalachian ohio region: Topics by E-print Network  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Thaxton, Christopher S. 34 ECONOMIC IMPACT OF THE APPALACHIAN GATEWAY Fossil Fuels Websites Summary: , natural gas demand is forecast to increase through 2035. The...

30

Appalachian States Low-Level Radioactive Waste Compact (Maryland)  

Broader source: Energy.gov [DOE]

This legislation authorizes Maryland's entrance into the Appalachian States Low-Level Radioactive Waste Compact, which seeks to promote interstate cooperation for the proper management and disposal...

31

Origin Basin Destination State STB EIA STB EIA Northern Appalachian...  

Gasoline and Diesel Fuel Update (EIA)

- W - W W W - W Central Appalachian Basin Alabama 26.18 26.10 -0.3% 118.06 22.1% 930 37.4% 100.0% Central Appalachian Basin Delaware 23.73 15.12 -36.3% 88.59 17.1%...

32

appalachian clean coal: Topics by E-print Network  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

appalachian clean coal First Page Previous Page 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 Next Page Last Page Topic Index 1 1 INTRODUCTION Appalachian coal...

33

The Mars Hill Terrane: An enigmatic southern Appalachian terrane  

SciTech Connect (OSTI)

The Mars Hill Terrane (MHT) in the Appalachian Blue Ride Belt is bordered by complex, locally reactivated thrust and strike-slip faults. On the east, the MHT is bounded by the allochthonous, ensimatic Toe Terrane (TT) across the diachronous, ductile Holland Mountain-Soque River Fault System. The MHT is separated on the northwest from ensialic Laurentian basement (LB), by the Fries-Hayesville Fault System. On the south, the MHT is truncated by the Shope Fork Fault. The MHT is characterized by migmatitic biotite-pyroxene-hornblende gneiss, but contains 1--1.8 b.y. old quartz-feldspar gneisses, plus ultramafic rocks, calc-silicate rocks, mica schists and gneisses, and Neoproterozoic Bakersville gabbros. This rock assemblage contrasts with that of the adjoining terranes. The only correlative units between the MHT and adjoining terranes are Neoproterozoic gabbro, Ordovician-Devonian granitoid plutons, and ultramafic rocks. Gabbro links the MHT with LB rocks. Apparently similar calc-silicate rocks differ petrographically among terranes. During Taconic or Acadian events, both the TT and MHT reached amphibolite to granulite metamorphic grade, but the LB did not exceed greenschist grade. The data conflict. The O-D plutons, ultramafic rocks, and metamorphic histories suggest that the TT had docked with the MHT by Ordovician time. The premetamorphic character of the Holland Mtn.-Soque River Fault System supports that chronology. Neoproterozoic gabbros suggest a MHT-LB link by Cambrian time, but the LB experienced neither O-D plutonism nor Paleozoic amphibolite-granulite facies metamorphism.

Raymond, L.A.; Johnson, P.A. (Appalachian State Univ., Boone, NC (United States). Dept. of Geology)

1994-03-01T23:59:59.000Z

34

CLIMATE-FIRE RELATIONSHIPS IN THE SOUTHERN APPALACHIAN MOUNTAINS  

E-Print Network [OSTI]

This study is meant to explain the fire regime of the southern Appalachian Mountain Range of the southeastern United States by analyzing spatial statistics and climate-fire relationships. The spatial statistics were created by obtaining...

Baker, Ralph C.

2011-01-11T23:59:59.000Z

35

Geologic Controls of Hydrocarbon Occurrence in the Appalachian Basin in Eastern Tennessee, Southwestern Virginia, Eastern Kentucky, and Southern West Virginia  

SciTech Connect (OSTI)

This report summarizes the accomplishments of a three-year program to investigate the geologic controls of hydrocarbon occurrence in the southern Appalachian basin in eastern Tennessee, southwestern Virginia, eastern Kentucky, and southern West Virginia. The project: (1) employed the petroleum system approach to understand the geologic controls of hydrocarbons; (2) attempted to characterize the P-T parameters driving petroleum evolution; (3) attempted to obtain more quantitative definitions of reservoir architecture and identify new traps; (4) is worked with USGS and industry partners to develop new play concepts and geophysical log standards for subsurface correlation; and (5) geochemically characterized the hydrocarbons (cooperatively with USGS). Third-year results include: All project milestones have been met and addressed. We also have disseminated this research and related information through presentations at professional meetings, convening a major workshop in August 2003, and the publication of results. Our work in geophysical log correlation in the Middle Ordovician units is bearing fruit in recognition that the criteria developed locally in Tennessee and southern Kentucky are more extendible than anticipated earlier. We have identified a major 60 mi-long structure in the western part of the Valley and Ridge thrust belt that has been successfully tested by a local independent and is now producing commercial amounts of hydrocarbons. If this structure is productive along strike, it will be one of the largest producing structures in the Appalachians. We are completing a more quantitative structural reconstruction of the Valley and Ridge and Cumberland Plateau than has been made before. This should yield major dividends in future exploration in the southern Appalachian basin. Our work in mapping, retrodeformation, and modeling of the Sevier basin is a major component of the understanding of the Ordovician petroleum system in this region. Prior to our undertaking this project, this system was the least understood in the Appalachian basin. This project, in contrast to many if not most programs undertaken in DOE laboratories, has a major educational component wherein three Ph.D. students have been partially supported by this grant, one M.S. student partially supported, and another M.S. student fully supported by the project. These students will be well prepared for professional careers in the oil and gas industry.

Hatcher, Robert D

2005-11-30T23:59:59.000Z

36

Study seeks to boost Appalachian gas recovery  

SciTech Connect (OSTI)

Ashland Exploration Inc. and the Gas Research Institute (GRI) are trying to find ways to increase gas recovery in the Appalachian basin. They are working together to investigate Mississippian Berea sandstone and Devonian shale in a program designed to achieve better understanding and improved performance of tight natural gas formations in the area. This paper reports that three wells on Ashland Exploration acreage in Pike County, Ky., are involved in the research program. Findings from the first two wells will be used to optimize evaluation and completion of the third well. The first two wells have been drilled. Drilling of the third well was under way at last report. Ashland Exploration has been involved with GRI's Devonian shale research since 1988. GRI's initial focus was on well stimulation because Devonian shale wells it reviewed had much lower recoveries than could be expected, based on estimated gas in place. Research during the past few years was designed to improve the execution and quality control of well stimulation.

Not Available

1992-07-20T23:59:59.000Z

37

SLH Timing Belt Powertrain  

SciTech Connect (OSTI)

The main goal of this proposal was to develop and test a novel powertrain solution for the SLH hydroEngine?, a low-cost, efficient low-head hydropower technology. Nearly two-thirds of U.S. renewable electricity is produced by hydropower (EIA 2010). According to the U.S. Department of Energy; this amount could be increased by 50% with small hydropower plants, often using already-existing dams (Hall 2004). There are more than 80,000 existing dams, and of these, less than 4% generate power (Blankinship 2009). In addition, there are over 800 irrigation districts in the U.S., many with multiple, non-power, low-head drops. These existing, non-power dams and irrigation drops could be retrofitted to produce distributed, baseload, renewable energy with appropriate technology. The problem is that most existing dams are low-head, or less than 30 feet in height (Ragon 2009). Only about 2% of the available low-head hydropower resource in the U.S. has been developed, leaving more than 70 GW of annual mean potential low-head capacity untapped (Hall 2004). Natel Energy, Inc. is developing a low-head hydropower turbine that operates efficiently at heads less than 6 meters and is cost-effective for deployment across multiple low-head structures. Because of the unique racetrack-like path taken by the prime-movers in the SLH, a flexible powertrain is required. Historically, the only viable technological solution was roller chain. Despite the having the ability to easily attach blades, roller chain is characterized by significant drawbacks, including high cost, wear, and vibration from chordal action. Advanced carbon-#12;fiber-reinforced timing belts have been recently developed which, coupled with a novel belt attachment system developed by Natel Energy, result in a large reduction in moving parts, reduced mass and cost, and elimination of chordal action for increased fatigue life. The work done in this project affirmatively addressed each of the following 3 major uncertainties concerning a timing-belt based hydroEngine ?powertrain: 1. Can a belt handle the high torques and power loads demanded by the SLH? (Yes.) 2. Can the SLH blades be mounted to belt with a connection that can withstand the loads encountered in operation? (Yes.) 3. Can the belt, with blade attachments, live through the required cyclic loading? (Yes.) The research adds to the general understanding of sustainable small hydropower systems by using innovative system testing to develop and demonstrate performance of a novel powertrain solution, enabling a new type of hydroelectric turbine to be commercially developed. The technical effectiveness of the methods investigated has been shown to be positive through an extensive design and testing process accommodating many constraints and goals, with a major emphasis on high cycle fatigue life. Economic feasibility of the innovations has been demonstrated through many iterations of design for manufacturability and cost reduction. The project is of benefit to the public because it has helped to develop a solution to a major problem -- despite the large available potential for new low-head hydropower, high capital costs and high levelized cost of electricity (LCOE) continue to be major barriers to project development. The hydroEngine? represents a significant innovation, leveraging novel fluid mechanics and mechanical configuration to allow lower-cost turbine manufacture and development of low head hydropower resources.

Schneider, Abe

2014-04-09T23:59:59.000Z

38

1 INTRODUCTION Appalachian coal recovered during mining fre-  

E-Print Network [OSTI]

of Appalachian underground coal mining (Newman 2003). Storage of coal processing waste is limited to above ground- ground room-and-pillar or longwall coal production do not allow for the separation of waste during coal. Such an analysis requires the ability to predict potential surface ground movements, both vertical (i

39

All majors in geology are required to complete GLY 4750 (Field Methods) which includes classroom lectures on Appalachian Geology, a nine day trip to the Southern Appalachians, and  

E-Print Network [OSTI]

All majors in geology are required to complete GLY 4750 (Field Methods) which includes classroom lectures on Appalachian Geology, a nine day trip to the Southern Appalachians, and two oneday field trips geological data and interpretations, and requires the student to demonstrate proficiency in integrating

Fernandez, Eduardo

40

Other Kuiper Belts  

E-Print Network [OSTI]

When a main sequence star evolves into a red giant and its Kuiper Belt Object's (KBO's) reach a temperature of about 170 K, the dust released during the rapid ice-sublimation of these cometary bodies may lead to a detectable infrared excess at 25 microns, depending upon the mass of the KBO's. Analysis of IRAS data for 66 first ascent red giants with 200 L(Sun) < L < 300 L(Sun) within 150 pc of the Sun provides an upper limit to the mass in KBO's at 45 AU orbital radius that is usually less than about 0.1 M(Earth). With improved infrared data, we may detect systems of KBO's around first ascent red giants that are analogs to our Solar System's KBO's.

M. Jura

2003-11-28T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


41

Protein folding tames chaos  

E-Print Network [OSTI]

Protein folding produces characteristic and functional three-dimensional structures from unfolded polypeptides or disordered coils. The emergence of extraordinary complexity in the protein folding process poses astonishing challenges to theoretical modeling and computer simulations. The present work introduces molecular nonlinear dynamics (MND), or molecular chaotic dynamics, as a theoretical framework for describing and analyzing protein folding. We unveil the existence of intrinsically low dimensional manifolds (ILDMs) in the chaotic dynamics of folded proteins. Additionally, we reveal that the transition from disordered to ordered conformations in protein folding increases the transverse stability of the ILDM. Stated differently, protein folding reduces the chaoticity of the nonlinear dynamical system, and a folded protein has the best ability to tame chaos. Additionally, we bring to light the connection between the ILDM stability and the thermodynamic stability, which enables us to quantify the disorderli...

Xia, Kelin

2013-01-01T23:59:59.000Z

42

Performance evaluation of Appalachian wells using a microcomputer gas simulation model  

SciTech Connect (OSTI)

The Appalachian Basin contains very low reservoir pressures (as low as 120 psi). To help solve these problems, a one-dimensional gas simulator has been developed for use on a microcomputer. The simulation program provides production engineers with tools to generate data and determine the inflow performance relationships (IPR) of Appalachian-type wells. These Appalachian well field case studies were conducted, whereby various production methods were analyzed using the Nodal analysis method. Consequently, improved design criteria were established for selecting compatible production methods and handling production problems in the Appalachian Basin.

Yu, J.P.; Mustafa, A. (West Virginia Univ., Morgantown (USA)); Hefner, M.H. (CNG Transmission Co., Clarksburg, WV (USA))

1990-04-01T23:59:59.000Z

43

E-Print Network 3.0 - appalachian mountain region Sample Search...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

10-week learning and living experience in the Appalachian Mountains. Students conduct independent... Mountain Lake Biological Station SUMMER2009 APPLY ONLINE: W W W . M L B S ....

44

E-Print Network 3.0 - appalachian assessment summary Sample Search...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Sciences and Ecology 2 CENTER FOR ECONOMIC RESEARCH & POLICY ANALYSIS Walker College of Business | Appalachian State University Summary: OF CONTENTS Executive Summary...

45

E-Print Network 3.0 - appalachian silvopasture pasture Sample...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

State University, Boone, NC Chris Thaxton... Department of Geology Carol Babyak, Ph.D., and Will Benner Department of Chemistry Appalachian State Source: Thaxton,...

46

E-Print Network 3.0 - appalachian spruce fir Sample Search Results  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

topography, and potential insolation on the Summary: United States (Noss et al. 1995; White and Miller 1998). Appalachian montane spruce-fir forests... by wind, with natural...

47

Parametric and predictive analysis of horizontal well configurations for coalbed methane reservoirs in Appalachian Basin.  

E-Print Network [OSTI]

??It has been a well-established fact that the Appalachian Basin represents a high potential region for the Coalbed Methane (CBM) production. The thin coal beds (more)

Maricic, Nikola.

2004-01-01T23:59:59.000Z

48

E-Print Network 3.0 - appalachian mined lands Sample Search Results  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Appalachian State... of land-use history on the forest development of the Illinois Ozark Hills. B.S. Forest Science - Forest... AND RESEARCH APPOINTMENTS Assistant Professor...

49

E-Print Network 3.0 - appalachian basin exploration Sample Search...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

production in the Appalachian Basin. Consequently, natural gas development... energy demand in the United States has led to ... Source: USDA, Forestry Service, Northern...

50

E-Print Network 3.0 - appalachian basin gas Sample Search Results  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Sciences and Ecology 2 ANALYSIS OF ENHANCED COALBED METHANE RECOVERY THROUGH CARBON SEQUESTRATION IN THE CENTRAL Summary: APPALACHIAN BASIN Nino Ripepi, Virginia Tech,...

51

Appalachian basin coal-bed methane: Elephant or flea  

SciTech Connect (OSTI)

Historically, interest in the Appalachian basin coal-bed methane resource extends at least over the last 50 years. The Northern and Central Appalachian basins are estimated to contain 61 tcf and 5 tcf of coal-bed methane gas, respectively. Development of this resource has not kept pace with that of other basins, such as the Black Warrior basin of Alabama of the San Juan basin of northern New Mexico and Colorado. Without the benefit of modern completion, stimulation, and production technology, some older Appalachian basin coal-bed methane wells were reported to have produced in excess of 150 used here to characterize some past projects and their results. This work is not intended to comprise a comprehensive survey of all Appalachian basin projects, but rather to provide background information from which to proceed for those who may be interested in doing so. Several constraints to the development of this resource have been identified, including conflicting legal rights of ownership of the gas produced from the coal seams when coal and conventional oil and gas rights are controlled by separate parties. In addition, large leaseholds have been difficult to acquire and finding costs have been high. However, the threshold of minimum economic production may be relatively low when compared with other areas, because low-pressures pipelines are available and gas prices are among the highest in the nation. Interest in the commercial development of the resource seems to be on the increase with several projects currently active and more reported to be planned for the near future.

Hunt, A.M. (Dames and Moore, Cincinnati, OH (United States))

1991-08-01T23:59:59.000Z

52

Opportunities for Visual Resource Management in the Southern Appalachian Coal Basin1  

E-Print Network [OSTI]

Opportunities for Visual Resource Management in the Southern Appalachian Coal Basin1 John W) in the southern Appalachian coal basin resulting from the Surface Mining Control and Reclamation Act. It focuses been concerned with the visual impacts resulting from the surface mined coal the agency purchases

Standiford, Richard B.

53

Geologic Controls of Hydrocarbon Occurrence in the Southern Appalachian Basin in Eastern Tennessee, Southwestern Virginia, Eastern Kentucky, and Southern West Virginia  

SciTech Connect (OSTI)

This report summarizes the second-year accomplishments of a three-year program to investigate the geologic controls of hydrocarbon occurrence in the southern Appalachian basin in eastern Tennessee, southwestern Virginia, eastern Kentucky, and southern West Virginia. The project: (1) employs the petroleum system approach to understand the geologic controls of hydrocarbons; (2) attempts to characterize the T-P parameters driving petroleum evolution; (3) attempts to obtain more quantitative definitions of reservoir architecture and identify new traps; (4) is working with USGS and industry partners to develop new play concepts and geophysical log standards for subsurface correlation; and (5) is geochemically characterizing the hydrocarbons (cooperatively with USGS). Second-year results include: All current milestones have been met and other components of the project have been functioning in parallel toward satisfaction of year-3 milestones. We also have been effecting the ultimate goal of the project in the dissemination of information through presentations at professional meetings, convening a major workshop in August 2003, and the publication of results. Our work in geophysical log correlation in the Middle Ordovician units is bearing fruit in recognition that the criteria developed locally in Tennessee and southern Kentucky have much greater extensibility than anticipated earlier. We have identified a major 60 mi-long structure in the western part of the Valley and Ridge thrust belt that is generating considerable exploration interest. If this structure is productive, it will be one of the largest structures in the Appalachians. We are completing a more quantitative structural reconstruction of the Valley and Ridge than has been made before. This should yield major dividends in future exploration in the southern Appalachian basin. Our work in mapping, retrodeformation, and modeling of the Sevier basin is a major component of the understanding of the Ordovician petroleum system in this region. Prior to our undertaking this project, this system was the least understood in the Appalachian basin. We have made numerous presentations, convened a workshop, and are beginning to disseminate our results in print. This project, in contrast to many if not most programs undertaken in DOE laboratories, has a major educational component wherein three Ph.D. students have been partially supported by this grant, one M.S. student partially supported, and another M.S. student fully supported by the project. These students will be well prepared for professional careers in the oil and gas industry.

Robert D. Hatcher

2004-05-31T23:59:59.000Z

54

Impacts of Minnesota's Primary Seat Belt Law  

E-Print Network [OSTI]

checkpoints · Motorcycle helmet mandate · Graduated driver's licenses · Automated speed Belt Law 71% 73% 73% Sobriety Checkpoints 83% 82% 82% Motorcycle Helmet Belt Law 77% 77% 70% Sobriety Checkpoints 91% 91% 90% Motorcycle Helmet

Minnesota, University of

55

New oilfield air bit improves drilling economics in Appalachian Basin  

SciTech Connect (OSTI)

Petroleum exploration in the Appalachian Basin of the northeastern United States has traditionally relied on compressed air, rather than drilling fluid, for its circulating medium. When compared to drilling mud, compressed air provides such advantages as increased rates of penetration, longer bit life, decreased formation damage, no lost circulation and saves the expense associated with mud handling equipment. Throughout the 1970s and early 1980s, roller cone mining bits and surplus oilfield bits were used to drill these wells. While the cutting structures of mining bits were well-suited for air drilling, the open roller bearings invariably shortened the useful life of the bit, particularly when water was present in the hole. This paper will highlight the development of a new IADC Class 539Y oilfield roller cone bit that is establishing performance records in air drilling applications throughout the Appalachian Basin. Essentially, the latest generation evolved from a roller cone bit successfully introduced in 1985 that combined a specialized non-offset cutting structure with a premium oilfield journal bearing package. Since its introduction, several sizes and types of oilfield air bits have been developed that have continually decreased drilling costs through enhanced performance and reliability. The design and evolution of rock bit cutting structures and bearing packages for high-performance oilfield air drilling applications will be detailed. Laboratory drilling test data will demonstrate the difference in drilling efficiencies between air drilling and conventional fluid drilling. Case studies taken from throughout the Appalachian Basin will be presented to illustrate the improvements in cost per foot, penetration rate, total footage drilled, drilling hours, and bit dull grades.

Brannon, K.C.; Grimes, R.E. [Hughes Christensen Co., Houston, TX (United States); Vietmeier, W.R. [Hughes Christensen Co., Imperial, PA (United States)

1994-12-31T23:59:59.000Z

56

Optimization Approaches to Protein Folding.  

E-Print Network [OSTI]

??This research shows optimization approaches to protein folding. The protein folding problem is to predict the compact three dimensional structure of a protein based on (more)

Yoon, Hyun-suk

2006-01-01T23:59:59.000Z

57

Simulations of Protein Folding  

E-Print Network [OSTI]

We have developed a simple, phenomenological, Monte-Carlo code that predicts the three-dimensional structure of globular proteins from the DNA sequences that define them. We have applied this code to two small proteins, the villin headpiece (1VII) and cole1 rop (1ROP). Our code folds both proteins to within 5 A rms of their native structures.

Michael Cahill; Mark Fleharty; Kevin Cahill

1999-09-17T23:59:59.000Z

58

Fire Regimes of the Southern Appalachian Mountains: Temporal and Spatial Variability and Implications for Vegetation Dynamics  

E-Print Network [OSTI]

Ecologists continue to debate the role of fire in forests of the southern Appalachian Mountains. How does climate influence fire in these humid, temperate forests? Did fire regimes change during the transition from Native American settlement to Euro...

Flatley, William 1977-

2012-08-31T23:59:59.000Z

59

Appalachian Colleges Community Economic Development Partnership The Small Private Colleges Economic Development Toolkit  

E-Print Network [OSTI]

Partnerships o Evaluation: Measuring Effectiveness #12;The Small Private Colleges Economic Development ToolkitAppalachian Colleges Community Economic Development Partnership The Small Private Colleges Economic and sustainable economic development outreach programs. It contains carefully selected articles and case studies

Engel, Jonathan

60

INVERSE PROTEIN FOLDING, HIERARCHICAL OPTIMISATION  

E-Print Network [OSTI]

INVERSE PROTEIN FOLDING, HIERARCHICAL OPTIMISATION AND TIE KNOTS Thomas M. A. Fink st. john Introduction 3 1.1 Inverse Protein Folding 3 1.2 Hierarchical Optimisation 5 1.3 Tie Knots 6 1.4 Schematic Organisation 6 1.5 Publications 9 2 Protein Folding, Inverse Protein Folding and Energy Landscapes 10 2

Halligan, Daniel

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


61

Native American Studies at West Virginia University: Continuing the Interactions of Native and Appalachian People  

E-Print Network [OSTI]

Native American Studies at West Virginia University: Continuing the Interactions of Native and Appalachian People Ellesa Clay High and Daniel W. McNeil In the heart of Appalachia, Native American Studies has been growing for almost two decades.... West Virginia is the only state totally encompassed by the Appalachian region, the mountains of which stretch from Maine to Georgia. About the size of the Navajo Nation, "wild and wonderful" West Virginia is a place of intricate ridges, hollows...

High, Ellesa Clay; McNeil, Daniel W.

2001-03-01T23:59:59.000Z

62

Synchronous and Cogged Fan Belt Performance Assessment  

SciTech Connect (OSTI)

The GSA Regional GPG Team commissioned the National Renewable Energy Laboratory (NREL) to perform monitoring of cogged V-belts and synchronous belts on both a constant volume and a variable air volume fan at the Byron G. Rodgers Federal Building and U.S. Courthouse in Denver, Colorado. These motor/fan combinations were tested with their original, standard V-belts (appropriately tensioned by an operation and maintenance professional) to obtain a baseline for standard operation. They were then switched to the cogged V-belts, and finally to synchronous belts. The power consumption by the motor was normalized for both fan speed and air density changes. This was necessary to ensure that the power readings were not influenced by a change in rotational fan speed or by the power required to push denser air. Finally, energy savings and operation and maintenance savings were compiled into an economic life-cycle cost analysis of the different belt options.

Cutler, D.; Dean, J.; Acosta, J.

2014-02-01T23:59:59.000Z

63

San Juan Montana Thrust Belt WY Thrust Belt Black Warrior  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

AFDC Printable Version Share this resource Send a link to EERE: Alternative Fuels Data Center Home Page to someone by E-mail Share EERE: Alternative Fuels Data Center Home Page on Facebook Tweet about EERE: Alternative Fuels Data Center Home Page on Twitter Bookmark EERE:1 First Use of Energy for All Purposes (Fuel and Nonfuel),Feet) Year Jan Feb Mar Apr MayAtmosphericNuclear Security Administration the1 -the Mid-Infrared0 ResourceAwardsSafeguards andSan Juan Montana Thrust Belt WY

64

Protein folding and cosmology  

E-Print Network [OSTI]

Protein denaturing induced by supercooling is interpreted as a process where some or all internal symmetries of the native protein are spontaneously broken. Hence, the free-energy potential corresponding to a folding-funnel landscape becomes temperature-dependent and describes a phase transition. The idea that deformed vortices could be produced in the transition induced by temperature quenching, from native proteins to unfolded conformations is discussed in terms of the Zurek mechanism that implements the analogy between vortices, created in the laboratory at low energy, and the cosmic strings which are thought to have been left after symmetry breaking phase transitions in the early universe. An experiment is proposed to test the above idea which generalizes the cosmological analogy to also encompass biological systems and push a step ahead the view that protein folding is a biological equivalent of the big bang.

Gonzlez-Diz, P F

1997-01-01T23:59:59.000Z

65

Protein folding and cosmology  

E-Print Network [OSTI]

Protein denaturing induced by supercooling is interpreted as a process where some or all internal symmetries of the native protein are spontaneously broken. Hence, the free-energy potential corresponding to a folding-funnel landscape becomes temperature-dependent and describes a phase transition. The idea that deformed vortices could be produced in the transition induced by temperature quenching, from native proteins to unfolded conformations is discussed in terms of the Zurek mechanism that implements the analogy between vortices, created in the laboratory at low energy, and the cosmic strings which are thought to have been left after symmetry breaking phase transitions in the early universe. An experiment is proposed to test the above idea which generalizes the cosmological analogy to also encompass biological systems and push a step ahead the view that protein folding is a biological equivalent of the big bang.

P. F. Gonzalez-Diaz; C. L. Siguenza

1997-06-04T23:59:59.000Z

66

Protein folding and heteropolymers  

E-Print Network [OSTI]

We present a statistical mechanics approach to the protein folding problem. We first review some of the basic properties of proteins, and introduce some physical models to describe their thermodynamics. These models rely on a random heteropolymeric description of these non random biomolecules. Various kinds of randomness are investigated, and the connection with disordered systems is discussed. We conclude by a brief study of the dynamics of proteins.

T. Garel; H. Orland; E. Pitard

1997-06-12T23:59:59.000Z

67

Variation and Trends of Landscape Dynamics, Land Surface Phenology and Net Primary Production of the Appalachian Mountains  

SciTech Connect (OSTI)

The gradients of the Appalachian Mountains in elevations and latitudes provide a unique regional perspective of landscape variations in the eastern United States and a section of the southeastern Canada. This study reveals patterns and trends of landscape dynamics, land surface phenology and ecosystem production along the Appalachian Mountains using time series data from Global Inventory Modeling and Mapping Studies (GIMMS) and AVHRR Global Production Efficiency Model (GloPEM) datasets. We analyzed the spatial and temporal patterns of Normalized Difference Vegetation Index (NDVI), length of growing season (LOS) and net primary production (NPP) of selected ecoregions along the Appalachian Mountains regions. We compared the results out of the Appalachian Mountains regions in different spatial contexts including the North America and the Appalachian Trail corridor area. To reveal latitudinal variations we analyzed data and compared the results between 30N-40N and 40N-50N latitudes. The result revealed significant decreases in annual peak NDVI in the Appalachian Mountains regions. The trend for the Appalachian Mountains regions was -0.0018 (R2=0.55, P<0.0001) NDVI unit decrease per year during 25 years between 1982 and 2006. The LOS had prolonged 0.3 day yr-1 during 25 years over the Appalachian Mountains regions. The NPP increased by 2.68 gC m-2yr-2 in Appalachian Mountains regions from 1981 to 2000. The comparison with the North America reveals the effects of topography and ecosystem compositions of the Appalachian Mountains. The comparison with the Appalachian Trail corridor area provides a regional mega-transect view of the measured variables.

Wang, Yeqiao; Zhao, Jianjun; Zhou, Yuyu; Zhang, Hongyan

2012-12-15T23:59:59.000Z

68

Petaflop Computing for Protein Folding  

E-Print Network [OSTI]

"SIAM01p 2000/12/4 page 1 Petaflop Computing for Protein Folding Shannon K. Kuntz, Richard C. Murphy, Michael T. Niemier, Jesus Izaguirre, and Peter M. Kogge 1 Introduction Protein Folding the protein folding problem, while Silicon Graphics has been continually working to produce more powerful

Izaguirre, Jesús A.

69

Computer Simulations of Protein Folding  

E-Print Network [OSTI]

CHAPTER 8 Computer Simulations of Protein Folding VIJAY S. PANDE , ERIC J. SORIN , CHRISTOPHER D, CA 94305, USA 8.1 Introduction: Goals and Challenges of Simulating Protein Folding Computer as well as recent applications of this methodology. 8.1.1 Simulating Protein Folding Proteins play

Sorin, Eric J.

70

Theoretical Perspectives on Protein Folding  

E-Print Network [OSTI]

Theoretical Perspectives on Protein Folding D. Thirumalai,1 Edward P. O'Brien,2 Greg Morrison,3 Understanding how monomeric proteins fold under in vitro conditions is crucial to describing their functions remains to be done to solve the protein folding problem in the broadest sense. 159 Annu.Rev.Biophys.2010

Thirumalai, Devarajan

71

Folding and binding Editorial overview  

E-Print Network [OSTI]

is on the study of how protein folding, unfolding and aggregation reactions commence, and on the study of California, Berkeley. Her lab focuses on studies of protein folding and dynamics. Currently she­based kinetics. Much of the progress that has been made in the past fifty years in the study of protein folding

72

Protein folding in the ER.  

SciTech Connect (OSTI)

The endoplasmic reticulum (ER) is a major protein folding compartment for secreted, plasma membrane and organelle proteins. Each of these newly-synthesized polypeptides folds in a deterministic process, affected by the unique conditions that exist in the ER. An understanding of protein folding in the ER is a fundamental biomolecular challenge at two levels. The first level addresses how the amino acid sequence programs that polypeptide to efficiently arrive at a particular fold out of a multitude of alternatives, and how different sequences obtain similar folds. At the second level are the issues introduced by folding not in the cytosol, but in the ER, including the risk of aggregation in a molecularly crowded environment, accommodation of post-translational modifications and the compatibility with subsequent intracellular trafficking. This review discusses both the physicochemical and cell biological constraints of folding, which are the challenges that the ER molecular chaperones help overcome.

Stevens, F. J.; Argon, Y.; Biosciences Division; Univ. of Chicago

1999-10-01T23:59:59.000Z

73

Eastern Overthrust Belt. Signs of a hoped-for awakening  

SciTech Connect (OSTI)

Exploration for oil and gas is on the upswing in the SW Virginia sector of the Eastern Overthrust Belt in the 200-mile long portion between Lee and Montgomery Counties. In the past several months one new oil field has been opened and the area's only gas field has been revived after lying idle for 23 yr. These signs of a hoped-for awakening have been accompanied by an intense leasing program by many oil companies. This review is confined to the geology of the strongly folded and faulted area of SW Virginia. In the Overthrust area, early studies indicated that oil would be found only in portions of Lee and Scott Counties, and that other areas would contain only natural gas because of the greater intensity of regional metamorphism. Drilling so far has confirmed these forecasts. This study will be divided in a similar manner.

Bartlett, C.S. Jr.; Biggs, T.H.

1982-06-01T23:59:59.000Z

74

Electric filter with movable belt electrode  

DOE Patents [OSTI]

A method and apparatus for removing airborne contaminants entrained in a gas or airstream includes an electric filter characterized by a movable endless belt electrode, a grounded electrode, and a filter medium sandwiched there between. Inclusion of the movable, endless belt electrode provides the driving force for advancing the filter medium through the filter, and reduces frictional drag on the filter medium, thereby permitting a wide choice of filter medium materials. Additionally, the belt electrode includes a plurality of pleats in order to provide maximum surface area on which to collect airborne contaminants. 4 figs.

Bergman, W.

1983-09-20T23:59:59.000Z

75

Theoretical Perspectives on Protein Folding  

E-Print Network [OSTI]

Understanding how monomeric proteins fold under in vitro conditions is crucial to describing their functions in the cellular context. Significant advances both in theory and experiments have resulted in a conceptual framework for describing the folding mechanisms of globular proteins. The experimental data and theoretical methods have revealed the multifaceted character of proteins. Proteins exhibit universal features that can be determined using only the number of amino acid residues (N) and polymer concepts. The sizes of proteins in the denatured and folded states, cooperativity of the folding transition, dispersions in the melting temperatures at the residue level, and time scales of folding are to a large extent determined by N. The consequences of finite N especially on how individual residues order upon folding depends on the topology of the folded states. Such intricate details can be predicted using the Molecular Transfer Model that combines simulations with measured transfer free energies of protein building blocks from water to the desired concentration of the denaturant. By watching one molecule fold at a time, using single molecule methods, the validity of the theoretically anticipated heterogeneity in the folding routes, and the N-dependent time scales for the three stages in the approach to the native state have been established. Despite the successes of theory, of which only a few examples are documented here, we conclude that much remains to be done to solve the "protein folding problem" in the broadest sense.

D. Thirumalai; Edward P. O'Brien; Greg Morrison; Changbong Hyeon

2010-07-18T23:59:59.000Z

76

A Novel Topology for Representing Protein Folds  

E-Print Network [OSTI]

J. (2008). Predicting protein folding rates from geometric1993). Cooperativity in protein-folding kinetics. Proc NatlVoelz VA. (2007). The protein folding problem: when will it

Segal, Mark R

2009-01-01T23:59:59.000Z

77

Uncovering Allostery in a Uniquely Folded Metalloprotein /  

E-Print Network [OSTI]

M (2005) Downhill protein folding: evolution meets physics.based models for protein folding and function. Proteins:48-51). This is because protein folding and protein function

Baxter, Elizabeth Leigh

2013-01-01T23:59:59.000Z

78

Graphene folding on flat substrates  

SciTech Connect (OSTI)

We present a combined experimental-theoretical study of graphene folding on flat substrates. The structure and deformation of the folded graphene sheet are experimentally characterized by atomic force microscopy. The local graphene folding behaviors are interpreted based on nonlinear continuum mechanics modeling and molecular dynamics simulations. Our study on self-folding of a trilayer graphene sheet reports a bending stiffness of about 6.57?eV, which is about four times the reported values for monolayer graphene. Our results reveal that an intriguing free sliding phenomenon occurs at the interlayer van der Waals interfaces during the graphene folding process. This work demonstrates that it is a plausible venue to quantify the bending stiffness of graphene based on its self-folding conformation on flat substrates. The findings reported in this work are useful to a better understanding of the mechanical properties of graphene and in the pursuit of its applications.

Chen, Xiaoming; Zhao, Yadong; Ke, Changhong, E-mail: cke@binghamton.edu [Department of Mechanical Engineering, State University of New York at Binghamton, Binghamton, New York 13902 (United States); Zhang, Liuyang; Wang, Xianqiao [College of Engineering, University of Georgia, Athens, Georgia 30602 (United States)

2014-10-28T23:59:59.000Z

79

Seat Belt Use Policy Outline the policy regarding use of seat belt in University of Michigan (U-M) vehicles.  

E-Print Network [OSTI]

Seat Belt Use Policy Objective Outline the policy regarding use of seat belt in University of Michigan (U-M) vehicles. Vehicle Use Policy 1. Staff members are responsible to operate U-M vehicles are adhering to the seat belt use laws when operating a U-M vehicle. 3. State of Michigan seat belt laws

Kirschner, Denise

80

A study of binary Kuiper Belt objects  

E-Print Network [OSTI]

About 105 bodies larger than 100km in diameter (Jewitt 1998) reside in the Kuiper Belt, beyond the orbit of Neptune. Since 1992 observational surveys have discovered over one thousand of these objects, believed to be fossil ...

Kern, Susan Diane

2006-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


81

Kepler and the Kuiper Belt  

E-Print Network [OSTI]

The proposed field-of-view of the Kepler mission is at an ecliptic latitude of ~55 degrees, where the surface density of scattered Kuiper Belt Objects (KBOs) is a few percent that in the ecliptic plane. The rate of occultations of Kepler target stars by scattered KBOs with radii r>10km is ~10^-6 to 10^-4 per star per year, where the uncertainty reflects the current ignorance of the thickness of the scattered KBO disk and the faint-end slope of their magnitude distribution. These occultation events will last only ~0.1% of the planned t_exp=15 minute integration time, and thus will appear as single data points that deviate by tiny amounts. However, given the target photometric accuracy of Kepler, these deviations will nevertheless be highly significant, with typical signal-to-noise ratios of ~10. I estimate that 1-20 of the 10^5 main-sequence stars in Kepler's field-of-view will exhibit detectable occultations during its four-year mission. For unresolved events, the signal-to-noise of individual occultations scales as t_exp^{-1/2}, and the minimum detectable radius could be decreased by an order of magnitude to ~1 km by searching the individual 3-second readouts for occultations. I propose a number of methods by which occultation events may be differentiated from systematic effects. Kepler should measure or significantly constrain the frequency of highly-inclined, ~10 km-sized KBOs.

B. Scott Gaudi

2004-04-20T23:59:59.000Z

82

Structure and evolution of the active fold and thrust belt of southwestern Taiwan using GPS geodesy  

E-Print Network [OSTI]

the westernmost exposed thrusts in this area (Figs. 3 and 4). The Chukou fault terminates to the north at the Chuchi uunsverse fault, and to the south is inferred to merge, and transfer displacement with, the Lunhou fault (Lin, 1996) just east of the Nanliao... surveys were then conducted in early 1996 and 1997 across the island using both these new monuments and pre-existing ones. These surveys were conducted with survey-grade GPS receivers on 4 to 12 sites simultaneously, with an average site occupation time...

Hickman, John Bibb

2012-06-07T23:59:59.000Z

83

appalachian studies uniVeRsitY OF KentucKY  

E-Print Network [OSTI]

progress policy rural heritage humor democracy appalachian studies uniVeRsitY OF KentucKY a land about· NASA· Diego Gutiérrez 1562 Map of America·1888 Map, Lexington, Kentucky, C.J. Pauli (detail: State College of Kentucky). Cover QUotAtioNS: John C. Campbell, The Southern Highlander and His Homeland

MacAdam, Keith

84

CHARACTERIZATION OF CENTRAL APPALACHIAN BASIN CBM DEVELOPMENT: POTENTIAL FOR CARBON SEQUESTRATION  

E-Print Network [OSTI]

of the carbon sequestration potential of the Pennsylvanian-age coalbeds in the Central Appalachian Basin favorable reservoirs for carbon sequestration due to their thickness, depth, rank, and permeability high gas content should provide the optimum reservoirs for carbon sequestration since these coals

85

Fast events in protein folding  

SciTech Connect (OSTI)

The primary objective of this work was to develop a molecular understanding of how proteins achieve their native three-dimensional (folded) structures. This requires the identification and characterization of intermediates in the protein folding process on all relevant timescales, from picoseconds to seconds. The short timescale events in protein folding have been entirely unknown. Prior to this work, state-of-the-art experimental approaches were limited to milliseconds or longer, when much of the folding process is already over. The gap between theory and experiment is enormous: current theoretical and computational methods cannot realistically model folding processes with lifetimes longer than one nanosecond. This unique approach to employ laser pump-probe techniques that combine novel methods of laser flash photolysis with time-resolved vibrational spectroscopic probes of protein transients. In this scheme, a short (picosecond to nanosecond) laser photolysis pulse was used to produce an instantaneous pH or temperature jump, thereby initiating a protein folding or unfolding reaction. Structure-specific, time-resolved vibrational probes were then used to identify and characterize protein folding intermediates.

Woodruff, W.; Callender, R.; Causgrove, T.; Dyer, R.; Williams, S.

1996-04-01T23:59:59.000Z

86

The Influence of Fire and Other Disturbance on Ericaceous Shrubs in Xeric Pine-Oak Forests of the Appalachian Mountains  

E-Print Network [OSTI]

Fire suppression in the southern and central Appalachian Mountains has resulted in an alteration to vegetation structure and composition. For this research the dominant species, abundance, density and age structure of the ericaceous shrub layer...

Pipkin, Ashley

2012-07-16T23:59:59.000Z

87

The Geology of North America Vol. F-2, The Appalachian-OuachitaOrogen in the United States  

E-Print Network [OSTI]

- ing of the orogen are given in two other volumes in this series: Vogt and Tucholke (1986) and Sheridan., and Viele, G. W., eds., The Appalachian-Oachita Orogen in the United States: Boulder, Colorado, Geological

Olsen, Paul E.

88

Assessment of undiscovered carboniferous coal-bed gas resources of the Appalachian Basin and Black Warrior Basin Provinces, 2002  

SciTech Connect (OSTI)

Coalbed methane (CBM) occurs in coal beds of Mississippian and Pennsylvanian (Carboniferous) age in the Appalachian basin, which extends almost continuously from New York to Alabama. In general, the basin includes three structural subbasins: the Dunkard basin in Pennsylvania, Ohio, and northern West Virginia; the Pocahontas basin in southern West Virginia, eastern Kentucky, and southwestern Virginia; and the Black Warrior basin in Alabama and Mississippi. For assessment purposes, the Appalachian basin was divided into two assessment provinces: the Appalachian Basin Province from New York to Alabama, and the Black Warrior Basin Province in Alabama and Mississippi. By far, most of the coalbed methane produced in the entire Appalachian basin has come from the Black Warrior Basin Province. 8 refs., 1 fig., 1 tab.

Milici, R.C.; Hatch, J.R.

2004-09-15T23:59:59.000Z

89

Simulating Historic Landscape Patterns of Fire in the Southern Appalachian Mountains: Implications for Fire History and Management  

E-Print Network [OSTI]

Fire suppression policies implemented in the early 20th century led to a decrease in fire-associated species and ecosystems in the southern Appalachian Mountains. As managers work towards restoration, a greater understanding of the pre...

Gass, Ellen R

2014-05-21T23:59:59.000Z

90

Post-fire recovery and successional dynamics of an old growth red spruce forest in the southern Appalachian Mountains  

E-Print Network [OSTI]

of fire in a mesic ecosystem, specifically a high-elevation red spruce (Picea rubens Sarg.) forest on Whitetop Mountain in the southern Appalachian Mountains. Six plots were established in a high elevation red spruce stand to characterize the stand...

Krustchinsky, Adam R.

2009-05-15T23:59:59.000Z

91

Protein Folding Sculpting Evolutionary Change  

E-Print Network [OSTI]

Our work suggests that the forces that govern protein folding exert a profound effect on how genotypes are translated into phenotypes and that this in turn has strong effects on evolutionary processes. Molecular chaperones, ...

Lindquist, Susan

92

Characterization of protein folding intermediates  

SciTech Connect (OSTI)

The three-dimensional structure of a protein is encoded in its linear sequence of amino acids. Studies of protein folding are aimed at understanding the nature of this code which translates one-dimensional information to three-dimensions. It is now well-established that protein folding intermediates exist and can be populated significantly under some conditions. A method to characterize kinetic folding intermediates is described. The method takes advantage of the decrease in exchange rates between amide protons (i.e., peptide backbone NH) and solvent water protons, when the amide proton is involved in structure. The feasibility of using amide proton exchange to pulse-label proteins during folding has been demonstrated using (/sup 3/H)-H/sub 2/O. The results with ribonuclease A (RNase A) support a framework model for folding, in which the secondary structure of a protein is formed before tertiary structure changes are complete. Extension of these studies using NMR should permit characterization of early secondary structure folding frameworks.

Kim, P.S.

1986-01-01T23:59:59.000Z

93

VP 100: Brevini Wind Factory Helps Rust Belt Town's Economy ...  

Energy Savers [EERE]

VP 100: Brevini Wind Factory Helps Rust Belt Town's Economy VP 100: Brevini Wind Factory Helps Rust Belt Town's Economy October 5, 2010 - 10:00am Addthis Brevini Wind is building a...

94

Introduction to Grid computing Protein folding  

E-Print Network [OSTI]

Introduction to Grid computing Protein folding Protein folding is an extremely hot topic in medical research these days, unfortunately protein folding is extremely computationally demanding and requires a huge supercomputer to fold even the simplest proteins. Luckily the task of calculating protein foldings

Boyar, Joan

95

A motion planning approach to protein folding  

E-Print Network [OSTI]

Protein folding is considered to be one of the grand challenge problems in biology. Protein folding refers to how a protein's amino acid sequence, under certain physiological conditions, folds into a stable close-packed three-dimensional structure...

Song, Guang

2004-09-30T23:59:59.000Z

96

Six Sigma Black Belts Fight For Quality  

E-Print Network [OSTI]

Six Sigma Black Belts Fight For Quality Ron Scott Ross Finnestad Rodney Kalsow IE 361 mini-paper 9/22/00 #12;Six Sigma is a breakthrough management strategy that is revolutionizing the world's top corporations. So what is Six Sigma? "It is a business process that allows companies to drastically improve

Vardeman, Stephen B.

97

Sedimentology of gas-bearing Devonian shales of the Appalachian Basin  

SciTech Connect (OSTI)

The Eastern Gas Shales Project (1976-1981) of the US DOE has generated a large amount of information on Devonian shale, especially in the western and central parts of the Appalachian Basin (Morgantown Energy Technology Center, 1980). This report summarizes this information, emphasizing the sedimentology of the shales and how it is related to gas, oil, and uranium. This information is reported in a series of statements each followed by a brief summary of supporting evidence or discussion and, where interpretations differ from our own, we include them. We believe this format is the most efficient way to learn about the gas-bearing Devonian shales of the Appalachian Basin and have organized our statements as follows: paleogeography and basin analysis; lithology and internal stratigraphy; paleontology; mineralogy, petrology, and chemistry; and gas, oil, and uranium.

Potter, P.E.; Maynard, J.B.; Pryor, W.A.

1981-01-01T23:59:59.000Z

98

Appalachian Clean Coal Technology Consortium. Technical progress report, January 1--March 31, 1996  

SciTech Connect (OSTI)

The Appalachian Clean Coal Technology Consortium has been established to help U.S. Coal producers, particularly those in the Appalachian region, increase the production of lower-sulfur coal. In keeping with the recommendations of the Advisory Committee, first-year R&D activities are focused on two areas of research: fine coal dewatering and modeling of spirals. The industry representatives to the Consortium identified fine coal dewatering as the most needed area of technology development. Dewatering studies are conducted by Virginia Tech`s Center for Coal and Minerals Processing. A spiral model will be developed by West Virginia University. The research to be performed by the University of Kentucky has recently been defined as: A Study of Novel Approaches for Destabilization of Flotation Froth. Accomplishments to date of these three projects are presented in this report.

NONE

1996-05-23T23:59:59.000Z

99

Simulation of CO2 Sequestration and Enhanced Coalbed Methane Production in Multiple Appalachian Basin Coal Seams  

SciTech Connect (OSTI)

A DOE-funded field injection of carbon dioxide is to be performed in an Appalachian Basin coal seam by CONSOL Energy and CNX Gas later this year. A preliminary analysis of the migration of CO2 within the Upper Freeport coal seam and the resulting ground movements has been performed on the basis of assumed material and geometric parameters. Preliminary results show that ground movements at the field site may be in a range that are measurable by tiltmeter technology.

Bromhal, G.S.; Siriwardane, H.J.; Gondle, R.K.

2007-11-01T23:59:59.000Z

100

Dominant Pathways in Protein Folding  

E-Print Network [OSTI]

We present a method to investigate the kinetics of protein folding on a long time-scale and the dynamics underlying the formation of secondary and tertiary structures during the entire reaction. The approach is based on the formal analogy between thermal and quantum diffusion: by writing the solution of the Fokker-Planck equation for the time-evolution of a protein in a viscous heat-bath in terms of a path integral, we derive a Hamilton-Jacobi variational principle from which we are able to compute the most probable pathway of folding. The method is applied to the folding of the Villin Headpiece Subdomain, in the framework of a Go-model. We have found that, in this model, the transition occurs through an initial collapsing phase driven by the starting coil configuration and a later rearrangement phase, in which secondary structures are formed and all computed paths display strong similarities. This method is completely general, does not require the prior knowledge of any reaction coordinate and represents an efficient tool to perfom ab-initio simulations of the entire folding process with available computers.

P. Faccioli; M. Sega; F. Pederiva; H. Orland

2006-07-27T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


101

Disulfide-Linked Protein Folding Pathways  

E-Print Network [OSTI]

Disulfide-Linked Protein Folding Pathways Bharath S. Mamathambika1,3 and James C. Bardwell2,3, 1 of protein folding is difficult because it involves the identification and characterization of folding to protein folding in vitro and in vivo. 211 Click here for quick links to Annual Reviews content online

Bardwell, James

102

Protein folding using contact maps  

E-Print Network [OSTI]

We present the development of the idea to use dynamics in the space of contact maps as a computational approach to the protein folding problem. We first introduce two important technical ingredients, the reconstruction of a three dimensional conformation from a contact map and the Monte Carlo dynamics in contact map space. We then discuss two approximations to the free energy of the contact maps and a method to derive energy parameters based on perceptron learning. Finally we present results, first for predictions based on threading and then for energy minimization of crambin and of a set of 6 immunoglobulins. The main result is that we proved that the two simple approximations we studied for the free energy are not suitable for protein folding. Perspectives are discussed in the last section.

Michele Vendruscolo; Eytan Domany

1999-01-21T23:59:59.000Z

103

Polymer Uncrossing and Knotting in Protein Folding, and Their Role in Minimal Folding Pathways  

E-Print Network [OSTI]

Polymer Uncrossing and Knotting in Protein Folding, and Their Role in Minimal Folding Pathways Ali induce dominant pathway mechanisms in protein folding. Citation: Mohazab AR, Plotkin SS (2013) Polymer Uncrossing and Knotting in Protein Folding, and Their Role in Minimal Folding Pathways. PLoS ONE 8(1): e53642

Plotkin, Steven S.

104

Corn Belt Energy Corporation- Residential Energy Efficiency Rebate Program  

Broader source: Energy.gov [DOE]

Corn Belt Energy Corporation (CBEC), in association with the Wabash Valley Power Association, provides its customers with the "Power Moves" energy efficiency rebate program. Through this program,...

105

Magnetic refrigeration apparatus with belt of ferro or paramagnetic material  

DOE Patents [OSTI]

A magnetic refrigerator operating in the 12 to 77 K range utilizes a belt which carries ferromagnetic or paramagnetic material and which is disposed in a loop which passes through the center of a solenoidal magnet to achieve cooling. The magnetic material carried by the belt, which can be blocks in frames of a linked belt, can be a mixture of substances with different Curie temperatures arranged such that the Curie temperatures progressively increase from one edge of the belt to the other. This magnetic refrigerator can be used to cool and liquefy hydrogen or other fluids.

Barclay, J.A.; Stewart, W.F.; Henke, M.D.; Kalash, K.E.

1986-04-03T23:59:59.000Z

106

Magnetic refrigeration apparatus with belt of ferro or paramagnetic material  

DOE Patents [OSTI]

A magnetic refrigerator operating in the 12 to 77K range utilizes a belt which carries ferromagnetic or paramagnetic material and which is disposed in a loop which passes through the center of a solenoidal magnet to achieve cooling. The magnetic material carried by the belt, which can be blocks in frames of a linked belt, can be a mixture of substances with different Curie temperatures arranged such that the Curie temperatures progressively increase from one edge of the belt to the other. This magnetic refrigerator can be used to cool and liquefy hydrogen or other fluids.

Barclay, John A. (Madison, WI); Stewart, Walter F. (Marshall, WI); Henke, Michael D. (Los Alamos, NM); Kalash, Kenneth E. (Los Alamos, NM)

1987-01-01T23:59:59.000Z

107

Folding pathway of a lattice model for protein folding Vijay S. Pande1  

E-Print Network [OSTI]

Folding pathway of a lattice model for protein folding Vijay S. Pande1 and Daniel S. Rokhsar1 principles that describe protein folding, then one might expect them to apply to simplified models

Croquette, Vincent

108

Investigating Protein Folding and Function by Manipulating Rare and Partially-Folded Conformations  

E-Print Network [OSTI]

Are there pathways for protein folding. J Chim Phys, 1968.p. Dobson, C.M. , Protein folding and misfolding. Nature,Bai, Y. , et al. , Protein folding intermediates: native-

Horner, Geoffrey Ashworth

2010-01-01T23:59:59.000Z

109

Parametric analysis of RNA folding  

E-Print Network [OSTI]

We extend recent methods for parametric sequence alignment to the parameter space for scoring RNA folds. This involves the construction of an RNA polytope. A vertex of this polytope corresponds to RNA secondary structures with common branching. We use this polytope and its normal fan to study the effect of varying three parameters in the free energy model that are not determined experimentally. Our results indicate that variation of these specific parameters does not have a dramatic effect on the structures predicted by the free energy model. We additionally map a collection of known RNA secondary structures to the RNA polytope.

Hower, Valerie

2009-01-01T23:59:59.000Z

110

1. THE RADIATION BELTS The outer zone radiation belts consist of energetic elec-  

E-Print Network [OSTI]

a variety of time scales. There is a noted association between solar wind speed and relativistic elec- tron and external processes. This paper reviews what is currently understood of the interactions between energetic, A Review of ULF Interactions with Radiation Belt Electrons Scot R. Elkington Laboratory for Atmospheric

Elkington, Scot R.

111

Topology to geometry in protein folding: -Lactoglobulin  

E-Print Network [OSTI]

Topology to geometry in protein folding: -Lactoglobulin Ariel Ferna´ndez* , Andre´s Colubri , and R angles and at the -carbon atoms of the peptide backbone dominate protein folding. Next in importance

Berry, R. Stephen

112

Feasibility study of heavy oil recovery in the Appalachian, Black Warrior, Illinois, and Michigan basins  

SciTech Connect (OSTI)

This report is one of a series of publications assessing the feasibility of increasing domestic heavy oil production. Each report covers select areas of the United States. The Appalachian, Black Warrior, Illinois, and Michigan basins cover most of the depositional basins in the Midwest and Eastern United States. These basins produce sweet, paraffinic light oil and are considered minor heavy oil (10{degrees} to 20{degrees} API gravity or 100 to 100,000 cP viscosity) producers. Heavy oil occurs in both carbonate and sandstone reservoirs of Paleozoic Age along the perimeters of the basins in the same sediments where light oil occurs. The oil is heavy because escape of light ends, water washing of the oil, and biodegradation of the oil have occurred over million of years. The Appalachian, Black Warrior, Illinois, and Michigan basins` heavy oil fields have produced some 450,000 bbl of heavy oil of an estimated 14,000,000 bbl originally in place. The basins have been long-term, major light-oil-producing areas and are served by an extensive pipeline network connected to refineries designed to process light sweet and with few exceptions limited volumes of sour or heavy crude oils. Since the light oil is principally paraffinic, it commands a higher price than the asphaltic heavy crude oils of California. The heavy oil that is refined in the Midwest and Eastern US is imported and refined at select refineries. Imports of crude of all grades accounts for 37 to >95% of the oil refined in these areas. Because of the nature of the resource, the Appalachian, Black Warrior, Illinois and Michigan basins are not expected to become major heavy oil producing areas. The crude oil collection system will continue to degrade as light oil production declines. The demand for crude oil will increase pipeline and tanker transport of imported crude to select large refineries to meet the areas` liquid fuels needs.

Olsen, D.K.; Rawn-Schatzinger, V.; Ramzel, E.B.

1992-07-01T23:59:59.000Z

113

Feasibility study of heavy oil recovery in the Appalachian, Black Warrior, Illinois, and Michigan basins  

SciTech Connect (OSTI)

This report is one of a series of publications assessing the feasibility of increasing domestic heavy oil production. Each report covers select areas of the United States. The Appalachian, Black Warrior, Illinois, and Michigan basins cover most of the depositional basins in the Midwest and Eastern United States. These basins produce sweet, paraffinic light oil and are considered minor heavy oil (10{degrees} to 20{degrees} API gravity or 100 to 100,000 cP viscosity) producers. Heavy oil occurs in both carbonate and sandstone reservoirs of Paleozoic Age along the perimeters of the basins in the same sediments where light oil occurs. The oil is heavy because escape of light ends, water washing of the oil, and biodegradation of the oil have occurred over million of years. The Appalachian, Black Warrior, Illinois, and Michigan basins' heavy oil fields have produced some 450,000 bbl of heavy oil of an estimated 14,000,000 bbl originally in place. The basins have been long-term, major light-oil-producing areas and are served by an extensive pipeline network connected to refineries designed to process light sweet and with few exceptions limited volumes of sour or heavy crude oils. Since the light oil is principally paraffinic, it commands a higher price than the asphaltic heavy crude oils of California. The heavy oil that is refined in the Midwest and Eastern US is imported and refined at select refineries. Imports of crude of all grades accounts for 37 to >95% of the oil refined in these areas. Because of the nature of the resource, the Appalachian, Black Warrior, Illinois and Michigan basins are not expected to become major heavy oil producing areas. The crude oil collection system will continue to degrade as light oil production declines. The demand for crude oil will increase pipeline and tanker transport of imported crude to select large refineries to meet the areas' liquid fuels needs.

Olsen, D.K.; Rawn-Schatzinger, V.; Ramzel, E.B.

1992-07-01T23:59:59.000Z

114

Appalachian Rivers II Conference: Technology for Monitoring, Assessing, and Restoring Streams, Rivers, and Watersheds  

SciTech Connect (OSTI)

On July 28-29, 1999, the Federal Energy Technology Center (FETC) and the WMAC Foundation co-sponsored the Appalachian Rivers II Conference in Morgantown, West Virginia. This meeting brought together over 100 manufacturers, researchers, academicians, government agency representatives, watershed stewards, and administrators to examine technologies related to watershed assessment, monitoring, and restoration. Sessions included presentations and panel discussions concerning watershed analysis and modeling, decision-making considerations, and emerging technologies. The final session examined remediation and mitigation technologies to expedite the preservation of watershed ecosystems.

None available

1999-07-29T23:59:59.000Z

115

Patterns of Genetic Variation in Southern Appalachian Populations of Athyrium filix?femina var. asplenioides (Dryopteridaceae)  

E-Print Network [OSTI]

polymorphic if the frequency of the most common allele does not exceed 0.95. b Unbiased estimate (see Nei 1978). 769SCIARRETTA ET AL.ALLOZYMES OF APPALACHIAN ATHYRIUM This content downloaded from 129.237.46.100 on Thu, 11 Sep 2014 15:09:49 PM All use subject... species involves a combination of sex- ual and vegetative reproduction, resulting in challenges to defining and recognizing genetic individuals for population genetic analysis (Cook 1983; Ellstrand and Roose 1987; Wolf et al. 1991; Parks and Werth 1993...

Sciarretta, Kimberly L.; Arbuckle, Erin Potter; Haufler, Christopher H.; Werth, Charles R.

2005-09-01T23:59:59.000Z

116

EXPLORING PROTEIN FOLDING TRAJECTORIES USING GEOMETRIC SPANNERS  

E-Print Network [OSTI]

EXPLORING PROTEIN FOLDING TRAJECTORIES USING GEOMETRIC SPANNERS D. RUSSEL and L. GUIBAS Computer of secondary and tertiary structures as the protein folds. 1 Introduction There has been extensive work understanding of protein folding by studying their ensemble behaviors. Most currently used methods

Guibas, Leonidas J.

117

Statistical Physics of RNA folding Ralf Bundschuh  

E-Print Network [OSTI]

Statistical Physics of RNA folding Ralf Bundschuh Ohio State University August 15, 2007 Ralf Bundschuh (Ohio State University) Statistical Physics of RNA folding August 15, 2007 1 / 119 #12;Outline University) Statistical Physics of RNA folding August 15, 2007 2 / 119 #12;Part I Introduction to RNA biology

Bundschuh, Ralf

118

UNCORRECTED 3 Protein folding: Then and now  

E-Print Network [OSTI]

UNCORRECTED PROOF 1 2 Review 3 Protein folding: Then and now 4 Yiwen Chen 1 , Feng Ding 1 , Huifen 8 9 Abstract 10 Over the past three decades the protein folding field has undergone monumental changes. Originally a purely academic question, how 11 a protein folds has now become vital

Dokholyan, Nikolay V.

119

272 Dispatch Protein folding: Chaperones get Hip  

E-Print Network [OSTI]

272 Dispatch Protein folding: Chaperones get Hip Thomas Ziegelhoffer, Jill L. Johnson and Elizabeth the complexity of the Hsp70 `chaperone machine' that mediates early steps of protein folding in cells. Address of protein folding and translocation through their ability to recognize non-native conformations of proteins

Craig, Elizabeth A

120

Protein folding: not just another optimization  

E-Print Network [OSTI]

Protein folding: not just another optimization problem Kevin Karplus karplus of California, Santa Cruz protein-folding: not just opt ­ p.1/68 #12;Outline of Talk What is Bioinformatics initio" methods Contact prediction protein-folding: not just opt ­ p.2/68 #12;What is Bioinformatics

Karplus, Kevin

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


121

Atomistic Protein Folding Simulations on the  

E-Print Network [OSTI]

Atomistic Protein Folding Simulations on the Submillisecond Time Scale Using Worldwide Distributed Abstract: Atomistic simulations of protein folding have the potential to be a great complement. Biopolymers 68: 91­109, 2003 Keywords: atomistic protein folding; microsecond time scale; computer hardware

Snow, Christopher

122

Thermodynamics of Protein Folding Erik Sandelin  

E-Print Network [OSTI]

Thermodynamics of Protein Folding and Design Erik Sandelin Department of Theoretical Physics Lund Sölvegatan 14A 223 62 LUND September 2000 Erik Sandelin Thermodynamics of Protein Folding and Design The protein folding and protein design problems are addressed, using coarse-grained models with only two types

Sandelin, Erik

123

Approximate Inference and Protein-Folding  

E-Print Network [OSTI]

Approximate Inference and Protein-Folding Chen Yanover and Yair Weiss School of Computer Science Side-chain prediction is an important subtask in the protein-folding problem. We show that #12;nding algorithms, including a widely used protein-folding software (SCWRL). 1 Introduction Inference in graphical

Weiss, Yair

124

THE INFLUENCE OF FOLD AND FRACTURE DEVELOPMENT ON RESERVOIR BEHAVIOR OF THE LISBURNE GROUP OF NORTHERN ALASKA  

SciTech Connect (OSTI)

The Lisburne Group is a major carbonate reservoir unit in northern Alaska. The Lisburne is detachment folded where it is exposed throughout the northeastern Brooks Range, but is relatively undeformed in areas of current production in the subsurface of the North Slope. The objectives of this study are to develop a better understanding of four major aspects of the Lisburne: (1) The geometry and kinematics of detachment folds and their truncation by thrust faults. (2) The influence of folding and lithostratigraphy on fracture patterns. (3) Lithostratigraphy and its influence on folding, faulting, fracturing, and reservoir characteristics. (4) The influence of lithostratigraphy and deformation on fluid flow. The results of field work during the summer of 1999 offer some preliminary insights: The Lisburne Limestone displays a range of symmetrical detachment fold geometries throughout the northeastern Brooks Range. The variation in fold geometry suggests a generalized progression in fold geometry with increasing shortening: Straight-limbed, narrow-crested folds at low shortening, box folds at intermediate shortening, and folds with a large height-to-width ratio and thickened hinges at high shortening. This sequence is interpreted to represent a progressive change in the dominant shortening mechanism from flexural-slip at low shortening to bulk strain at higher shortening. Structural variations in bed thickness occur throughout this progression. Parasitic folding accommodates structural thickening at low shortening and is gradually succeeded by penetrative strain as shortening increases. The amount of structural thickening at low to intermediate shortening may be inversely related to the local amount of structural thickening of the Kayak Shale, the incompetent unit that underlies the Lisburne. The Lisburne Limestone displays a different structural style in the south, across the boundary between the northeastern Brooks Range and the main axis of the Brooks Range fold-and-thrust belt. The steep forelimbs of angular asymmetrical folds typically have been cut and displaced by thrust faults, resulting in superposition of a fault-bend fold geometry on the truncated folds. Remnant uncut folds within trains of thrust-truncated folds and the predominance of detachment folds to the north suggest that these folds originated as detachment folds. Fold asymmetry and a more uniformly competent Lisburne Limestone may have favored accommodation of a significant proportion of shortening by thrust faulting, in contrast with the dominance of fold shortening to the north. Two dominant sets of fractures are present in the least deformed Lisburne Limestone: Early extension fractures normal to the regional fold trend and late extension and shear fractures parallel to the regional fold trend. These two major fracture sets remain as deformation increases, but they are more variable in orientation, character, and relative age. Compared to fold limbs, the fold hinges display greater density and extent of fractures, more conjugate and shear fractures, and more evidence of penetrative strain. This suggests that hinges remained fixed during fold growth. Late extension fractures normal to the fold axis are common even where penetrative strain is greatest. Fracture density is greater in fine-grained carbonates than in coarse-grained carbonates over the entire spectrum of deformation.

Wesley K. Wallace; Catherine L. Hanks; Michael T. Whalen; Jerry Jensen; Paul K. Atkinson; Joseph S. Brinton

2000-05-01T23:59:59.000Z

125

Introducing Protein Folding Using Simple Models  

E-Print Network [OSTI]

We discuss recent theoretical developments in the study of simple lattice models of proteins. Such models are designed to understand general features of protein structures and mechanism of folding. Among the topics covered are (i) the use of lattice models to understand the selection of the limited set of viable protein folds; (ii) the relationship between structure and sequence spaces; (iii) the application of lattice models for studying folding mechanisms (topological frustration, kinetic partitioning mechanism). Classification of folding scenarios based on the intrinsic thermodynamic properties of a sequence (namely, the collapse and folding transition temperatures) is outlined. A brief discussion of random heteropolymer model is also presented.

D. Thirumalai; D. K. Klimov

2001-01-04T23:59:59.000Z

126

E-Print Network 3.0 - ailaoshan gold belt Sample Search Results  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Geosciences 36 UT College of Natural Sciences Mandatory Safety Belt Usage in College Vehicles Summary: UT College of Natural Sciences Mandatory Safety Belt Usage in College...

127

Structural and Energetic Heterogeneity in Protein Folding  

E-Print Network [OSTI]

A general theoretical framework is developed using free energy functional methods to understand the effects of heterogeneity in the folding of a well-designed protein. Native energetic heterogeneity arising from non-uniformity in native stability, as well as entropic heterogeneity intrinsic to the topology of the native structure are both investigated as to their impact on the folding free energy landscape and resulting folding mechanism. Given a minimally frustrated protein, both structural and energetic heterogeneity lower the thermodynamic barrier to folding, and designing in sufficient heterogeneity can eliminate the barrier at the folding transition temperature. Sequences with different distributions of stability throughout the protein and correspondingly different folding mechanisms may still be good folders to the same structure. This theoretical framework allows for a systematic study of the coupled effects of energetics and topology in protein folding, and provides interpretations and predictions for future experiments which may investigate these effects.

Steven S. Plotkin; Jose N. Onuchic

2000-09-27T23:59:59.000Z

128

Protein Folding Trajectories Analysis: Summarization, Event Detection and Consensus Partial Folding Pathway  

E-Print Network [OSTI]

Protein Folding Trajectories Analysis: Summarization, Event Detection and Consensus Partial Folding in protein folding trajectories. We pro- pose an approach that employs the simplicity of contact maps and po- tentially cure diseases caused by misfolding. The protein folding problem is therefore one

Yang, Hui

129

Computational investigations of folded self-avoiding walks related to protein folding  

E-Print Network [OSTI]

Computational investigations of folded self-avoiding walks related to protein folding Jacques M, protein folding, protein structure prediction 1. Introduction Self-avoiding walks (SAWs) have been studied, 9], authors of this manuscript have investigated some dynamic protein folding models. They have

Paris-Sud XI, Université de

130

A review of recent advances in ab initio protein folding by the Folding@home project  

E-Print Network [OSTI]

A review of recent advances in ab initio protein folding by the Folding@home project William Ito molecular simulations of protein folding. Thanks to engineering innovations like a Graphical Processing Unit power, allowing it to simulate longer and more complex protein folding mechanisms than ever before

131

Fast Track Reservoir Modeling of Shale Formations in the Appalachian Basin. Application to Lower Huron Shale in Eastern Kentucky.  

E-Print Network [OSTI]

SPE 139101 Fast Track Reservoir Modeling of Shale Formations in the Appalachian Basin. Application to Lower Huron Shale in Eastern Kentucky. O. Grujic, S. D. Mohaghegh, SPE, West Virginia University, G Shale in Eastern Kentucky is presented. Unlike conventional reservoir simulation and modeling which

Mohaghegh, Shahab

132

Geochemical analysis of crude oil from northern Appalachian, eastern Illinois, and southern Michigan basins  

SciTech Connect (OSTI)

In May 1986, the Ohio Board of Regents awarded a research grant to Ashland College to investigate the basinal origin of crude oil through trace-element analysis. The major thrust of the project was to attempt to finger print crude oils of various ages and depths from the northern Appalachian, eastern Illinois, and southern Michigan basins, to learn if the oldest crudes may have migrated among the basins. This in turn might give a more definitive time for the separation of the three basins. Nickel to vanadium ratios, were chosen to be the discriminators. Nickel to vanadium ratios show that the Trenton oil from the fields at Lima, Ohio; Oak Harbor in Ottawa County, Ohio; Urbana, Indiana; Peru, Indiana; and Albion, Michigan, are all different. The Trempealeau oils in Harmony and Lincoln Townships, Morrow County, are similar but they are different from those in Peru and Bennington Townships. The Devonian oils of the Illinois and Appalachian basins are distinctly different. The Berea oil shows little or no variability along strike. The Mississippian oils of the Illinois basin are different from the Berea oils and the Salem oil is different from the Chester. The only thing consistent about the Clinton is its inconsistency.

Noel, J.A.; Cole, J.; Innes, C.; Juzwick, S.

1987-09-01T23:59:59.000Z

133

Higher coronary heart disease and heart attack morbidity in Appalachian coal mining regions  

SciTech Connect (OSTI)

This study analyzes the U.S. 2006 Behavioral Risk Factor Surveillance System survey data (N = 235,783) to test whether self-reported cardiovascular disease rates are higher in Appalachian coal mining counties compared to other counties after control for other risks. Dependent variables include self-reported measures of ever (1) being diagnosed with cardiovascular disease (CVD) or with a specific form of CVD including (2) stroke, (3) heart attack, or (4) angina or coronary heart disease (CHD). Independent variables included coal mining, smoking, BMI, drinking, physician supply, diabetes co-morbidity, age, race/ethnicity, education, income, and others. SUDAAN Multilog models were estimated, and odds ratios tested for coal mining effects. After control for covariates, people in Appalachian coal mining areas reported significantly higher risk of CVD (OR = 1.22, 95% CI = 1.14-1.30), angina or CHO (OR = 1.29, 95% C1 = 1.19-1.39) and heart attack (OR = 1.19, 95% C1 = 1.10-1.30). Effects were present for both men and women. Cardiovascular diseases have been linked to both air and water contamination in ways consistent with toxicants found in coal and coal processing. Future research is indicated to assess air and water quality in coal mining communities in Appalachia, with corresponding environmental programs and standards established as indicated.

Hendryx, M.; Zullig, K.J. [West Virginia University, Morgantown, WV (United States). Dept. of Community Medicine

2009-11-15T23:59:59.000Z

134

Fractured gas reservoirs in the Devonian shale of the Illinois and Appalachian basins  

SciTech Connect (OSTI)

The Devonian and Lower Mississippian black shale sequence of Kentucky includes the New Albany Shale of Illinois basin and the Ohio Shale of the Appalachian basin. Fractured reservoirs in the Ohio Shale contain a major gas resource, but have not been so prolific in the New Albany Shale. The authors propose two models of fractured shale reservoirs in both the Illinois and the Appalachian basins, to be tested with gas production data. (1) Where reactivated basement faults have propagated to the surface, the lack of an effective seal has prevented the development of overpressure. The resulting fracture system is entirely tectonic is origin, and served mainly as a conduit for gas migration from the basin to the surface. Gas accumulations in such reservoirs typically are small and underpressured. (2) Where basement faults have been reactivated but have not reached the surface, a seal on the fractured reservoir is preserved. In areas where thermal maturity has been adequate, overpressuring due to gas generation resulted in a major extension of the fracture system, as well as enhanced gas compression and adsorption. Such gas accumulations are relatively large. Original overpressuring has been largely lost, due both to natural depletion and to uncontrolled production. The relative thermal immaturity of the Illinois basin accounts for the scarcity of the second type of fractured reservoir and the small magnitude of the New Albany Shale gas resource.

Hamilton-Smith, T.; Walker, D.; Nuttall, B. (Kentucky Geological Survey, Lexington (United States))

1991-08-01T23:59:59.000Z

135

Protein-Folding Landscapes in Multi-Chain Systems  

E-Print Network [OSTI]

a common approach to studying protein folding in isolationto investigate protein folding in the presence of multipleProtein-Folding Landscapes in Multi-Chain Systems Major

Cellmer, Troy; Bratko, Dusan; Prausnitz, John M.; Blanch, Harvey

2005-01-01T23:59:59.000Z

136

Protein-folding via divide-and-conquer optimization  

E-Print Network [OSTI]

Protein-folding vianumerical optimization Protein folding via divide-and-premise brings the protein-folding problem into the realm of

Oliva, Ricardo; Crivelli, Silvia; Meza, Juan

2004-01-01T23:59:59.000Z

137

Intermediates and the folding of proteins L and G  

E-Print Network [OSTI]

unifying mechanism for protein folding? [Review]. Trends incoordinate for protein folding. Journal of Chemical PhysicsIntermediates can accelerate protein folding. Proceedings of

Brown, Scott; Head-Gordon, Teresa

2008-01-01T23:59:59.000Z

138

Folding amphipathic helices into membranes: Amphiphilicity trumps hydrophobicity  

E-Print Network [OSTI]

C. (1999). Membrane protein folding and stability: PhysicalA. S. & Hristova, K. (1998). Protein folding in membranes:Mutational analysis of protein folding and stability. In

Fernndez-Vidal, Mnica; Jayasinghe, Sajith; Ladokhin, Alexey S; White, Stephen H

2007-01-01T23:59:59.000Z

139

Extending the theoretical framework of protein folding dynamics  

E-Print Network [OSTI]

Stochastic Dynamics on a Protein Folding Energy Landscape .and J. N. Onuchic. Protein folding funnels: kinetic pathwaysthe energy landscape of protein folding. Proteins: Struct.

Yang, Sichun

2006-01-01T23:59:59.000Z

140

On the rough folding landscape of green fluorescent protein  

E-Print Network [OSTI]

H. (2008). Understanding protein folding: small proteins inG. (1997). Theory of protein folding: the energy landscapeenergy landscape of protein folding: a synthesis. Proteins

Andrews, Benjamin Thomas

2008-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


141

Protein Vivisection Reveals Elusive Intermediates in Folding  

SciTech Connect (OSTI)

Although most folding intermediates escape detection, their characterization is crucial to the elucidation of folding mechanisms. Here, we outline a powerful strategy to populate partially unfolded intermediates: A buried aliphatic residue is substituted with a charged residue (e.g., Leu {yields} Glu{sup -}) to destabilize and unfold a specific region of the protein. We applied this strategy to ubiquitin, reversibly trapping a folding intermediate in which the {beta}5-strand is unfolded. The intermediate refolds to a native-like structure upon charge neutralization under mildly acidic conditions. Characterization of the trapped intermediate using NMR and hydrogen exchange methods identifies a second folding intermediate and reveals the order and free energies of the two major folding events on the native side of the rate-limiting step. This general strategy may be combined with other methods and have broad applications in the study of protein folding and other reactions that require trapping of high-energy states.

Zheng, Zhongzhou; Sosnick, Tobin R. (UC)

2010-05-25T23:59:59.000Z

142

Basinwide fold evolution and geometric development of cratonic - foreland basin interaction  

SciTech Connect (OSTI)

Latest results of the Williston Basin Project incorporate a north-south regional seismic line, which is crossing the deepest part of the Williston Basin from Saskatchewan to South Dakota. The integration of this new profile to the two, existing east-west regional seismic sections, gives a quasi-3D image of the basin. The combined seismic data illustrate alternating extensive and compressive phases during basin development, marked by basinwide circular and radial folds. This alternating pattern of basin subsidence is the very nature of crotonic basin evolution. The structural necessity for compressive phases during crotonic basin subsidence, is shown in a regional scale interpretation that has undergone an Earth-curvature correction. The geometrical evolution of the neighboring foreland basin is also interpreted from data that has been corrected with the Earth-curvature function. It shows that basinwide folds sub-parallel and perpendicular to the longitudinal axis of the basin are analogous to the circular and radial folds of the crotonic basins. These folds, in the foreland belt, are less pronounced because larger scale structural elements can overprint them. Where the crotonic and foreland basins overlap, a complex, deformed zone is present, and contains late stage volcanism, in this area. The geometry of the Williston Basin can be modeled by the Sloss-type [open quote]inverted Gaussian function[close quote] that is modified by the periodic westward tilting of the basin and the Earth-curvature function.

Redly, P.; Hajnal, Z. (Univ. of Saskatchewan, Saskatoon (Canada))

1996-01-01T23:59:59.000Z

143

Basinwide fold evolution and geometric development of cratonic - foreland basin interaction  

SciTech Connect (OSTI)

Latest results of the Williston Basin Project incorporate a north-south regional seismic line, which is crossing the deepest part of the Williston Basin from Saskatchewan to South Dakota. The integration of this new profile to the two, existing east-west regional seismic sections, gives a quasi-3D image of the basin. The combined seismic data illustrate alternating extensive and compressive phases during basin development, marked by basinwide circular and radial folds. This alternating pattern of basin subsidence is the very nature of crotonic basin evolution. The structural necessity for compressive phases during crotonic basin subsidence, is shown in a regional scale interpretation that has undergone an Earth-curvature correction. The geometrical evolution of the neighboring foreland basin is also interpreted from data that has been corrected with the Earth-curvature function. It shows that basinwide folds sub-parallel and perpendicular to the longitudinal axis of the basin are analogous to the circular and radial folds of the crotonic basins. These folds, in the foreland belt, are less pronounced because larger scale structural elements can overprint them. Where the crotonic and foreland basins overlap, a complex, deformed zone is present, and contains late stage volcanism, in this area. The geometry of the Williston Basin can be modeled by the Sloss-type {open_quote}inverted Gaussian function{close_quote} that is modified by the periodic westward tilting of the basin and the Earth-curvature function.

Redly, P.; Hajnal, Z. [Univ. of Saskatchewan, Saskatoon (Canada)

1996-12-31T23:59:59.000Z

144

Simulating Temperature Jumps for Protein Folding Studies.  

E-Print Network [OSTI]

??Protein folding is described as a dynamic process of an ensemble of molecules reaching well-defined three dimensional structures to achieve biological activity from linear amino (more)

Kim, Seonah

2007-01-01T23:59:59.000Z

145

Cotranslational protein folding with L-systems  

E-Print Network [OSTI]

Abstract. A protein molecule adopts a specific 3D structure, necessary for its function in the cell, through a process of folding. Modelling the folding process and predicting the final fold from the unique amino acid sequence remain challenging problems. We have previously described the application of L-systems, parallel rewriting rules, to modelling protein folding using two complementary approaches: a physics-based approach, using calculations of interatomic forces, and a knowledge-based approach, using data from fragments of known protein structures. Here we describe a model combining these two approaches creating an adaptive stochastic open L-systems model of protein folding. L-systems were originally developed to model growth and development. Here we also describe extensions of our L-systems models to investigate cotranslational protein folding, i.e. folding during protein biosynthesis on the ribosome, which is increasingly thought to play an important role. We demonstrate that cotranslational folding fits very naturally into the L-systems framework. Key words: Cotranslational protein folding, L-systems 1

Gemma B. Danks; Susan Stepney; Leo S. D. Caves

146

CREATING A GEOLOGIC PLAY BOOK FOR TRENTON-BLACK RIVER APPALACHIAN BASIN EXPLORATION  

SciTech Connect (OSTI)

Private- and public-sector stakeholders formed the new ''Trenton-Black River Appalachian Basin Exploration Consortium'' and began a two-year research effort that will lead to a play book for Trenton-Black River exploration throughout the Appalachian basin. The final membership of the Consortium includes 17 gas exploration companies and 6 research team members, including the state geological surveys in Kentucky, Ohio, Pennsylvania and West Virginia, the New York State Museum Institute and West Virginia University. Seven integrated research tasks are being conducted by basin-wide research teams organized from this large pool of experienced professionals. More than 3400 miles of Appalachian basin digital seismic data have been quality checked. In addition, inquiries have been made regarding the availability of additional seismic data from government and industry partners in the consortium. Interpretations of the seismic data have begun. Error checking is being performed by mapping the time to various prominent reflecting horizons, and analyzing for any anomalies. A regional geological velocity model is being created to make time-to-depth conversions. Members of the stratigraphy task team compiled a generalized, basin-wide correlation chart, began the process of scanning geophysical logs and laid out lines for 16 regional cross sections. Two preliminary cross sections were constructed, a database of all available Trenton-Black River cores was created, and a basin-wide map showing these core locations was produced. Two cores were examined, described and photographed in detail, and were correlated to the network of geophysical logs. Members of the petrology team began the process of determining the original distribution of porous and permeable facies within a sequence stratigraphic framework. A detailed sedimentologic and petrographic study of the Union Furnace road cut in central Pennsylvania was completed. This effort will facilitate the calibration of subsurface core and log data. A core-sampling plan was developed cooperatively with members of the isotope geochemistry and fluid inclusion task team. One hundred thirty (130) samples were prepared for trace element and stable isotope analysis, and six samples were submitted for strontium isotope analysis. It was learned that there is a good possibility that carbon isotope stratigraphy may be a useful tool to locate the top of the Black River Formation in state-to-state correlations. Gas samples were collected from wells in Kentucky, New York and West Virginia. These were sent to a laboratory for compositional, stable isotope and hydrogen and radiogenic helium isotope analysis. Decisions concerning necessary project hardware, software and configuration of the website and database were made by the data, GIS and website task team. A file transfer protocol server was established for project use. The project website is being upgraded in terms of security.

Douglas G. Patchen; James Drahovzal; Larry Wickstrom; Taury Smith; Chris Laughery; Katharine Lee Avary

2004-04-01T23:59:59.000Z

147

Electron loss rates from the outer radiation belt caused by the filling of the outer plasmasphere: the calm before the storm  

SciTech Connect (OSTI)

Measurements from 7 spacecraft in geosynchronous orbit are analyzed to determine the decay rate of the number density of the outer electron radiation belt prior to the onset of high-speed-stream-driven geomagnetic storms. Superposed-data analysis is used wan(?) a collection of 124 storms. When there is a calm before the storm, the electron number density decays exponentially before the storm with a 3.4-day e-folding time: beginning about 4 days before storm onset, the density decreases from {approx}4x10{sup -4} cm{sup -3} to {approx}1X 10{sup -4} cm{sup -3}. When there is not a calm before the storm, the number-density decay is very smalL The decay in the number density of radiation-belt electrons is believed to be caused by pitch-angle scattering of electrons into the atmospheric loss cone as the outer plasmasphere fills during the calms. While the radiation-belt electron density decreases, the temperature of the electron radiation belt holds approximately constant, indicating that the electron precipitation occurs equally at all energies. Along with the number density decay, the pressure of the outer electron radiation belt decays and the specific entropy increases. From the measured decay rates, the electron flux to the atmosphere is calculated and that flux is 3 orders of magnitude less than thermal fluxes in the magnetosphere, indicating that the radiation-belt pitch-angle scattering is 3 orders weaker than strong diffusion. Energy fluxes into the atmosphere are calculated and found to be insufficient to produce visible airglow.

Borovsky, Joseph E [Los Alamos National Laboratory; Denton, Michael H [LANCASTER UNIV

2009-01-01T23:59:59.000Z

148

Structural Insight into RNA Hairpin Folding Intermediates Gregory R. Bowman,  

E-Print Network [OSTI]

on the Folding@home infrastructure to obtain better sampling and, therefore, greater insight into RNA folding

Guibas, Leonidas J.

149

Corn Belt Energy Coop- Commercial Energy Efficiency Rebate Program (Illinois)  

Broader source: Energy.gov [DOE]

Corn Belt Energy, through the Wabash Valley Power Association, offersbusiness, school, and farm customers a variety of energy efficient rebates and incentives through its "Power Moves" program....

150

altai metallogenic belt: Topics by E-print Network  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

belt object satellites, again pointing to possible differences in their origin. M. E. Brown; M. A. van Dam; A. H. Bouchez; D. Le Mignant; R. D. Campbell; J. C. Y. Chin; A....

151

Relationship between bitumen maturity and organic facies in Devonian shales from the Appalachian basin  

SciTech Connect (OSTI)

Variation in several bitumen maturity parameters was studied in a core of Devonian shale from the central Appalachian basin. Kerogens in the shales are at maturity levels equivalent to the early stages of oil generation and range in composition from Type III-IV to Type II-III. Maturity parameters based on steranes, terpanes, and n-alkanes exhibit fluctuations that are unrelated to thermal maturity changes in the core. The parameters correlate with one another to a high degree and appear to be directly or indirectly related to the organic facies of the shales. The maturity level indicated by each parameter increases with total organic carbon (TOC) content and hydrogen index value. The greatest variation occurs in rocks with TOC values below 2% and hydrogen index values below 250. The data provide a good opportunity to examine the dependency of bitumen maturity on organic facies, and they highlight a caveat to be considered during interpretation.

Daly, A.R.

1988-01-01T23:59:59.000Z

152

STATISTICAL ANALYSIS OF PROTEIN FOLDING KINETICS  

E-Print Network [OSTI]

STATISTICAL ANALYSIS OF PROTEIN FOLDING KINETICS AARON R. DINNER New Chemistry Laboratory for Protein Folding: Advances in Chemical Physics, Volume 120. Edited by Richard A. Friesner. Series Editors Experimental and theoretical studies have led to the emergence of a unified general mechanism for protein

Dinner, Aaron

153

Fan-fold shielded electrical leads  

DOE Patents [OSTI]

Disclosed are fan-folded electrical leads made from copper cladded Kapton, for example, with the copper cladding on one side serving as a ground plane and the copper cladding on the other side being etched to form the leads. The Kapton is fan folded with the leads located at the bottom of the fan-folds. Electrical connections are made by partially opening the folds of the fan and soldering, for example, the connections directly to the ground plane and/or the lead. The fan folded arrangement produces a number of advantages, such as electrically shielding the leads from the environment, is totally non-magnetic, and has a very low thermal conductivity, while being easy to fabricate. 3 figs.

Rohatgi, R.R.; Cowan, T.E.

1996-06-11T23:59:59.000Z

154

Fan-fold shielded electrical leads  

DOE Patents [OSTI]

Fan-folded electrical leads made from copper cladded Kapton, for example, with the copper cladding on one side serving as a ground plane and the copper cladding on the other side being etched to form the leads. The Kapton is fan folded with the leads located at the bottom of the fan-folds. Electrical connections are made by partially opening the folds of the fan and soldering, for example, the connections directly to the ground plane and/or the lead. The fan folded arrangement produces a number of advantages, such as electrically shielding the leads from the environment, is totally non-magnetic, and has a very low thermal conductivity, while being easy to fabricate.

Rohatgi, Rajeev R. (Mountain View, CA); Cowan, Thomas E. (Livermore, CA)

1996-01-01T23:59:59.000Z

155

Using Stochastic Roadmap Simulation to Predict Experimental Quantities in Protein Folding Kinetics: Folding Rates and  

E-Print Network [OSTI]

Using Stochastic Roadmap Simulation to Predict Experimental Quantities in Protein Folding Kinetics for studying protein folding kinetics. It uses the recently intro- duced Stochastic Roadmap Simulation (SRS validate the SRS method and indicate its potential as a general tool for studying protein folding kinetics

Pratt, Vaughan

156

Replace V-Belts with Notched or Synchronous Belt Drives | Department of  

Office of Energy Efficiency and Renewable Energy (EERE) Indexed Site

AFDC Printable Version Share this resource Send a link to EERE: Alternative Fuels Data Center Home Page to someone by E-mail Share EERE: Alternative Fuels Data Center Home Page on Facebook Tweet about EERE: Alternative Fuels Data Center Home Page on Twitter Bookmark EERE: Alternative Fuels Data Center Home Page on Google Bookmark EERE: Alternative Fuels Data Center Home Page on Delicious Rank EERE:Year in3.pdfEnergyDepartmentEnergy DataRemediatedLandsEnergy V-Belts with Notched or

157

Sedimentation and basin-fill history of the Neogene clastic succession exposed in the southeastern fold belt of the  

E-Print Network [OSTI]

-water base-of-slope clastics overlain by thick slope mud that passes upward into shallow marine and nearshore at Dallas, 2601 North Floyd Road, Richardson, TX 75038-0688, USA. www.elsevier.com/locate/sedgeo Sedimentary and exploitation strategy for hydrocarbon plays that may prove vital to the oil companies engaged in exploration

Kulp, Mark

158

The sedimentological and geotechnical characteristics of the lower continental slope and rise of the Mississippi Fan fold belt  

E-Print Network [OSTI]

The study is based on geological and geotechnical laboratory testing data of 70 three inch diameter piston cores. Concentration is along the Sigsbee Escarpment in a grid area between 90? and 91?W and 26.7? and 27.3?N. Water depth ranges from 1...

Ramazanova, Rahila

2001-01-01T23:59:59.000Z

159

Mechanical Models of Fault-Related Folding  

SciTech Connect (OSTI)

The subject of the proposed research is fault-related folding and ground deformation. The results are relevant to oil-producing structures throughout the world, to understanding of damage that has been observed along and near earthquake ruptures, and to earthquake-producing structures in California and other tectonically-active areas. The objectives of the proposed research were to provide both a unified, mechanical infrastructure for studies of fault-related foldings and to present the results in computer programs that have graphical users interfaces (GUIs) so that structural geologists and geophysicists can model a wide variety of fault-related folds (FaRFs).

Johnson, A. M.

2003-01-09T23:59:59.000Z

160

Protein Folding as a Physical Stochastic Process  

E-Print Network [OSTI]

We model protein folding as a physical stochastic process as follows. The unfolded protein chain is treated as a random coil described by SAW (self-avoiding walk). Folding is induced by hydrophobic forces and other interactions, such as hydrogen bonding, which can be taken into account by imposing conditions on SAW. The resulting model is termed CSAW (conditioned self-avoiding walk. Conceptually, the mathematical basis is a generalized Langevin equation. In practice, the model is implemented on a computer by combining SAW and Monte Carlo. To illustrate the flexibility and capabilities of the model, we consider a number of examples, including folding pathways, elastic properties, helix formation, and collective modes.

Kerson Huang

2007-07-17T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


161

Enhanced sampling and applications in protein folding.  

E-Print Network [OSTI]

??We show that a single-copy tempering method is useful in protein-folding simulations of large scale and high accuracy (explicit solvent, atomic representation, and physics-based potential). (more)

Zhang, Cheng

2013-01-01T23:59:59.000Z

162

DMBC: Web Planning & Layouts Above the Fold  

E-Print Network [OSTI]

DMBC: Web Planning & Layouts Above the Fold · · Website Heig Website width ht Important content - lipsum.com) Media Placeholders g & Organization · · Triad C C S· hades · Custom F Web Layouts Photosho

Stowell, Michael

163

Mutagenic effects on protein folding and stability  

E-Print Network [OSTI]

Knowing how sequence information dictates the formation of protein structure is critical for accurate prediction of structure, for de novo protein design, and for understanding protein folding and misfolding. Based on ...

Anderson, Thomas Anthony, 1973-

2002-01-01T23:59:59.000Z

164

Cooperativity and Contact Order in Protein Folding  

E-Print Network [OSTI]

The effects of cooperativity are studied within Go-Lennard-Jones models of proteins by making the contact interactions dependent on the proximity to the native conformation. The kinetic universality classes are found to remain the same as in the absence of cooperativity. For a fixed native geometry, small changes in the effective contact map may affect the folding times in a chance way and to the extent that is comparable to the shift in the folding times due to cooperativity. The contact order controlls folding scenarios: the average times necessary to bring pairs of amino acids into their near native separations depend on the sequential distances within the pairs. This dependence is largely monotonic, regardless of the cooperativity, and the dominant trend could be described by a single parameter like the average contact order. However, it is the deviations from the trend which are usually found to set the net folding times.

Marek Cieplak

2004-01-11T23:59:59.000Z

165

Self-folding with shape memory composites  

E-Print Network [OSTI]

Origami-inspired manufacturing can produce complex structures and machines by folding two-dimensional composites into three-dimensional structures. This fabrication technique is potentially less expensive, faster, and ...

Felton, Samuel M.

166

A phenomenological model of protein folding  

E-Print Network [OSTI]

We construct a phenomenological effective field theory model that describes the universality class of biologically active single-strand proteins. The model allows both for an explicit construction of native state protein conformations, and a dynamical description of protein folding and unfolding processes. The model reveals a connection between homochirality and protein collapse, and enables the theoretical investigation of various other aspects of protein folding even in the case of very long polypeptide chains where other methods are not available.

Danielsson, Ulf H; Niemi, Antti J

2009-01-01T23:59:59.000Z

167

Toward a Theory on the Stability of Protein Folding: Challenges for Folding Models  

E-Print Network [OSTI]

We adopt the point of view that analysis of the stability of the protein folding process is central to understanding the underlying physics of folding. Stability of the folding process means that many perturbations do not disrupt the progress from the random coil to the native state. In this paper we explore the stability of folding using established methods from physics and mathematics. Our result is a preliminary theory of the physics of folding. We suggest some tests of these ideas using folding simulations. We begin by supposing that folding events are related in some way to mechanical waves on the molecule. We adopt an analytical approach to the physics which was pioneered by M.V. Berry, (in another context), based upon mathematics developed mainly by R. Thom and V.I. Arnold. We find that the stability of the folding process can be understood in terms of structures known as caustics, which occur in many kinds of wave phenomena. The picture that emerges is that natural selection has given us a set of protein molecules which have mechanical waves that propagate according to several mathematically specific restrictions. Successful simulations of folding can be used to test and constrain these wave motions. With some additional assumptions the theory explains or is consistent with a number of experimental facts about folding. We emphasize that this wave-based approach is fundamentally different from energy-based approaches.

Walter Simmons; Joel L. Weiner

2011-12-28T23:59:59.000Z

168

Protein Folding: A Perspective From Statistical Physics  

E-Print Network [OSTI]

In this paper, we introduce an approach to the protein folding problem from the point of view of statistical physics. Protein folding is a stochastic process by which a polypeptide folds into its characteristic and functional 3D structure from random coil. The process involves an intricate interplay between global geometry and local structure, and each protein seems to present special problems. We introduce CSAW (conditioned self-avoiding walk), a model of protein folding that combines the features of self-avoiding walk (SAW) and the Monte Carlo method. In this model, the unfolded protein chain is treated as a random coil described by SAW. Folding is induced by hydrophobic forces and other interactions, such as hydrogen bonding, which can be taken into account by imposing conditions on SAW. Conceptually, the mathematical basis is a generalized Langevin equation. To illustrate the flexibility and capabilities of the model, we consider several examples, including helix formation, elastic properties, and the transition in the folding of myoglobin. From the CSAW simulation and physical arguments, we find a universal elastic energy for proteins, which depends only on the radius of gyration $R_{g}$ and the residue number $N$. The elastic energy gives rise to scaling laws $R_{g}\\sim N^{\

Jinzhi Lei; Kerson Huang

2010-02-26T23:59:59.000Z

169

Review Protein Folding and Misfolding on Surfaces  

E-Print Network [OSTI]

Abstract: Protein folding, misfolding and aggregation, as well as the way misfolded and aggregated proteins affects cell viability are emerging as key themes in molecular and structural biology and in molecular medicine. Recent advances in the knowledge of the biophysical basis of protein folding have led to propose the energy landscape theory which provides a consistent framework to better understand how a protein folds rapidly and efficiently to the compact, biologically active structure. The increased knowledge on protein folding has highlighted its strict relation to protein misfolding and aggregation, either process being in close competition with the other, both relying on the same physicochemical basis. The theory has also provided information to better understand the structural and environmental factors affecting protein folding resulting in protein misfolding and aggregation into ordered or disordered polymeric assemblies. Among these, particular importance is given to the effects of surfaces. The latter, in some cases make possible rapid and efficient protein folding but most often recruit proteins/peptides increasing their local concentration thus favouring misfolding and accelerating the rate of nucleation. It is also emerging that surfaces can modify the path of protein misfolding and aggregation generating oligomers and polymers structurally different from those arising in the bulk solution and endowed with different physical properties and cytotoxicities.

Massimo Stefani

2008-01-01T23:59:59.000Z

170

Angle stations in or for endless conveyor belts  

DOE Patents [OSTI]

In an angle station for an endless conveyor belt, there are presented to each incoming run of the belt stationary curved guide members (18, 19) of the shape of a major segment of a right-circular cylinder and having in the part-cylindrical portion (16 or 17) thereof rectangular openings (15) arranged in parallel and helical paths and through which project small freely-rotatable rollers (14), the continuously-changing segments of the curved surfaces of which projecting through said openings (15) are in attitude to change the direction of travel of the belt (13) through 90.degree. during passage of the belt about the part-cylindrical portion (16 or 17) of the guide member (18 or 19). The rectangular openings (15) are arranged with their longer edges lengthwise of the diagonals representing the mean of the helix but with those of a plurality of the rows nearest to each end of the part-cylindrical portion (16 or 17) slightly out of axial symmetry with said diagonals, being slightly inclined in a direction about the intersections (40) of the diagonals of the main portion of the openings, to provide a "toe-in" attitude in relation to the line of run of the endless conveyor belt.

Steel, Alan (Glasgow, GB6)

1987-04-07T23:59:59.000Z

171

JOVIAN EARLY BOMBARDMENT: PLANETESIMAL EROSION IN THE INNER ASTEROID BELT  

SciTech Connect (OSTI)

The asteroid belt is an open window on the history of the solar system, as it preserves records of both its formation process and its secular evolution. The progenitors of the present-day asteroids formed in the Solar Nebula almost contemporary to the giant planets. The actual process producing the first generation of asteroids is uncertain, strongly depending on the physical characteristics of the Solar Nebula, and the different scenarios produce very diverse initial size-frequency distributions (SFDs). In this work, we investigate the implications of the formation of Jupiter, plausibly the first giant planet to form, on the evolution of the primordial asteroid belt. The formation of Jupiter triggered a short but intense period of primordial bombardment, previously unaccounted for, which caused an early phase of enhanced collisional evolution in the asteroid belt. Our results indicate that this Jovian Early Bombardment caused the erosion or the disruption of bodies smaller than a threshold size, which strongly depends on the SFD of the primordial planetesimals. If the asteroid belt was dominated by planetesimals less than 100 km in diameter, the primordial bombardment would have caused the erosion of bodies smaller than 200 km in diameter. If the asteroid belt was instead dominated by larger planetesimals, the bombardment would have resulted in the destruction of bodies as big as 500 km.

Turrini, D.; Coradini, A.; Magni, G., E-mail: diego.turrini@ifsi-roma.inaf.it [Istituto di Astrofisica e Planetologia Spaziali, INAF-IAPS, Via Fosso del Cavaliere 100, 00133, Rome (Italy)

2012-05-01T23:59:59.000Z

172

Hierarchical Protein Folding Pathways: A Computational Study of Protein Fragments  

E-Print Network [OSTI]

Hierarchical Protein Folding Pathways: A Computational Study of Protein Fragments Nurit Haspel,1 folding model. The model postulates that protein folding is a hierarchical top-down pro- cess. The basic words: protein folding; building blocks; pro- tein structure prediction; hierarchical folding; protein

Haspel, Nurit

173

FROM GENETIC CODING TO PROTEIN FOLDING Jean-Luc Jestin  

E-Print Network [OSTI]

FROM GENETIC CODING TO PROTEIN FOLDING Jean-Luc Jestin ABSTRACT A discrete classical mechanics (DCM of the genetic code. A DCM model for protein folding allows a set of folding nuclei to be derived for each. A PROTEIN FOLDING MODEL Let us consider the following protein folding model. A chemical group of mass m

Paris-Sud XI, Université de

174

Predicting Protein Folding Mohammed J. Zaki, Vinay Nadimpally, Deb  

E-Print Network [OSTI]

Predicting Protein Folding Pathways Mohammed J. Zaki, Vinay Nadimpally, Deb Bardhan, Chris Bystroff 1. Predicting Protein Folding Pathways Summary. A structured folding pathway, which is a time ordered sequence of folding events, plays an important role in the protein folding process and hence

Zaki, Mohammed Javeed

175

DYNAMIC INVARIANTS IN PROTEIN FOLDING PATHWAYS REVEALED BY TENSOR ANALYSIS  

E-Print Network [OSTI]

DYNAMIC INVARIANTS IN PROTEIN FOLDING PATHWAYS REVEALED BY TENSOR ANALYSIS Arvind Ramanathan Lane a spatio-temporal analysis of protein folding pathways. We applied our method to folding simulations of how a protein folds into its functionally relevant conformations. Protein folding pathways span over

Langmead, Christopher James

176

Data Analysis of Villin Headpiece Subdomain Folding Simulations.  

E-Print Network [OSTI]

seeks to understand the process of protein folding by analyzing the vast amount of data generated while simulating the folding of the villin headpiece. Introduction Protein folding has been called one proteins unlike homology or threading based approaches. Protein folding studies the folding trajectory

177

Protein folding using contact maps Michele Vendruscolo and Eytan Domany  

E-Print Network [OSTI]

Protein folding using contact maps Michele Vendruscolo and Eytan Domany Department of Physics 26 I. INTRODUCTION Computational approaches to protein folding are divided into two main categories protein fold prediction. Contact maps are a particularly manageable representation of protein structure

Domany, Eytan

178

THE UNIVERSITY OF CHICAGO CHARACTERIZATION OF PROTEIN FOLDING INTERMEDIATES  

E-Print Network [OSTI]

THE UNIVERSITY OF CHICAGO CHARACTERIZATION OF PROTEIN FOLDING INTERMEDIATES FOR DELINEATION ............................................................................................................ 1 1.1 Why study protein folding .............................................................................. 3 1.2.1 How fast should a protein fold ........................................................... 3

Sosnick, Tobin R.

179

Increasing Stability Reduces Conformational Heterogeneity in a Protein Folding  

E-Print Network [OSTI]

Increasing Stability Reduces Conformational Heterogeneity in a Protein Folding Intermediate, the results show that protein folding intermediates are ensembles of different structural forms direct experi- mental evidence in support of a basic tenet of energy landscape theory for protein folding

180

Exploring zipping and assembly as a protein folding principle  

E-Print Network [OSTI]

C. Are there pathways for protein folding? Journal de Chimieand the mechanism of protein folding. Ann Rev Biochem 1982;Baldwin RL. How does protein folding get started? TRENDS in

Voelz, Vince A; Dill, Ken A

2007-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


181

Detection of methane on Kuiper Belt Object (50000) Quaoar  

E-Print Network [OSTI]

The near-infrared spectrum of (50000) Quaoar obtained at the Keck Observatory shows distinct absorption features of crystalline water ice, solid methane and ethane, and possibly other higher order hydrocarbons. Quaoar is only the fifth Kuiper belt object on which volatile ices have been detected. The small amount of methane on an otherwise water ice dominated surface suggests that Quaoar is a transition object between the dominant volatile-poor small Kuiper belt objects (KBOs) and the few volatile-rich large KBOs such as Pluto and Eris.

E. L. Schaller; M. E. Brown

2007-10-18T23:59:59.000Z

182

Protein Folding: A New Geometric Analysis  

E-Print Network [OSTI]

A geometric analysis of protein folding, which complements many of the models in the literature, is presented. We examine the process from unfolded strand to the point where the strand becomes self-interacting. A central question is how it is possible that so many initial configurations proceed to fold to a unique final configuration. We put energy and dynamical considerations temporarily aside and focus upon the geometry alone. We parameterize the structure of an idealized protein using the concept of a ribbon from differential geometry. The deformation of the ribbon is described by introducing a generic twisting Ansatz. The folding process in this picture entails a change in shape guided by the local amino acid geometry. The theory is reparamaterization invariant from the start, so the final shape is independent of folding time. We develop differential equations for the changing shape. For some parameter ranges, a sine-Gordon torsion soliton is found. This purely geometric waveform has properties similar to dynamical solitons. Namely: A threshold distortion of the molecule is required to initiate the soliton, after which, small additional distortions do not change the waveform. In this analysis, the soliton twists the molecule until bonds form. The analysis reveals a quantitative relationship between the geometry of the amino acids and the folded form.

Walter A. Simmons; Joel L. Weiner

2008-09-11T23:59:59.000Z

183

E-Print Network 3.0 - allen radiation belt Sample Search Results  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

ALBEDO OF SMALL SOLAR SYSTEM BODIES. I. V. Moskalenko1,2 , T. A. Porter3 Summary: and ice in Main Belt asteroids and Kuiper Belt objects (KBOs) using the Moon as a template. We...

184

Mining conditions and deposition in the Amburgy (Westphalian B) coal, Breathitt Group, central Appalachian basin  

SciTech Connect (OSTI)

Carbonate concretions called clay balls are rare in the Central Appalachian Basin, but were found in the Amburgy coal overlain by the Kendrick Shale Member. In the study area, the Amburgy coal is 0.7 to 0.9 meters thick, moderate to high in sulfur content, moderate to high in ash yield, and mostly bright clarain, except at the top near the area of coal balls, where durain of limited extent occurs. The coal is co-dominated by lycopod and cordaites; tree spores, with subordinate Calamites. The local durain layer is dominated by Densosporites, produced by the shrubby lycopod Ompbalophloios. Coal balls were encountered where the durain is immediately overlain by a coquinoid hash of broken and whole marine fossils, along a trend of coal thinning. The coal balls contain permineralized cordaites, lycopods, calamites, and ferns. The Amburgy coal accumulated as a succession of planar mires. Local splits in the seam are common, indicating contemporaneous clastic influx. The abundance of Cordaites may indicate brackish mire waters related to a coastal position and initial eustatic rise of the marginal Kendrick seas. Near the end of the Amburgy mires, the high ash-Omphalopbloios association is interpreted as a local area that was being drowned by the Kendrick transgression. Ravinement within this local embayment, rapid inundation by marine waters, and concentration of carbonate-bearing waters within transgressive scours may have contributed to the formation of coal balls and pyritic concretions in the upper part of the coal bed.

Greb, S.F.; Eble, C.F. [Kentucky Geological Survey, Lexington, KY (United States); Hower, J.C. [Center for Applied Research, Lexington, KY (United States); Phillips, T.L. [Univ. of illinois, Urbana, IL (United States)

1996-09-01T23:59:59.000Z

185

Appalachian Clean Coal Technology Consortium: Technical progress report, October 1--December 31, 1995  

SciTech Connect (OSTI)

In the dewatering project, two different approaches are taken. One approach involves displacing the water on the surface of coal by a hydrophobic substance that can be readily recovered and recycled. This novel concept, referred to as the Hydrophobic Dewatering (HD) process, is based on improved understanding of the surface chemistry of dewatering. The other approach is to use disposable dewatering substances in mechanical dewatering. The objectives of the proposed work are (1) to test the HD process on a variety of coals from the Appalachian coal fields, and (2) to identify suitable dewatering reagents that would enable mechanical dewatering to reduce the moisture to the levels satisfactory to electrical utilities and other coal users. The objective of the spiral separation project is to use computer modeling to develop better, more efficient spiral designs for coal cleaning. The fully-developed model will predict spiral performance based on variations in spiral profile, flow rate, and pitch. Specific goals are to: (1) design spirals capable of making separations at a specific gravity of 1.5, and (2) broaden the size range at which spirals make effective separations.

NONE

1996-04-23T23:59:59.000Z

186

Modeling the radiation belt electrons with radial diffusion driven by the solar wind  

E-Print Network [OSTI]

in the enhancement of radiation belt electrons yet leaves a significant portion of the variance unaccounted for. We

Li, Xinlin

187

Isolation, folding and structural investigations of the amino...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

folding and structural investigations of the amino acid transporter OEP16. Isolation, folding and structural investigations of the amino acid transporter OEP16. Abstract: Membrane...

188

Topologies to geometries in protein folding: Hierarchical and nonhierarchical scenarios  

E-Print Network [OSTI]

Topologies to geometries in protein folding: Hierarchical and nonhierarchical scenarios Ariel Ferna presents a method to portray protein folding dynamics at a coarse resolution, based on a pattern

Berry, R. Stephen

189

Single-Molecule Dynamics Reveals Cooperative Binding-Folding...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Molecule Dynamics Reveals Cooperative Binding-Folding in Protein Recognition . Single-Molecule Dynamics Reveals Cooperative Binding-Folding in Protein Recognition . Abstract: The...

190

Exploring the mechanisms of protein folding  

E-Print Network [OSTI]

Neither of the two prevalent theories, namely thermodynamic stability and kinetic stability, provides a comprehensive understanding of protein folding. The thermodynamic theory is misleading because it assumes that free energy is the exclusive dominant mechanism of protein folding, and attributes the structural transition from one characteristic state to another to energy barriers. Conversely, the concept of kinetic stability overemphasizes dominant mechanisms that are related to kinetic factors. This article explores the stability condition of protein structures from the viewpoint of meso-science, paying attention to the compromise in the competition between minimum free energy and other dominant mechanisms. Based on our study of complex systems, we propose that protein folding is a meso-scale, dissipative, nonlinear and non-equilibrium process that is dominated by the compromise between free energy and other dominant mechanisms such as environmental factors. Consequently, a protein shows dynamic structures,...

Xu, Ji; Ren, Ying; Li, Jinghai

2013-01-01T23:59:59.000Z

191

CSAW: a dynamical model of protein folding  

E-Print Network [OSTI]

CSAW (conditioned self-avoiding walk) is a model of protein folding that combines SAW (self-avoiding walk) with Monte-Carlo. It simulates the Brownian motion of a chain molecule in the presence of interactions, both among chain residues, and with the environment. In a first model that includes the hydrophobic effect and hydrogen bonding, a chain of 30 residues folds into a native state with stable secondary and tertiary structures. The process starts with a rapid collapse into an intermediate "molten globule", which slowly decays into the native state afer a relatively long quiescent period. The behavior of the radius of gyration mimics experimental data.

Kerson Huang

2006-01-12T23:59:59.000Z

192

Nonlinear conformation of secondary protein folding  

E-Print Network [OSTI]

A model to describe the mechanism of conformational dynamics in secondary protein based on matter interactions is proposed. The approach deploys the lagrangian method by imposing certain symmetry breaking. The protein backbone is initially assumed to be nonlinear and represented by the Sine-Gordon equation, while the nonlinear external bosonic sources is represented by $\\phi^4$ interaction. It is argued that the nonlinear source induces the folding pathway in a different way than the previous work with initially linear backbone. Also, the nonlinearity of protein backbone decreases the folding speed.

Januar, M; Handoko, L T

2012-01-01T23:59:59.000Z

193

Energetic Components of Cooperative Protein Folding  

E-Print Network [OSTI]

A new lattice protein model with a four-helix bundle ground state is analyzed by a parameter-space Monte Carlo histogram technique to evaluate the effects of an extensive variety of model potentials on folding thermodynamics. Cooperative helical formation and contact energies based on a 5-letter alphabet are found to be insufficient to satisfy calorimetric and other experimental criteria for two-state folding. Such proteinlike behaviors are predicted, however, by models with polypeptide-like local conformational restrictions and environment-dependent hydrogen bonding-like interactions.

Huseyin Kaya; Hue Sun Chan

2000-10-11T23:59:59.000Z

194

Circular permutant GFP insertion folding reporters  

SciTech Connect (OSTI)

Provided are methods of assaying and improving protein folding using circular permutants of fluorescent proteins, including circular permutants of GFP variants and combinations thereof. The invention further provides various nucleic acid molecules and vectors incorporating such nucleic acid molecules, comprising polynucleotides encoding fluorescent protein circular permutants derived from superfolder GFP, which polynucleotides include an internal cloning site into which a heterologous polynucleotide may be inserted in-frame with the circular permutant coding sequence, and which when expressed are capable of reporting on the degree to which a polypeptide encoded by such an inserted heterologous polynucleotide is correctly folded by correlation with the degree of fluorescence exhibited.

Waldo, Geoffrey S; Cabantous, Stephanie

2013-02-12T23:59:59.000Z

195

Circular permutant GFP insertion folding reporters  

SciTech Connect (OSTI)

Provided are methods of assaying and improving protein folding using circular permutants of fluorescent proteins, including circular permutants of GFP variants and combinations thereof. The invention further provides various nucleic acid molecules and vectors incorporating such nucleic acid molecules, comprising polynucleotides encoding fluorescent protein circular permutants derived from superfolder GFP, which polynucleotides include an internal cloning site into which a heterologous polynucleotide may be inserted in-frame with the circular permutant coding sequence, and which when expressed are capable of reporting on the degree to which a polypeptide encoded by such an inserted heterologous polynucleotide is correctly folded by correlation with the degree of fluorescence exhibited.

Waldo, Geoffrey S. (Santa Fe, NM); Cabantous, Stephanie (Los Alamos, NM)

2008-06-24T23:59:59.000Z

196

Circular permutant GFP insertion folding reporters  

SciTech Connect (OSTI)

Provided are methods of assaying and improving protein folding using circular permutants of fluorescent proteins, including circular permutants of GFP variants and combinations thereof. The invention further provides various nucleic acid molecules and vectors incorporating such nucleic acid molecules, comprising polynucleotides encoding fluorescent protein circular permutants derived from superfolder GFP, which polynucleotides include an internal cloning site into which a heterologous polynucleotide may be inserted in-frame with the circular permutant coding sequence, and which when expressed are capable of reporting on the degree to which a polypeptide encoded by such an inserted heterologous polynucleotide is correctly folded by correlation with the degree of fluorescence exhibited.

Waldo, Geoffrey S.; Cabantous, Stephanie

2013-04-16T23:59:59.000Z

197

Circular permutant GFP insertion folding reporters  

SciTech Connect (OSTI)

Provided are methods of assaying and improving protein folding using circular permutants of fluorescent proteins, including circular permutants of GFP variants and combinations thereof. The invention further provides various nucleic acid molecules and vectors incorporating such nucleic acid molecules, comprising polynucleotides encoding fluorescent protein circular permutants derived from superfolder GFP, which polynucleotides include an internal cloning site into which a heterologous polynucleotide may be inserted in-frame with the circular permutant coding sequence, and which when expressed are capable of reporting on the degree to which a polypeptide encoded by such an inserted heterologous polynucleotide is correctly folded by correlation with the degree of fluorescence exhibited.

Waldo, Geoffrey S. (Santa Fe, NM); Cabantous, Stephanie (Los Alamos, NM)

2011-06-14T23:59:59.000Z

198

Toward a Theory on the Stability of Protein Folding: Challenges for Folding Models  

E-Print Network [OSTI]

We adopt the point of view that analysis of the stability of the protein folding process is central to understanding the underlying physics of folding. Stability of the folding process means that many perturbations do not disrupt the progress from the random coil to the native state. In this paper we explore the stability of folding using established methods from physics and mathematics. Our result is a preliminary theory of the physics of folding. We suggest some tests of these ideas using folding simulations. We begin by supposing that folding events are related in some way to mechanical waves on the molecule. We adopt an analytical approach to the physics which was pioneered by M.V. Berry, (in another context), based upon mathematics developed mainly by R. Thom and V.I. Arnold. We find that the stability of the folding process can be understood in terms of structures known as caustics, which occur in many kinds of wave phenomena. The picture that emerges is that natural selection has given us a set of prot...

Simmons, Walter

2011-01-01T23:59:59.000Z

199

Effective Conveyor Belt Inspection for Improved Mining Productivity  

SciTech Connect (OSTI)

This document details progress on the project entitled ''Effective Conveyor Belt Inspection for Improved Mining Productivity'' during the period from November 15, 2004 to May 14, 2004. Highlights include fabrication of low-cost prototype hardware, acquisition of infrared thermal data, and initial design of a Smart-Camera based system.

Chris Fromme

2006-06-01T23:59:59.000Z

200

Effective Conveyor Belt Inspection for Improved Mining Productivity  

SciTech Connect (OSTI)

This document details progress on the project entitled ''Effective Conveyor Belt Inspection for Improved Mining Productivity'' during the period from November 15, 2004 to May 14, 2004. Highlights include fabrication of an improved LED lightbar, fabrication of a line-scan sensor head for the Smart-Camera based prototype, and development of prototype vulcanized splice detection algorithms.

Chris Fromme

2006-06-01T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


201

Fast Gravitational Wave Radiometry using Data Folding  

E-Print Network [OSTI]

Gravitational Waves (GWs) from the early universe and unresolved astrophysical sources are expected to create a stochastic GW background (SGWB). The GW radiometer algorithm is well suited to probe such a background using data from ground based laser interferometric detectors. Radiometer analysis can be performed in different bases, e.g., isotropic, pixel or spherical harmonic. Each of these analyses possesses a common temporal symmetry which we exploit here to fold the whole dataset for every detector pair, typically a few hundred to a thousand days of data, to only one sidereal day, without any compromise in precision. We develop the algebra and a software pipeline needed to fold data, accounting for the effect of overlapping windows and non-stationary noise. We implement this on LIGO's fifth science run data and validate it by performing a standard anisotropic SGWB search on both folded and unfolded data. Folded data not only leads to orders of magnitude reduction in computation cost, but it results in a co...

Ain, Anirban; Mitra, Sanjit

2015-01-01T23:59:59.000Z

202

On the Complexity of Protein Folding  

E-Print Network [OSTI]

We show that the protein folding problem in the two-dimensional H-P model is NP-complete. 1 Introduction Proteins are polymer chains consisting of monomers of twenty different kinds. Much of the genetic information in the DNA contains the sequence information of proteins, with three nucleotides

Pierluigi Crescenzi; Deborah Goldman; Christos Papadimitriou; Antonio Piccolboni; Mihalis Yannakakis

203

Simultaneous Alignment and Folding of Protein Sequences  

E-Print Network [OSTI]

is to predict for every input sequence the minimum free-energy non-crossing structure (in O(n3 ) time function. Since the structure of RNA is evolu- tionarily more conserved than its sequence, predicting a folding with minimal free energy [5, 6, 7, 8, 9]. Albeit this so-named thermodynamic approach is a success

Gifford, David K.

204

Heuristics for PLA folding: an analytical approach  

SciTech Connect (OSTI)

A practical problem that arises in the automatic design and layout of Programmable Logic Arrays (PLA's) is examined. Folding is a technique used to reduce the area of PLA's. The problem of folding a PLA to its smallest possible area is known to be NP-Complete. The practical importance of this problem motivates the study of heuristics. So far, much of the work on heuristics for this problem has been of an experimental nature. Here an analytical study of heuristic algorithms for this problem is carried out. The performance measure used to evaluate a heuristic (referred to as the folding ratio of the heuristic) is the worst case ratio of the optimal value to the value produced by the heuristic. The results indicate very strongly that no polynomial time approximation algorithm can guarantee a constant worst case ratio for an arbitrary PLA. However, for restricted classes of PLA's, it is shown that constant ratios can be obtained in polynomial time. A variant of the folding problem (the orderability problem) is addressed, and some new results are presented.

Ravi, S.S.

1984-01-01T23:59:59.000Z

205

Folded-path optical analysis gas cell  

DOE Patents [OSTI]

A folded-path gas cell employs an elliptical concave mirror in confronting relationship to two substantially spherical concave mirrors. At least one of the spherical mirrors, and usually both, are formed with an added cylindrical component to increase orthogonal foci coincidence and thereby to increase the radiation energy throughput characteristic of the cell. 10 figs.

Carangelo, R.M.; Wright, D.D.

1995-08-08T23:59:59.000Z

206

Folded-path optical analysis gas cell  

DOE Patents [OSTI]

A folded-path gas cell employs an elliptical concave mirror in confronting relationship to two substantially spherical concave mirrors. At least one of the spherical mirrors, and usually both, are formed with an added cylindrical component to increase orthogonal focii coincidence and thereby to increase the radiation energy throughput characteristic of the cell.

Carangelo, Robert M. (Glastonbury, CT); Wright, David D. (Vershire, VT)

1995-01-01T23:59:59.000Z

207

Critical aspects of hierarchical protein folding  

E-Print Network [OSTI]

We argue that the first order folding transitions of proteins observed at physiological chemical conditions end in a critical point for a given temperature and chemical potential of the surrounding water. We investigate this critical point using a hierarchical Hamiltonian and determine its universality class. This class differs qualitatively from those of other known models.

Alex Hansen; Mogens H. Jensen; Kim Sneppen; Giovanni Zocchi

1998-01-13T23:59:59.000Z

208

Solvent-induced forces in protein folding  

SciTech Connect (OSTI)

The solvent-induced forces between various groups on the protein are examined. It is found that the intramolecular hydrophilic forces are likely to be the strongest forces mediated through the solvent. It is argued that these are probably the most important solvent-induced driving forces in the process of protein folding.

Ben-Naim, A. (Hebrew Univ., Jerusalem (Israel))

1990-08-23T23:59:59.000Z

209

Optimization of a Microfluidic Mixer for Studying Protein Folding Kinetics  

E-Print Network [OSTI]

Optimization of a Microfluidic Mixer for Studying Protein Folding Kinetics David E. Hertzog with numerical simulations to minimize the mixing time of a microfluidic mixer developed for protein folding reported continuous flow mixer for protein folding. Fast events in protein folding often occur

Santiago, Juan G.

210

COMMUNICATION First Principles Prediction of Protein Folding Rates  

E-Print Network [OSTI]

COMMUNICATION First Principles Prediction of Protein Folding Rates Derek A. Debe and William A studies have demonstrated that many small, single-domain proteins fold via simple two-state kinetics. We. # 1999 Academic Press Keywords: protein folding; kinetics; diffusion; fold topology; nucleation

Goddard III, William A.

211

Cellular mechanisms of membrane protein folding William R Skach  

E-Print Network [OSTI]

Cellular mechanisms of membrane protein folding William R Skach The membrane protein­folding. This Perspective will focus on emerging evidence that the RTC functions as a protein-folding machine that restricts. The process of polytopic (multispanning) membrane protein folding can be viewed as a series of sequential

Cai, Long

212

Nonlinear dynamics of secondary protein folding Natalia G. Berloff  

E-Print Network [OSTI]

Nonlinear dynamics of secondary protein folding Natalia G. Berloff Department of Applied field varies. Pacs: 87.15.-v, 87.15By, 05.45.-a, 41.20Jb Keywords: Folding pathway, protein folding interaction and hydrophobic effects. The most common shapes of the protein folding are alpha () and beta

213

Protein folding by zipping and assembly S. Banu Ozkan*  

E-Print Network [OSTI]

Protein folding by zipping and assembly S. Banu Ozkan* , G. Albert Wu* , John D. Chodera, CA, May 2, 2007 (received for review April 13, 2006) How do proteins fold so quickly? Some denatured proteins fold to their native structures in only microseconds, on average, implying that there is a folding

Southern California, University of

214

Polypeptide chain collapse and protein folding Jayant B. Udgaonkar  

E-Print Network [OSTI]

Review Polypeptide chain collapse and protein folding Jayant B. Udgaonkar National Centre is an integral component of a protein folding reaction. In this review, exper- imental characterization solvent [2]. A distinctive physical feature of any protein folding reaction is the greater than 3-fold

215

Early Events in Protein Folding Explored by Rapid Mixing Methods  

E-Print Network [OSTI]

15 Early Events in Protein Folding Explored by Rapid Mixing Methods Heinrich Roder, Kosuke Maki for Understanding Protein Folding As with any complex reaction, time-resolved data are essential for elucidating the mechanism of protein folding. Even in cases where the whole process of folding occurs in a single step

Roder, Heinrich

216

Automated Discovery of Structural Signatures of Protein Fold and Function  

E-Print Network [OSTI]

Automated Discovery of Structural Signatures of Protein Fold and Function Marcel Turcotte1 sys- tematically for protein fold signatures, we have explored the use of Inductive Logic Programming fold. The work showed that signatures of protein folds exist, about half of rules discov- ered

Muggleton, Stephen H.

217

Heteropolymer Folding 9 1. C. Gh'elis and J. Yon, Protein Folding (Academic, New York, 1982).  

E-Print Network [OSTI]

Heteropolymer Folding 9 References 1. C. Gh'elis and J. Yon, Protein Folding (Academic, New York, editor, The Protein Folding Problem (Westview, Boulder, 1984).. 5. N. G??o, Annu. Rev. Biophys. Bioeng. 12 for Protein Folding, Europhys. Lett. 6, 307 (1988). 14. G. Iori, E. Marinari, G. Parisi and M. V. Struglia

Roma "La Sapienza", Università di

218

Proceedings of the 17th Central Hardwood Forest Conference GTR-NRS-P-78 (2011) 134 MAXIMIZING CARBON STORAGE IN THE APPALACHIANS  

E-Print Network [OSTI]

may also provide a baseline for a full accounting of forestry carbon offset projects. The ability CARBON STORAGE IN THE APPALACHIANS: A METHOD FOR CONSIDERING THE RISK OF DISTURBANCE EVENTS Michael R to disturbance events can influence the prediction of carbon flux over a planning horizon, and can affect

219

Planning to fold multiple objects from a single self-folding sheet  

E-Print Network [OSTI]

This paper considers planning and control algorithms that enable a programmable sheet to realize different shapes by autonomous folding. Prior work on self-reconfiguring machines has considered modular systems in which ...

An, Byoung Kwon

220

Strontium isotope quantification of siderite, brine and acid mine drainage contributions to abandoned gas well discharges in the Appalachian Plateau  

SciTech Connect (OSTI)

Unplugged abandoned oil and gas wells in the Appalachian region can serve as conduits for the movement of waters impacted by fossil fuel extraction. Strontium isotope and geochemical analysis indicate that artesian discharges of water with high total dissolved solids (TDS) from a series of gas wells in western Pennsylvania result from the infiltration of acidic, low Fe (Fe < 10 mg/L) coal mine drainage (AMD) into shallow, siderite (iron carbonate)-cemented sandstone aquifers. The acidity from the AMD promotes dissolution of the carbonate, and metal- and sulfate-contaminated waters rise to the surface through compromised abandoned gas well casings. Strontium isotope mixing models suggest that neither upward migration of oil and gas brines from Devonian reservoirs associated with the wells nor dissolution of abundant nodular siderite present in the mine spoil through which recharge water percolates contribute significantly to the artesian gas well discharges. Natural Sr isotope composition can be a sensitive tool in the characterization of complex groundwater interactions and can be used to distinguish between inputs from deep and shallow contamination sources, as well as between groundwater and mineralogically similar but stratigraphically distinct rock units. This is of particular relevance to regions such as the Appalachian Basin, where a legacy of coal, oil and gas exploration is coupled with ongoing and future natural gas drilling into deep reservoirs.

Chapman, Elizabeth C.; Capo, Rosemary C.; Stewart, Brian W.; Hedin, Robert S.; Weaver, Theodore J.; Edenborn, Harry M.

2013-04-01T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


221

Simple Models of the Protein Folding Problem  

E-Print Network [OSTI]

The protein folding problem has attracted an increasing attention from physicists. The problem has a flavor of statistical mechanics, but possesses the most common feature of most biological problems -- the profound effects of evolution. I will give an introduction to the problem, and then focus on some recent work concerning the so-called ``designability principle''. The designability of a structure is measured by the number of sequences that have that structure as their unique ground state. Structures differ drastically in terms of their designability; highly designable structures emerge with a number of associated sequences much larger than the average. These highly designable structures 1) possess ``proteinlike'' secondary structures and motifs, 2) are thermodynamically more stable, and 3) fold faster than other structures. These results suggest that protein structures are selected in nature because they are readily designed and stable against mutations, and that such selection simultaneously leads to thermodynamic stability and foldability. According to this picture, a key to the protein folding problem is to understand the emergence and the properties of the highly designable structures.

Chao Tang

1999-12-26T23:59:59.000Z

222

On the 'Scattered' Inclinations in the Kuiper Belt  

E-Print Network [OSTI]

This paper shows that the inclinations of bodies captured into mean motion resonances in the Kuiper belt have remained very nearly unchanged, being only slightly increased from initial lower values by migration and/or by long-term planetary perturbations. Thus the observed maximum as high as ~ 30 deg of the i's of bodies in resonance must reflect either a broad initial range at least to that level for capturable bodies or an elevating process possibly exemplified by the sweeping of secular resonances. We have obtained capture probabilities for 2 well-populated resonances, showing reduced but finite values for i's up to 35 deg. Whatever led to the present distribution must have produced increases in i for some, but not for all, resonant bodies in the belt.

Franklin, Fred

2015-01-01T23:59:59.000Z

223

ENHANCEMENT OF TERRESTRIAL CARBON SINKS THROUGH RECLAMATION OF ABANDONED MINE LANDS IN THE APPALACHIAN REGION  

SciTech Connect (OSTI)

The U.S.D.I. Office of Surface Mining (OSM) estimates that there are approximately 1 million acres of abandoned mine land (AML) in the Appalachian region. AML lands are classified as areas that were inadequately reclaimed or were left unreclaimed prior to the passage of the 1977 Surface Mining Control and Reclamation Act, and where no federal or state laws require any further reclamation responsibility to any company or individual. Reclamation and afforestation of these sites have the potential to provide landowners with cyclical timber revenues, generate environmental benefits to surrounding communities, and sequester carbon in the terrestrial ecosystem. Through a memorandum of understanding, the OSM and the U.S. Department of Energy (DOE) have decided to investigate reclaiming and afforesting these lands for the purpose of mitigating the negative effects of anthropogenic carbon dioxide in the atmosphere. This study determined the carbon sequestration potential of northern red oak (Quercus rubra L.), one of the major reclamation as well as commercial species, planted on West Virginia AML sites. Analyses were conducted to (1) calculate the total number of tons that can be stored, (2) determine the cost per ton to store carbon, and (3) calculate the profitability of managing these forests for timber production alone and for timber production and carbon storage together. The Forest Management Optimizer (FORMOP) was used to simulate growth data on diameter, height, and volume for northern red oak. Variables used in this study included site indices ranging from 40 to 80 (base age 50), thinning frequencies of 0, 1, and 2, thinning percentages of 20, 25, 30, 35, and 40, and a maximum rotation length of 100 years. Real alternative rates of return (ARR) ranging from 0.5% to 12.5% were chosen for the economic analyses. A total of 769,248 thinning and harvesting combinations, net present worths, and soil expectation values were calculated in this study. Results indicate that the cost per ton to sequester carbon ranges from $6.54 on site index 80 land at a 12.5% ARR to $36.68 on site index 40 land at an ARR of 0.5%. Results also indicate that the amount of carbon stored during one rotation ranges between 38 tons per acre on site index 40 land to 58 tons per acre on site index 80 land. The profitability of afforestation on these AML sites in West Virginia increases as the market price for carbon increases from $0 to $100 per ton.

Gary D. Kronrad

2002-12-01T23:59:59.000Z

224

Why are MD simulated protein folding times wrong? Dmitry Nerukh  

E-Print Network [OSTI]

Why are MD simulated protein folding times wrong? Dmitry Nerukh Unilever Centre for Molecular.ac.uk The question of significant deviations of protein folding times simulated using molecular dynamics from

Nerukh, Dmitry

225

Protein Folding Simulation in CCP Luca Bortolussi1  

E-Print Network [OSTI]

Protein Folding Simulation in CCP Luca Bortolussi1 , Alessandro Dal Pal`u1 , Agostino Dovier1 as the protein folding. This problem is fundamental for biological and pharmaceutical research. Currently

Bortolussi, Luca

226

New Crystal Structures Lift Fog around Protein Folding  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

New Crystal Structures Lift Fog around Protein Folding New Crystal Structures Lift Fog around Protein Folding Print Wednesday, 25 July 2012 00:00 Nature's proteins set a high bar...

227

Computational and experimental investigations of forces in protein folding  

E-Print Network [OSTI]

in protein folding is essential to the understanding and treatment of protein misfolding diseases. When proteins fold, a significant amount of surface area is buried in the protein interior. It has long been known that burial of hydrophobic surface area...

Schell, David Andrew

2005-02-17T23:59:59.000Z

228

Experimental and Computational Studies on Protein Folding, Misfolding and Stability  

E-Print Network [OSTI]

Proteins need fold to perform their biological function. Thus, understanding how proteins fold could be the key to understanding life. In the first study, the stability and structure of several !-hairpin peptide variants derived from the C...

Wei, Yun

2010-07-14T23:59:59.000Z

229

Data From HANE-Generated Radiation Belts and the Origin of Diffusion Theory  

SciTech Connect (OSTI)

In this presentation we briefly review some of the published data regarding the artificial radiation belts produced by the Starfish and R2 high altitude nuclear explosions in 1962. The data showed slow temporal variations of the belts in altitude (L) and pitch angle ({alpha}) that could be modeled as a diffusion process. That early work formed the basis for more complex radiation belt diffusion models that are in use at present.

Winske, Dan [Los Alamos National Laboratory

2012-07-16T23:59:59.000Z

230

Introduction to protein folding for physicists  

E-Print Network [OSTI]

The prediction of the three-dimensional native structure of proteins from the knowledge of their amino acid sequence, known as the protein folding problem, is one of the most important yet unsolved issues of modern science. Since the conformational behaviour of flexible molecules is nothing more than a complex physical problem, increasingly more physicists are moving into the study of protein systems, bringing with them powerful mathematical and computational tools, as well as the sharp intuition and deep images inherent to the physics discipline. This work attempts to facilitate the first steps of such a transition. In order to achieve this goal, we provide an exhaustive account of the reasons underlying the protein folding problem enormous relevance and summarize the present-day status of the methods aimed to solving it. We also provide an introduction to the particular structure of these biological heteropolymers, and we physically define the problem stating the assumptions behind this (commonly implicit) definition. Finally, we review the 'special flavor' of statistical mechanics that is typically used to study the astronomically large phase spaces of macromolecules. Throughout the whole work, much material that is found scattered in the literature has been put together here to improve comprehension and to serve as a handy reference.

Pablo Echenique

2007-05-13T23:59:59.000Z

231

Combinatorial Problems on Strings with Applications to Protein Folding  

E-Print Network [OSTI]

Combinatorial Problems on Strings with Applications to Protein Folding Alantha Newman MIT San Jose, CA 95120, USA ruhl@almaden.ibm.com Abstract We consider the problem of protein folding in linear time. 1 Introduction We consider the problem of protein folding in the HP model on the three

Newman, Alantha

232

Protein Folding Simulation by Two-Stage Optimization  

E-Print Network [OSTI]

Protein Folding Simulation by Two-Stage Optimization A. Dayem Ullah1 , L. Kapsokalivas1 , M. Mann2 propose a two-stage optimization approach for protein folding simulation in the FCC lattice, inspired from procedure based on simulated annealing alone. 1 Introduction The question of how proteins fold and whether

Will, Sebastian

233

Protein folding with stochastic L-systems Gemma Danks1  

E-Print Network [OSTI]

Protein folding with stochastic L-systems Gemma Danks1 , Susan Stepney1 and Leo Caves1 1 University-like structures. Models of protein folding vary in complexity and the amount of prior knowledge they contain). The energy landscape theory of protein folding (Onuchic et al., 1997) predicts a rugged funnel-like energy

Stepney, Susan

234

Protein Folding Challenge and Theoretical Computer Science Somenath Biswas  

E-Print Network [OSTI]

Protein Folding Challenge and Theoretical Computer Science Somenath Biswas Department of Computer the chain of amino acids that defines a protein. The protein folding problem is: given a sequence of amino to use an efficient algorithm to carry out protein folding. The atoms in a protein molecule attract each

Biswas, Somenath

235

Distribution of Protein Folds in the Three Superkingdoms of Life  

E-Print Network [OSTI]

Distribution of Protein Folds in the Three Superkingdoms of Life Yuri I. Wolf,1,4 Steven E. Brenner Pharmacology and Biological Chemistry, Northwestern University, Chicago, Illinois 60611 USA A sensitive protein-fold to protein kinases, -propellers and TIM-barrels. The observed diversity of protein folds in different

236

Femtomole Mixer for Microsecond Kinetic Studies of Protein Folding  

E-Print Network [OSTI]

Femtomole Mixer for Microsecond Kinetic Studies of Protein Folding David E. Hertzog,, Xavier a microfluidic mixer for studying protein folding and other reactions with a mixing time of 8 µs and sample) measurements of single-stranded DNA. We also demon- strate the feasibility of measuring fast protein folding

Michalet, Xavier

237

Polymer Collapse, Protein Folding, and the Percolation Threshold  

E-Print Network [OSTI]

Polymer Collapse, Protein Folding, and the Percolation Threshold HAGAI MEIROVITCH University (Macromolecules 1989, 22, 3986­3997) to study protein folding, where H and P are the hydrophobic and polar amino; computer simulation; collapse transition; protein folding Introduction The behavior of dilute polymer

Meirovitch, Hagai

238

Thermodynamics of Protein Folding from Coarse-Grained Models' Perspectives  

E-Print Network [OSTI]

8 Thermodynamics of Protein Folding from Coarse-Grained Models' Perspectives Michael Bachmann applications. In this lecture, we focus on the anal- ysis of mesoscopic models for protein folding, aggregation for a more universal description of the notoriously difficult problem of protein fold- ing. In this approach

Janke, Wolfhard

239

Author's personal copy Protein folding in confined and crowded environments  

E-Print Network [OSTI]

Author's personal copy Review Protein folding in confined and crowded environments Huan-Xiang Zhou protein folding in cellular environments. Theories based on considerations of excluded volumes predict disparate effects on protein folding stability for confinement and crowding: confinement can stabilize

Weston, Ken

240

John von Neumann Institute for Computing Monte Carlo Protein Folding  

E-Print Network [OSTI]

John von Neumann Institute for Computing Monte Carlo Protein Folding: Simulations of Met://www.fz-juelich.de/nic-series/volume20 #12;#12;Monte Carlo Protein Folding: Simulations of Met-Enkephalin with Solvent-Accessible Area difficulties in applying Monte Carlo methods to protein folding. The solvent-accessible area method, a popular

Hsu, Hsiao-Ping

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


241

Protein folding: Then and now Yiwen Chen 1  

E-Print Network [OSTI]

Review Protein folding: Then and now Yiwen Chen 1 , Feng Ding 1 , Huifen Nie 1 , Adrian W decades the protein folding field has undergone monumental changes. Originally a purely academic question, how a protein folds has now become vital in understanding diseases and our abilities to rationally

Dokholyan, Nikolay V.

242

Author's personal copy Protein folding: Then and now  

E-Print Network [OSTI]

Author's personal copy Review Protein folding: Then and now Yiwen Chen 1 , Feng Ding 1 , Huifen Nie Available online 8 June 2007 Abstract Over the past three decades the protein folding field has undergone monumental changes. Originally a purely academic question, how a protein folds has now become vital

Dokholyan, Nikolay V.

243

COMMUNICATION Are Residues in a Protein Folding Nucleus  

E-Print Network [OSTI]

COMMUNICATION Are Residues in a Protein Folding Nucleus Evolutionarily Conserved? Yan Yuan Tseng is the hallmark of life. It is important to understand how protein folding and evolution influence each other in protein folding nucleus as measured by experi- mental f-value and selection pressure as measured by v

Dai, Yang

244

MATHEMATICAL MODELS OF PROTEIN FOLDING Daniel B. Dix  

E-Print Network [OSTI]

MATHEMATICAL MODELS OF PROTEIN FOLDING Daniel B. Dix Department of Mathematics University of South Carolina Abstract. We present an elementary introduction to the protein folding problem directed toward, and biological problem, protein folding can also be precisely formulated as a set of mathematics problems. We

Dix, Daniel B.

245

Evolutionary Monte Carlo for protein folding simulations Faming Lianga)  

E-Print Network [OSTI]

Evolutionary Monte Carlo for protein folding simulations Faming Lianga) Department of Statistics to simulations of protein folding on simple lattice models, and to finding the ground state of a protein. In all structures in protein folding. The numerical results show that it is drastically superior to other methods

Liang, Faming

246

Steiner Minimal Trees, Twist Angles, and the Protein Folding Problem  

E-Print Network [OSTI]

Steiner Minimal Trees, Twist Angles, and the Protein Folding Problem J. MacGregor Smith, Yunho Jang. These properties should be ultimately useful in the ab ini- tio protein folding prediction. Proteins 2007;66:889­ 902. VVC 2006 Wiley-Liss, Inc. Key words: Steiner trees; twist angles; protein fold- ing; side chain

Smith, J. MacGregor

247

Modeling Protein Folding Pathways Christopher Bystroff, Yu Shao  

E-Print Network [OSTI]

Modeling Protein Folding Pathways Christopher Bystroff, Yu Shao Dept of Biology Rensselaer Polytechnic Institute, Troy, NY. e-mail:{bystrc, shaoy}@rpi.edu Summary Proteins fold through a series of intermediate states called a pathway. Protein folding pathways have been modeled using either simulations

Bystroff, Chris

248

Folding simulations of small proteins Seung-Yeon Kima  

E-Print Network [OSTI]

Abstract Understanding how a protein folds is a long-standing challenge in modern science. We have used-native conformations are carried out for each protein. In all cases, proteins fold into their native-like conformations, ~108 Monte Carlo steps). D 2004 Elsevier B.V. All rights reserved. Keywords: Protein folding; Computer

Lee, Jooyoung

249

E-Print Network 3.0 - asian orogenic belt Sample Search Results  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

All rights reserved. 0022-1376200711503-000415.00 Orogenic Belts and Orogenic Sediment Provenance Summary: rights reserved. 0022-1376200711503-000415.00 315 Orogenic...

250

E-Print Network 3.0 - automatic seat belts Sample Search Results  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

in the United States?: A Meta-analysis University... technology and by changing automobile driver behavior (Desai and You 1992). Seat belt laws are thought... to be the...

251

The Quirky Collider Signals of Folded Supersymmetry  

SciTech Connect (OSTI)

We investigate the collider signals associated with scalar quirks ('squirks') in folded supersymmetric models. As opposed to regular superpartners in supersymmetric models these particles are uncolored, but are instead charged under a new confining group, leading to radically different collider signals. Due to the new strong dynamics, squirks that are pair produced do not hadronize separately, but rather form a highly excited bound state. The excited 'squirkonium' loses energy to radiation before annihilating back into Standard Model particles. We calculate the branching fractions into various channels for this process, which is prompt on collider time-scales. The most promising annihilation channel for discovery is W+photon which dominates for squirkonium near its ground state. We demonstrate the feasibility of the LHC search, showing that the mass peak is visible above the SM continuum background and estimate the discovery reach.

Burdman, Gustavo; Chacko, Z.; Goh, Hock-Seng; Harnik, Roni; Krenke, Christopher A.

2008-08-01T23:59:59.000Z

252

CREATING A GEOLOGIC PLAY BOOK FOR TRENTON-BLACK RIVER APPALACHIAN BASIN EXPLORATION  

SciTech Connect (OSTI)

The Trenton-Black River Appalachian Basin Research Consortium has made significant progress toward their goal of producing a geologic play book for the Trenton-Black River gas play. The final product will include a resource assessment model of Trenton-Black River reservoirs; possible fairways within which to concentrate further studies and seismic programs; and a model for the origin of Trenton-Black River hydrothermal dolomite reservoirs. All seismic data available to the consortium have been examined. Synthetic seismograms constructed for specific wells have enabled researchers to correlate the tops of 15 stratigraphic units determined from well logs to seismic profiles in New York, Pennsylvania, Ohio, West Virginia and Kentucky. In addition, three surfaces for the area have been depth converted, gridded and mapped. A 16-layer velocity model has been developed to help constrain time-to-depth conversions. Considerable progress was made in fault trend delineation and seismic-stratigraphic correlation within the project area. Isopach maps and a network of gamma-ray cross sections supplemented with core descriptions allowed researchers to more clearly define the architecture of the basin during Middle and Late Ordovician time, the control of basin architecture on carbonate and shale deposition and eventually, the location of reservoirs in Trenton Limestone and Black River Group carbonates. The basin architecture itself may be structurally controlled, and this fault-related structural control along platform margins influenced the formation of hydrothermal dolomite reservoirs in original limestone facies deposited in high energy environments. This resulted in productive trends along the northwest margin of the Trenton platform in Ohio. The continuation of this platform margin into New York should provide further areas with good exploration potential. The focus of the petrographic study shifted from cataloging a broad spectrum of carbonate rocks that occur in the Trenton-Black River interval to delineation of regional limestone diagenesis in the basin. A consistent basin-wide pattern of marine and burial diagenesis that resulted in relatively low porosity and permeability in the subtidal facies of these rocks has been documented across the study area. Six diagenetic stages have been recognized: four marine diagenesis stages and two burial diagenesis stages. This dominance of extensive marine and burial diagenesis yielded rocks with low reservoir potential, with the exception of fractured limestone and dolostone reservoirs. Commercial amounts of porosity, permeability and petroleum accumulation appear to be restricted to areas where secondary porosity developed in association with hydrothermal fluid flow along faults and fractures related to basement tectonics. A broad range of geochemical and fluid inclusion analyses have aided in a better understanding of the origin of the dolomites in the Trenton and Black River Groups over the study area. The results of these analyses support a hydrothermal origin for all of the various dolomite types found to date. The fluid inclusion data suggest that all of the dolomite types analyzed formed from hot saline brines. The dolomite is enriched in iron and manganese, which supports a subsurface origin for the dolomitizing brine. Strontium isotope data suggest that the fluids passed through basement rocks or immature siliciclastic rocks prior to forming the dolomites. All of these data suggest a hot, subsurface origin for the dolomites. The project database continued to be redesigned, developed and deployed. Production data are being reformatted for standard relational database management system requirements. Use of the project intranet by industry partners essentially doubled during the reporting period.

Douglas G. Patchen; Katharine Lee Avary; John M. Bocan; Michael Hohn; John B. Hickman; Paul D. Lake; James A. Drahovzal; Christopher D. Laughrey; Jaime Kostelnik; Taury Smith; Ron Riley; Mark Baranoski

2005-04-01T23:59:59.000Z

253

Precambrian Research 136 (2005) 2750 The Wadi Mubarak belt, Eastern Desert of Egypt  

E-Print Network [OSTI]

Precambrian Research 136 (2005) 27­50 The Wadi Mubarak belt, Eastern Desert of Egypt, Graz, Austria b Mansoura University, Faculty of Science, Geology Department, El Mansoura, Egypt c February 2003; accepted 3 September 2004 Abstract The Wadi Mubarak belt in Egypt strikes west­east (and

Fritz, Harald

254

Tolerance of combined salinity and O2 deficiency in Hordeum marinum accessions from the grain-belt of Western Australia  

E-Print Network [OSTI]

grain-belt of Western Australia for tolerance to salinity,in the accessions from Western Australia, as well as K +from the grain-belt of Western Australia. Single heads were

Malik1,2,3, AI; English1,2, JP; Shepherd1,4, KA; Islam2,5, AKMR; Colmer1,2, TD

2009-01-01T23:59:59.000Z

255

Tolerance of combined salinity and O2 deficiency in Hordeum marinum accessions from the grain-belt of Western Australia  

E-Print Network [OSTI]

from the grain-belt of Western Australia for tolerance toin the accessions from Western Australia, as well as K +from the grain-belt of Western Australia. Single heads were

Malik1,2,3, AI; English1,2, JP; Shepherd1,4, KA; Islam2,5, AKMR; Colmer1,2, TD

2009-01-01T23:59:59.000Z

256

The folding energy landscape of Cytochrome c : theoretical and experimental investigations  

E-Print Network [OSTI]

Chemical Frustration in the Protein Folding Landscape: GrandChemical Frustration in the Protein Folding Landscape: GrandEnzyme Catalysis and Protein Folding (Freeman, New York). [

Weinkam, Patrick

2009-01-01T23:59:59.000Z

257

Topology, frustration, folding and function of the inflammatory cytokine Interleukin-1[beta  

E-Print Network [OSTI]

the features of protein folding, where proteins with manychain connectivity on protein folding (53). Application ofhave gone beyond protein folding and have characterized

Capraro, Dominique T.

2008-01-01T23:59:59.000Z

258

Carbon-deuterium bonds as an infrared probe of protein dynamics, local electrostatics and folding  

E-Print Network [OSTI]

and Englander, W. S. , Protein Folding: A Stepwise AssemblyEnglander, S. W. , Protein Folding Intermediates NativeR. L. , How Does Protein Folding Get Started? Trends

Sagle, Laura B.

2006-01-01T23:59:59.000Z

259

Beyond the native state: Exploring the role of partially folded conformations on the protein energy landscape  

E-Print Network [OSTI]

L. & Englander, S. W. (1995). Protein folding intermediates:Unifying features in protein- folding mechanisms. Proc Natlintermediate state in protein folding by a hydrophobic

Connell, Katelyn Blair

2010-01-01T23:59:59.000Z

260

Signatures of the protein folding pathway in two-dimensional ultraviolet spectroscopy  

E-Print Network [OSTI]

2) Dobson, C. M. Protein Folding and Misfolding. Naturethe Complexity of Protein Folding. Curr. Opin. Struct. Biol.Signatures of the Protein Folding Pathway in Two-Dimensional

Jiang, J; Lai, Z; Wang, J; Mukamel, S

2014-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


261

Microfluidic advantage : novel techniques for protein folding and oxygen control in cell cultures  

E-Print Network [OSTI]

Novel Techniques for Protein Folding and Oxygen Control inTemperature Jump System to Study Fast Protein FoldingNovel Techniques for Protein Folding and Oxygen Control in

Polinkovsky, Mark E.; Polinkovsky, Mark E.

2012-01-01T23:59:59.000Z

262

Energy landscapes for protein folding, binding, and aggregation : simple funnels and beyond  

E-Print Network [OSTI]

coordinates capture protein folding on smooth landscapes.in the Prediction of Protein Folding Kinetics. Proc. Natl.Landscapes for Protein Folding, Binding, and Aggregation:

Cho, Samuel Sung-Il

2007-01-01T23:59:59.000Z

263

A dynamical approach to protein folding  

E-Print Network [OSTI]

In this paper we show that a dynamical description of the protein folding process provides an effective representation of equilibrium properties and it allows for a direct investigation of the mechanisms ruling the approach towards the native configuration. The results reported in this paper have been obtained for a two-dimensional toy-model of amino acid sequences, whose native configurations were previously determined by Monte Carlo techniques. The somewhat controversial scenario emerging from the comparison among various thermodynamical indicators is definitely better resolved relying upon a truly dynamical description, that points out the crucial role played by long-range interactions in determining the characteristic step-wise evolution of ``good'' folders to their native state. It is worth stressing that this dynamical scenario is consistent with the information obtained by exploring the energy landscapes of different sequences. This suggests that even the identification of more efficient ``static'' indicators should take into account the peculiar features associated with the complex ``orography'' of the landscape.

Alessandro Torcini; Roberto Livi; Antonio Politi

2001-03-13T23:59:59.000Z

264

Accordian-folded boot shield for flexible swivel connection  

SciTech Connect (OSTI)

This patent describes an apparatus for connecting a first boot section to a second boot section, the first and second boots having openings therethrough, the second boot having at least two adjacent accordion folds at the end having the opening. The second boot is positioned through the opening of the first boot such that a first of the accordion folds is within the first boot and a second of the accordion folds is outside of the first boot comprising: first and second annular discs, the first disc being positioned within and across the first accordion fold, the second disc being positioned within and across the second accordion fold such that the first boot is moveably and rigidly connected between the first and second accordion folds.

Hoh, J.C.

1986-08-26T23:59:59.000Z

265

Inferring the Rate-Length Law of Protein Folding  

E-Print Network [OSTI]

We investigate the rate-length scaling law of protein folding, a key undetermined scaling law in the analytical theory of protein folding. We demonstrate that chain length is a dominant factor determining folding times, and that the unambiguous determination of the way chain length corre- lates with folding times could provide key mechanistic insight into the folding process. Four specific proposed laws (power law, exponential, and two stretched exponentials) are tested against one an- other, and it is found that the power law best explains the data. At the same time, the fit power law results in rates that are very fast, nearly unreasonably so in a biological context. We show that any of the proposed forms are viable, conclude that more data is necessary to unequivocally infer the rate-length law, and that such data could be obtained through a small number of protein folding experiments on large protein domains.

Lane, Thomas J

2013-01-01T23:59:59.000Z

266

An energy landscape theory for cotranslational protein folding  

E-Print Network [OSTI]

Energy landscape theory describes how a full-length protein can attain its native fold by sampling only a tiny fraction of all possible structures. Although protein folding is now understood to be concomitant with synthesis on the ribosome, there have been few attempts to modify energy landscape theory by accounting for cotranslational folding. This paper introduces a model for cotranslational folding that leads to a natural definition of a nested energy landscapes. By applying concepts drawn from submanifold differential geometry, the dynamics of protein folding on the ribosome can be explored in a quantitative manner and conditions on the nested potential energy landscapes for a good cotranslational folder are obtained. A generalisation of diffusion rate theory using van Kampen's technique of composite stochastic processes is then used to account for entropic contributions and the effects of variable translation rates on cotranslational folding. This stochastic approach agrees well with experimental results...

Tourigny, David S

2013-01-01T23:59:59.000Z

267

Green belts in the hands and minds of farmers: A socio-agronomical approach to farmers' practices  

E-Print Network [OSTI]

1 Green belts in the hands and minds of farmers: A socio-agronomical approach to farmers' practices.alavoine-mornas@irstea.fr ; sabine.girard@irstea.fr Keywords: green belts - biodiversity ­ farmers practices ­ French Alps Abstract of intensive agriculture. In France, this topic is addressed by the "blue and green belts" measure, which

Paris-Sud XI, Université de

268

arrestin fold variations: Topics by E-print Network  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

25 Next Page Last Page Topic Index 1 Variational theory for site resolved protein folding free energy surfaces Condensed Matter (arXiv) Summary: We present a microscopic...

269

Protein folding and diffusion: from in vitro to live cells.  

E-Print Network [OSTI]

??Protein folding landscapes and protein-protein interaction landscapes are subject to modulation by many factors inside living cells: crowding, electrostatics, hydrophobic interactions, and even hydrodynamic phenomena. (more)

Guo, Minghao

2014-01-01T23:59:59.000Z

270

Biophysical Studies of Protein Folding and Binding Stability.  

E-Print Network [OSTI]

?? Interactions between charged residues are known to have significant effects on protein folding stability and binding properties. The contributions of different types of non-covalent (more)

Batra, Jyotica

2009-01-01T23:59:59.000Z

271

A Computational Genome-wide Study of Protein Folding Rate.  

E-Print Network [OSTI]

??Proteins should be able to fold to a native three-dimensional structure in a biologically relevant time to be functional. In our current study, we tried (more)

Gorla, Sandeep C.

2012-01-01T23:59:59.000Z

272

New Crystal Structures Lift Fog around Protein Folding  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

New Crystal Structures Lift Fog around Protein Folding Print Nature's proteins set a high bar for nanotechnology. Macromolecules forged from peptide chains of amino acids, these...

273

Variational theory for site resolved protein folding free energy surfaces  

E-Print Network [OSTI]

We present a microscopic variational theory for the free energy surface of a fast folding protein that allows folding kinetics to be resolved to the residue level using Debye-Waller factors as local order parameters. We apply the method to lambda-repressor and compare with site directed mutagenesis experiments. The formation of native structure and the free energy profile along the folding route are shown to be well described by the capillarity approximation but with some fine structure due to local folding topology.

John J. Portman; Shoji Takada; Peter G. Wolynes

1999-01-18T23:59:59.000Z

274

Protein folding: A complex potential for the driving force  

E-Print Network [OSTI]

Using the Helmholtz decomposition of the vector field of folding fluxes in a reduced space of collective variables, a potential of the driving force for protein folding is determined. The potential has two components and can be written as a complex function. One component is responsible for the source and sink of the folding flows (representing, respectively, the unfolded states and the native state of the protein), and the other accounts for the vorticity of the flow that is produced at the boundaries of the main flow by the contact of the moving folding "fluid" with the quiescent surroundings. The theoretical consideration is illustrated by calculations for a model $\\beta$-hairpin protein.

Chekmarev, Sergei F

2013-01-01T23:59:59.000Z

275

Thermodynamics of protein folding: a random matrix formulation  

E-Print Network [OSTI]

The process of protein folding from an unfolded state to a biologically active, folded conformation is governed by many parameters e.g the sequence of amino acids, intermolecular interactions, the solvent, temperature and chaperon molecules. Our study, based on random matrix modeling of the interactions, shows however that the evolution of the statistical measures e.g Gibbs free energy, heat capacity, entropy is single parametric. The information can explain the selection of specific folding pathways from an infinite number of possible ways as well as other folding characteristics observed in computer simulation studies.

Pragya Shukla

2010-10-16T23:59:59.000Z

276

Topological complexity, contact order and protein folding rates  

E-Print Network [OSTI]

Monte Carlo simulations of protein folding show the emergence of a strong correlation between the relative contact order parameter, CO, and the folding time, t, of two-state folding proteins for longer chains with number of amino acids, N>=54, and higher contact order, CO > 0.17. The correlation is particularly strong for N=80 corresponding to slow and more complex folding kinetics. These results are qualitatively compatible with experimental data where a general trend towards increasing t with CO is indeed observed in a set of proteins with chain length ranging from 41 to 154 amino acids.

P. F. N. Faisca; R. C. Ball

2002-05-29T23:59:59.000Z

277

Improving the Availability and Delivery of Critical Information for Tight Gas Resource Development in the Appalachian Basin  

SciTech Connect (OSTI)

To encourage, facilitate and accelerate the development of tight gas reservoirs in the Appalachian basin, the geological surveys in Pennsylvania and West Virginia collected widely dispersed data on five gas plays and formatted these data into a large database that can be accessed by individual well or by play. The database and delivery system that were developed can be applied to any of the 30 gas plays that have been defined in the basin, but for this project, data compilation was restricted to the following: the Mississippian-Devonian Berea/Murrysville sandstone play and the Upper Devonian Venango, Bradford and Elk sandstone plays in Pennsylvania and West Virginia; and the 'Clinton'/Medina sandstone play in northwestern Pennsylvania. In addition, some data were collected on the Tuscarora Sandstone play in West Virginia, which is the lateral equivalent of the Medina Sandstone in Pennsylvania. Modern geophysical logs are the most common and cost-effective tools for evaluating reservoirs. Therefore, all of the well logs in the libraries of the two surveys from wells that had penetrated the key plays were scanned, generating nearly 75,000 scanned e-log files from more than 40,000 wells. A standard file-naming convention for scanned logs was developed, which includes the well API number, log curve type(s) scanned, and the availability of log analyses or half-scale logs. In addition to well logs, other types of documents were scanned, including core data (descriptions, analyses, porosity-permeability cross-plots), figures from relevant chapters of the Atlas of Major Appalachian Gas Plays, selected figures from survey publications, and information from unpublished reports and student theses and dissertations. Monthly and annual production data from 1979 to 2007 for West Virginia wells in these plays are available as well. The final database also includes digitized logs from more than 800 wells, sample descriptions from more than 550 wells, more than 600 digital photos in 1-foot intervals from 11 cores, and approximately 260 references for these plays. A primary objective of the research was to make data and information available free to producers through an on-line data delivery model designed for public access on the Internet. The web-based application that was developed utilizes ESRI's ArcIMS GIS software to deliver both well-based and play-based data that are searchable through user-originated queries, and allows interactive regional geographic and geologic mapping that is play-based. System tools help users develop their customized spatial queries. A link also has been provided to the West Virginia Geological Survey's 'pipeline' system for accessing all available well-specific data for more than 140,000 wells in West Virginia. However, only well-specific queries by API number are permitted at this time. The comprehensive project web site (http://www.wvgs.wvnet.edu/atg) resides on West Virginia Geological Survey's servers and links are provided from the Pennsylvania Geological Survey and Appalachian Oil and Natural Gas Research Consortium web sites.

Mary Behling; Susan Pool; Douglas Patchen; John Harper

2008-12-31T23:59:59.000Z

278

Innovative Methodology for Detection of Fracture-Controlled Sweet Spots in the Northern Appalachian Basin  

SciTech Connect (OSTI)

For two consecutive years, 2004 and 2005, the largest natural gas well (in terms of gas flow/day) drilled onshore USA targeted the Ordovician Trenton/Black River (T/BR) play in the Appalachian Basin of New York State (NYS). Yet, little data were available concerning the characteristics of the play, or how to recognize and track T/BR prospects across the region. Traditional exploration techniques for entry into a hot play were of limited use here, since existing deep well logs and public domain seismic were almost non-existent. To help mitigate this problem, this research project was conceived with two objectives: (1) to demonstrate that integrative traditional and innovative techniques could be used as a cost-effective reconnaissance exploration methodology in this, and other, areas where existing data in targeted fracture-play horizons are almost non-existent, and (2) determine critical characteristics of the T/BR fields. The research region between Seneca and Cayuga lakes (in the Finger Lakes of NYS) is on strike and east of the discovery fields, and the southern boundary of the field area is about 8 km north of more recently discovered T/BR fields. Phase I, completed in 2004, consisted of integrating detailed outcrop fracture analyses with detailed soil gas analyses, lineaments, stratigraphy, seismic reflection data, well log data, and aeromagnetics. In the Seneca Lake region, Landsat lineaments (EarthSat, 1997) were coincident with fracture intensification domains (FIDs) and minor faults observed in outcrop and inferred from stratigraphy. Soil gas anomalies corresponded to ENE-trending lineaments and FIDs. N- and ENE-trending lineaments were parallel to aeromagnetic anomalies, whereas E-trending lineaments crossed aeromagnetic trends. 2-D seismic reflection data confirmed that the E-trending lineaments and FIDs occur where shallow level Alleghanian salt-cored thrust-faulted anticlines occur. In contrast, the ENE-trending FIDs and lineaments occur where Iapetan rift faults have been episodically reactivated, and a few of these faults extend through the entire stratigraphic section. The ENE-trending faults and N-striking transfer zones controlled the development of the T/BR grabens. In both the Seneca Lake and Cayuga Lake regions, we found more FIDs than Landsat lineaments, both in terms of individual FIDs and trends of FIDs. Our fused Landsat/ASTER image provided more lineaments, but the structural framework inferred from these lineaments is incomplete even for the fused image. Individual lineaments may not predict surface FIDs (within 500m). However, an individual lineament that has been groundtruthed by outcrop FIDs can be used as a proxy for the trend of intense fracturing. Aeromagnetics and seismic reflection data across the discovery fields west of Keuka Lake demonstrate that the fields terminate on the east against northerly-striking faults that extend from Precambrian basement to, in some cases, the surface; the fields terminate in the west at N- and NW-striking faults. Seismic and well log data show that the fields must be compartmentalized, since different parts of the same field show different histories of development. T/BR fields south of the research area also terminate (on the east) against northerly-trending lineaments which we suggest mark faults. Phase II, completed in 2006, consisted of collection and analysis of an oriented, horizontal core retrieved from one of the T/BR fields in a graben south of the field area. The field is located along ENE-trending EarthSat (1997) lineaments, similar to that hypothesized for the study area. The horizontal core shows much evidence for reactivation along the ENE-trending faults, with multiple events of vein development and both horizontal and vertical stylolite growth. Horizontal veins that post- and pre-date other vein sets indicate that at least two orogenic phases (separated by unloading) affected vein development. Many of the veins and releasing bend features (rhombochasms) are consistent with strike-slip motion (oblique) along ENE-striking faults as a result

Robert Jacobi; John Fountain; Stuart Loewenstein; Edward DeRidder; Bruce Hart

2007-03-31T23:59:59.000Z

279

Statistical Analysis of Protein Folding Kinetics Aaron R. Dinner  

E-Print Network [OSTI]

Statistical Analysis of Protein Folding Kinetics Aaron R. Dinner , Sung-Sau So ¡ , and Martin and theoretical studies over several years have led to the emergence of a unified general mechanism for protein folding that serves as a framework for the design and interpretation of research in this area [1

Dinner, Aaron

280

Multi-Agent Simulation of Protein Folding Luca Bortolussi1  

E-Print Network [OSTI]

Multi-Agent Simulation of Protein Folding Luca Bortolussi1 , Agostino Dovier1 , and Federico residues) is known. The process for reaching this state is known as the protein fold- ing. This problem the feasibility and the power of the method. Keywords: Computational Biology, Agent-Based Technologies, Protein

Bortolussi, Luca

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


281

Thermodynamic control and dynamical regimes in protein folding  

E-Print Network [OSTI]

Monte Carlo simulations of a simple lattice model of protein folding show two distinct regimes depending on the chain length. The first regime well describes the folding of small protein sequences and its kinetic counterpart appears to be single exponential in nature, while the second regime is typical of sequences longer than 80 amino acids and the folding performance achievable is sensitive to target conformation. The extent to which stability, as measured by the energy of a sequence in the target, is an essential requirement and affects the folding dynamics of protein molecules in the first regime is investigated. The folding dynamics of sequences whose design stage was restricted to a certain fraction of randomly selected amino acids shows that while some degree of stability is a necessary and sufficient condition for successful folding, designing sequences that provide the lowest energy in the target seems to be a superfluous constraint. By studying the dynamics of under annealed but otherwise freely designed sequences we explore the relation between stability and kinetic accessibility. We find that there is no one-to-one correspondence between having low energy and folding quickly to the target, as only a small fraction of the most stable sequences were also found to fold relatively quickly.

P. F. N. Faisca; R. C. Ball

2001-10-07T23:59:59.000Z

282

Method for fabricating fan-fold shielded electrical leads  

DOE Patents [OSTI]

Fan-folded electrical leads made from copper cladded Kapton, for example, with the copper cladding on one side serving as a ground plane and the copper cladding on the other side being etched to form the leads. The Kapton is fan folded with the leads located at the bottom of the fan-folds. Electrical connections are made by partially opening the folds of the fan and soldering, for example, the connections directly to the ground plane and/or the lead. The fan folded arrangement produces a number of advantages, such as electrically shielding the leads from the environment, is totally non-magnetic, and has a very low thermal conductivity, while being easy to fabricate. 3 figures.

Rohatgi, R.R.; Cowan, T.E.

1994-12-27T23:59:59.000Z

283

Method for fabricating fan-fold shielded electrical leads  

DOE Patents [OSTI]

Fan-folded electrical leads made from copper cladded Kapton, for example, with the copper cladding on one side serving as a ground plane and the copper cladding on the other side being etched to form the leads. The Kapton is fan folded with the leads located at the bottom of the fan-folds. Electrical connections are made by partially opening the folds of the fan and soldering, for example, the connections directly to the ground plane and/or the lead. The fan folded arrangement produces a number of advantages, such as electrically shielding the leads from the environment, is totally non-magnetic, and has a very low thermal conductivity, while being easy to fabricate.

Rohatgi, Rajeev R. (Mountain View, CA); Cowan, Thomas E. (Livermore, CA)

1994-01-01T23:59:59.000Z

284

Polymer uncrossing and knotting in protein folding, and their role in minimal folding pathways  

E-Print Network [OSTI]

We introduce a method for calculating the extent to which chain non-crossing is important in the most efficient, optimal trajectories or pathways for a protein to fold. This involves recording all unphysical crossing events of a ghost chain, and calculating the minimal uncrossing cost that would have been required to avoid such events. A depth-first tree search algorithm is applied to find minimal transformations to fold $\\alpha$, $\\beta$, $\\alpha/\\beta$, and knotted proteins. In all cases, the extra uncrossing/non-crossing distance is a small fraction of the total distance travelled by a ghost chain. Different structural classes may be distinguished by the amount of extra uncrossing distance, and the effectiveness of such discrimination is compared with other order parameters. It was seen that non-crossing distance over chain length provided the best discrimination between structural and kinetic classes. The scaling of non-crossing distance with chain length implies an inevitable crossover to entanglement-do...

Mohazab, Ali R

2012-01-01T23:59:59.000Z

285

The Electric Field and Waves Instruments on the Radiation Belt Storm Probes Mission  

E-Print Network [OSTI]

The Electric Fields and Waves (EFW) Instruments on the two Radiation Belt Storm Probe (RBSP) spacecraft (recently renamed the Van Allen Probes) are designed to measure three dimensional quasi-static and low frequency ...

Wygant, J. R.

286

At several localities around the world, thrust belts have developed on both sides of  

E-Print Network [OSTI]

of the Eastern Greater Antilles arc (Hispaniola and Puerto Rico), whereas a south-verging thrust belt called; Fig. 2). The Eastern Greater Antilles arc (Hispaniola and Puerto Rico) of the northeastern Caribbean

ten Brink, Uri S.

287

Subaqueous calderas in the Archean Abitibi greenstone belt: An overview and W.U. Mueller a,  

E-Print Network [OSTI]

, physical volcanology, dyke emplacement, and hydrothermal carbonate alteration. These subaqueous calderas-documented hydrothermal carbonate alteration isdiscussed and a newexploration model for calderas is presented Available online 6 January 2009 Keywords: Archean calderas VMS deposits Abitibi belt Volcanology Carbonate

Long, Bernard

288

Physics of Caustics and Protein Folding: Mathematical Parallels  

E-Print Network [OSTI]

The energy for protein folding arises from multiple sources and is not large in total. In spite of the many specific successes of energy landscape and other approaches, there still seems to be some missing guiding factor that explains how energy from diverse small sources can drive a complex molecule to a unique state. We explore the possibility that the missing factor is in the geometry. A comparison of folding with other physical phenomena, together with analytic modeling of a molecule, led us to analyze the physics of optical caustic formation and of folding behavior side-by-side. The physics of folding and caustics is ostensibly very different but there are several strong parallels. This comparison emphasizes the mathematical similarity and also identifies differences. Since the 1970's, the physics of optical caustics has been developed to a very high degree of mathematical sophistication using catastrophe theory. That kind of quantitative application of catastrophe theory has not previously been applied to folding nor have the points of similarity with optics been identified or exploited. A putative underlying physical link between caustics and folding is a torsion wave of non-constant wave speed, propagating on the dihedral angles and $\\Psi$ found in an analytical model of the molecule. Regardless of whether we have correctly identified an underlying link, the analogy between caustic formation and folding is strong and the parallels (and differences) in the physics are useful.

Walter Simmons; Joel L. Weiner

2011-08-13T23:59:59.000Z

289

Criterion based Two Dimensional Protein Folding Using Extended GA  

E-Print Network [OSTI]

Abstract In the dynamite field of biological and protein research, the protein fold recognition for long pattern protein sequences is a great confrontation for many years. With that consideration, this paper contributes to the protein folding research field and presents a novel procedure for mapping appropriate protein structure to its correct 2D fold by a concrete model using swarm intelligence. Moreover, the model incorporates Extended Genetic Algorithm (EGA) with concealed Markov model (CMM) for effectively folding the protein sequences that are having long chain lengths. The protein sequences are preprocessed, classified and then, analyzed with some parameters (criterion) such as fitness, similarity and sequence gaps for optimal formation of protein structures. Fitness correlation is evaluated for the determination of bonding strength of molecules, thereby involves in efficient fold recognition task. Experimental results have shown that the proposed method is more adept in 2D protein folding and outperforms the existing algorithms. Index Terms classification, CMM, criterion analysis, EGA, protein folding, sequence gaps I.

T. Kalai Chelvi; P. Rangarajan

290

Solid bitumen at Atigun Gorge, central Brooks Range front: Implications for oil exploration in the North Slope fold and thrust belt  

SciTech Connect (OSTI)

The Atigun Gorge area of the north-central Brooks range is a structurally complex region in which a sequence of north-verging duplex structures involving Paleozoic and Mesozoic Ellesmerian continental margin deposits are structurally overlain by a south-verging thrust of Brookian foreland basin deposits of Albian age. The resulting structural triangle zone is marked by numerous small-scale thrusts involving Permian and Triassic strata in which solid bitumen, occupying fissures up to 10 cm wide and several meters in length, has been found. The presence of aromatics in the odorless, black material was confirmed by ultraviolet fluorescence following extraction in dichloromethane. The occurrence of solid bitumen at Atigun Gorge adds to a growing inventory of hydrocarbon-filled fractures found mostly in Cretaceous rocks in the Brooks Range foothills. These occurrences are consistent with a model of hydrocarbon generation beneath the northern margin of the Brooks Range. The regional distribution of vitrinite reflectance isograds suggests that the northern margin of the Brooks Range and the adjoining foreland basin deposits of the North Slope have experienced similar thermal histories. The 0.6% vitrinite reflectance isograd intersects the land surface along the southern margin of the foreland and the 2.0% isograd lies within the northern part of the range. Although these relations suggest the possibility of petroleum resources at shallow depths beneath the Brooks Range foothills, they also indicate that a considerable amount of differential uplift has occurred, probably resulting in redistribution and some leakage of any oil and gas accumulations.

Howell, D.G.; Johnsson, M.J.; Bird, K.J. (U.S. Geological Survey, Menlo Park, CA (United States))

1991-03-01T23:59:59.000Z

291

Conditions during syntectonic vein formation in the footwall of the Absaroka thrust fault of the Idaho-Wyoming-Utah fold and thrust belt  

E-Print Network [OSTI]

the calcite strain gauge technique of Groshong (1972, 1974). 14 Scatter plot of all measured homogenization (Th) and melting temperature (Tm) pairs. . 30 15 P-T diagram used to calculate inclusion entrapment temperatures. . . . . . 31 16 The equilibrium... types of equations of state for the chemical system under scrutiny. Variables associated with a typical equation of state include the measured Th, the measured Tm and a computed fluid density. The microcomputer program FLINCOR (Brown, 1989) was used...

Lambert, George Randall

1993-01-01T23:59:59.000Z

292

Water Ice on the Satellite of Kuiper Belt Object 2003 EL61  

E-Print Network [OSTI]

We have obtained a near infrared spectrum of the brightest satellite of the large Kuiper Belt Object, 2003 EL61. The spectrum has absorption features at 1.5 and 2.0 microns, indicating that water ice is present on the surface. We find that the satellite's absorption lines are much deeper than water ice features typically found on Kuiper Belt Objects. We argue that the unusual spectrum indicates that the satellite was likely formed by impact and not by capture.

K. M Barkume; M. E. Brown; E. L. Schaller

2006-01-24T23:59:59.000Z

293

Computational investigations of folded self-avoiding walks related to protein folding  

E-Print Network [OSTI]

Various subsets of self-avoiding walks naturally appear when investigating existing methods designed to predict the 3D conformation of a protein of interest. Two such subsets, namely the folded and the unfoldable self-avoiding walks, are studied computationally in this article. We show that these two sets are equal and correspond to the whole $n$-step self-avoiding walks for $n\\leqslant 14$, but that they are different for numerous $n \\geqslant 108$, which are common protein lengths. Concrete counterexamples are provided and the computational methods used to discover them are completely detailed. A tool for studying these subsets of walks related to both pivot moves and proteins conformations is finally presented.

Bahi, Jacques M; Mazouzi, Kamel; Philippe, Laurent

2013-01-01T23:59:59.000Z

294

Modeling two-state cooperativity in protein folding  

E-Print Network [OSTI]

A protein model with the pairwise interaction energies varying as local environment changes, i.e., including some kinds of collective effect between the contacts, is proposed. Lattice Monte Carlo simulations on the thermodynamical characteristics and free energy profile show a well-defined two-state behavior and cooperativity of folding for such a model. As a comparison, related simulations for the usual G\\={o} model, where the interaction energies are independent of the local conformations, are also made. Our results indicate that the evolution of interactions during the folding process plays an important role in the two-state cooperativity in protein folding.

K. Fan; J. Wang; W. Wang

2001-03-19T23:59:59.000Z

295

Water dynamics clue to key residues in protein folding  

SciTech Connect (OSTI)

A computational method independent of experimental protein structure information is proposed to recognize key residues in protein folding, from the study of hydration water dynamics. Based on all-atom molecular dynamics simulation, two key residues are recognized with distinct water dynamical behavior in a folding process of the Trp-cage protein. The identified key residues are shown to play an essential role in both 3D structure and hydrophobic-induced collapse. With observations on hydration water dynamics around key residues, a dynamical pathway of folding can be interpreted.

Gao, Meng [State Key Laboratory for Turbulence and Complex Systems, and Department of Biomedical Engineering, and Center for Theoretical Biology, and Center for Protein Science, Peking University, Beijing 100871 (China)] [State Key Laboratory for Turbulence and Complex Systems, and Department of Biomedical Engineering, and Center for Theoretical Biology, and Center for Protein Science, Peking University, Beijing 100871 (China); Zhu, Huaiqiu, E-mail: hqzhu@pku.edu.cn [State Key Laboratory for Turbulence and Complex Systems, and Department of Biomedical Engineering, and Center for Theoretical Biology, and Center for Protein Science, Peking University, Beijing 100871 (China)] [State Key Laboratory for Turbulence and Complex Systems, and Department of Biomedical Engineering, and Center for Theoretical Biology, and Center for Protein Science, Peking University, Beijing 100871 (China); Yao, Xin-Qiu [State Key Laboratory for Turbulence and Complex Systems, and Department of Biomedical Engineering, and Center for Theoretical Biology, and Center for Protein Science, Peking University, Beijing 100871 (China) [State Key Laboratory for Turbulence and Complex Systems, and Department of Biomedical Engineering, and Center for Theoretical Biology, and Center for Protein Science, Peking University, Beijing 100871 (China); Department of Biophysics, Kyoto University, Sakyo Kyoto 606-8502 (Japan); She, Zhen-Su, E-mail: she@pku.edu.cn [State Key Laboratory for Turbulence and Complex Systems, and Department of Biomedical Engineering, and Center for Theoretical Biology, and Center for Protein Science, Peking University, Beijing 100871 (China)] [State Key Laboratory for Turbulence and Complex Systems, and Department of Biomedical Engineering, and Center for Theoretical Biology, and Center for Protein Science, Peking University, Beijing 100871 (China)

2010-01-29T23:59:59.000Z

296

The use of pre- and post-stimulation well test analysis in the evaluation of stimulation effectiveness in the Devonian Shales of the Appalachian Basin  

E-Print Network [OSTI]

gas wells throughout the Appalachian Basin. The analysis of pre-stimulation well tests from four wells in Pike County, KY illustrates the practical difficulties in obtaining analyzable data from Devonian Shale wells. Fig. 1 shows the location... and requires that the flow periods prior to shut-in be even longer. The Martin 1 well located in Martin County, KY illustrates the problem of an insufficient flow period in a more typical Devonian Shale well test. The Martin 1 well was studied as part...

Lancaster, David Earl

1988-01-01T23:59:59.000Z

297

Kuiper belt structure around nearby super-Earth host stars  

E-Print Network [OSTI]

We present new observations of the Kuiper belt analogues around HD 38858 and HD 20794, hosts of super-Earth mass planets within 1 au. As two of the four nearby G-type stars (with HD 69830 and 61 Vir) that form the basis of a possible correlation between low-mass planets and debris disc brightness, these systems are of particular interest. The disc around HD 38858 is well resolved with Herschel and we constrain the disc geometry and radial structure. We also present a probable JCMT sub-mm continuum detection of the disc and a CO J=2-1 upper limit. The disc around HD 20794 is much fainter and appears marginally resolved with Herschel, and is constrained to be less extended than the discs around 61 Vir and HD 38858. We also set limits on the radial location of hot dust recently detected around HD 20794 with near-IR interferometry. We present HARPS upper limits on unseen planets in these four systems, ruling out additional super-Earths within a few au, and Saturn-mass planets within 10 au. We consider the disc st...

Kennedy, Grant M; Marmier, Maxime; Greaves, Jane S; Wyatt, Mark C; Bryden, Geoffrey; Holland, Wayne; Lovis, Christophe; Matthews, Brenda C; Pepe, Francesco; Sibthorpe, Bruce; Udry, Stphane

2015-01-01T23:59:59.000Z

298

Initial highlights from the Herschel Gould Belt survey  

E-Print Network [OSTI]

We summarize the first results from the Gould Belt survey, obtained toward the Aquila Rift and Polaris Flare regions during the 'science demonstration phase' of Herschel. Our 70-500 micron images taken in parallel mode with the SPIRE and PACS cameras reveal a wealth of filamentary structure, as well as numerous dense cores embedded in the filaments. Between ~ 350 and 500 prestellar cores and ~ 45-60 Class 0 protostars can be identified in the Aquila field, while ~ unbound starless cores and no protostars are observed in the Polaris field. The prestellar core mass function (CMF) derived for the Aquila region bears a strong resemblance to the stellar initial mass function (IMF), already confirming the close connection between the CMF and the IMF with much better statistics than earlier studies. Comparing and contrasting our Herschel results in Aquila and Polaris, we propose an observationally-driven scenario for core formation according to which complex networks of long, thin filaments form first within molecul...

Andr, Ph; Bontemps, S; Knyves, V; Motte, F; Schneider, N; Didelon, P; Minier, V; Saraceno, P; Ward-Thompson, D; Di Francesco, J; White, G; Molinari, S; Testi, L; Abergel, A; Griffin, M; Henning, Th; Royer, P; Mern, B; Vavrek, R; Attard, M; Arzoumanian, D; Wilson, C D; Ade, P; Aussel, H; Baluteau, J -P; Benedettini, M; Bernard, J -Ph; Blommaert, J A D L; Cambrsy, L; Cox, P; Di Giorgio, A; Hargrave, P; Hennemann, M; Huang, M; Kirk, J; Krause, O; Launhardt, R; Leeks, S; Pennec, J Le; Li, J Z; Martin, P; Maury, A; Olofsson, G; Omont, A; Peretto, N; Pezzuto, S; Prusti, T; Roussel, H; Russeil, D; Sauvage, M; Sibthorpe, B; Sicilia-Aguilar, A; Spinoglio, L; Waelkens, C; Woodcraft, A; Zavagno, A

2010-01-01T23:59:59.000Z

299

Volatile Loss and Classification of Kuiper Belt Objects  

E-Print Network [OSTI]

Observations indicate that some of the largest Kuiper Belt Objects (KBOs) have retained volatiles in the gas phase, which implies the presence of an atmosphere that can affect their reflectance spectra and thermal balance. Volatile escape rates driven by solar heating of the surface were estimated by Schaller and Brown (2007) (SB) and Levi and Podolak (2009)(LP) using Jeans escape from the surface and a hydrodynamic model respectively. Based on recent molecular kinetic simulations these rates can be hugely in error (e.g., a factor of $\\sim 10^{16}$ for the SB estimate for Pluto). In this paper we estimate the loss of primordial N$_2$ for several large KBOs guided by recent molecular kinetic simulations of escape due to solar heating of the surface and due to UV/EUV heating of the upper atmosphere. For the latter we extrapolate simulations of escape from Pluto (Erwin et al. 2013) using the energy limited escape model recently validated for the KBOs of interest by molecular kinetic simulations (Johnson et al. 2...

Johnson, R E; Young, L A; Volkov, A N; Schmidt, C

2015-01-01T23:59:59.000Z

300

Planar resonant periodic orbits in Kuiper belt dynamics  

E-Print Network [OSTI]

In the framework of the planar restricted three body problem we study a considerable number of resonances associated to the Kuiper Belt dynamics and located between 30 and 48 a.u. Our study is based on the computation of resonant periodic orbits and their stability. Stable periodic orbits are surrounded by regular librations in phase space and in such domains the capture of trans-Neptunian object is possible. All the periodic orbits found are symmetric and there is evidence for the existence of asymmetric ones only in few cases. In the present work first, second and third order resonances are under consideration. In the planar circular case we found that most of the periodic orbits are stable. The families of periodic orbits are temporarily interrupted by collisions but they continue up to relatively large values of the Jacobi constant and highly eccentric regular motion exists for all cases. In the elliptic problem and for a particular eccentricity value of the primary bodies the periodic orbits are isolated. The corresponding families, where they belong to, bifurcate from specific periodic orbits of the circular problem and seem to continue up to the rectilinear problem. Both stable and unstable orbits are obtained for each case. In the elliptic problem the unstable orbits found are associated with narrow chaotic domains in phase space. The evolution of the orbits, which are located in such chaotic domains, seems to be practically regular and bounded for long time intervals.

George Voyatzis; Thomas Kotoulas

2005-02-28T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


301

On the Plutinos and Twotinos of the Kuiper Belt  

E-Print Network [OSTI]

We illuminate dynamical properties of Kuiper Belt Objects (KBOs) in the 3:2 (``Plutino'') and 2:1 (``Twotino'') Neptunian resonances within the model of resonant capture and migration. We analyze a series of numerical integrations, each involving the 4 migratory giant planets and 400 test particles distributed throughout trans-Neptunian space, to measure efficiencies of capture as functions of migration speed. Snapshots of the spatial distribution of resonant KBOs reveal that Twotinos cluster +/- 75 degrees away from Neptune's longitude, while Plutinos cluster +/- 90 degrees away. Longitudinal clustering persists even for surveys that are not volume-limited in their ability to detect resonant KBOs. Remarkably, between -90 degrees and -60 degrees of Neptune's longitude, we find the sky density of Twotinos to nearly equal that of Plutinos, despite the greater average distance of Twotinos. We couple our findings to observations to crudely estimate that the intrinsic Twotino population is within a factor of 3 of the Plutino population. Most strikingly, the migration model predicts that more Twotinos may lie at longitudes behind that of Neptune than ahead of it. The magnitude of the asymmetry amplifies dramatically with faster rates of migration and can be as large as 300%. A differential measurement of the sky density of 2:1 resonant objects behind of and in front of Neptune's longitude would powerfully constrain the migration history of that planet.

E. I. Chiang; A. B. Jordan

2002-10-18T23:59:59.000Z

302

PCB origami : folding circuit boards into electronic products  

E-Print Network [OSTI]

PCB origami is a concept for an alternative manufacturing process of electronic products, in which the electronic material will be manufactured flat and folded into functional 3D graspable products by the user. PCBs will ...

Sterman, Yoav

2013-01-01T23:59:59.000Z

303

UFO (UnFold Operator) computer program abstract  

SciTech Connect (OSTI)

UFO (UnFold Operator) is an interactive user-oriented computer program designed to solve a wide range of problems commonly encountered in physical measurements. This document provides a summary of the capabilities of version 3A of UFO.

Kissel, L.; Biggs, F.

1982-11-01T23:59:59.000Z

304

INTRODUCTION Lateral propagation of folds is a process in  

E-Print Network [OSTI]

; (2) decrease in elevation of wind gaps; (3) decrease in relief of the topographic profile along in rotation and inclination of the forelimb. As a result of style of folding and variable geomorphic response

Keller, Ed

305

Low energy pathways for reproducible in vivo protein folding  

E-Print Network [OSTI]

Two proteins, one belonging to the mainly alpha class and the other belonging to the alpha/beta class, are selected to test a kinetic mechanism for protein folding. Targeted molecular dynamics is applied to generate folding pathways for those two proteins, starting from two well defined initial conformations: a fully extended and a alpha-helical conformation. The results show that for both proteins the alpha-helical initial conformation provides overall lower energy pathways to the native state. For the alpha/beta protein, 30 % (40%) of the pathways from an initial alpha-helix (fully extended) structure lead to unentangled native folds, a success rate that can be increased to 85 % by the introduction of a well-defined intermediate structure. These results open up a new direction in which to look for a solution to the protein folding problem, as detailed at the end.

Leonor Cruzeiro

2011-01-03T23:59:59.000Z

306

Physics of Caustics and Protein Folding: Mathematical Parallels  

E-Print Network [OSTI]

The energy for protein folding arises from multiple sources and is not large in total. In spite of the many specific successes of energy landscape and other approaches, there still seems to be some missing guiding factor that explains how energy from diverse small sources can drive a complex molecule to a unique state. We explore the possibility that the missing factor is in the geometry. A comparison of folding with other physical phenomena, together with analytic modeling of a molecule, led us to analyze the physics of optical caustic formation and of folding behavior side-by-side. The physics of folding and caustics is ostensibly very different but there are several strong parallels. This comparison emphasizes the mathematical similarity and also identifies differences. Since the 1970's, the physics of optical caustics has been developed to a very high degree of mathematical sophistication using catastrophe theory. That kind of quantitative application of catastrophe theory has not previously been applied ...

Simmons, Walter

2011-01-01T23:59:59.000Z

307

Determining the role of hydration forces in protein folding  

SciTech Connect (OSTI)

One of the primary issues in protein folding is determining what forces drive folding and eventually stabilize the native state. A delicate balance exists between electrostatic forces such as hydrogen bonding and salt bridges, and the hydrophobic effect, which are present for both intramolecular protein interactions and intermolecular contributions with the surrounding aqueous environment. This article describes a combined experimental, theoretical, and computational effort to show how the complexity of aqueous hydration can influence the structure, folding and aggregation, and stability of model protein systems. The unification of the theoretical and experimental work is the development or discovery of effective amino acid interactions that implicitly include the effects of aqueous solvent. The authors show that consideration of the full range of complexity of aqueous hydration forces such as many-body effects, long-ranged character of aqueous solvation, and the assumptions made about the degree of protein hydrophobicity can directly impact the observed structure, folding, and stability of model protein systems.

Sorenson, J.M. [Univ. of California, Berkeley, CA (United States). Dept. of Chemistry] [Univ. of California, Berkeley, CA (United States). Dept. of Chemistry; Hura, G. [Univ. of California, Berkeley, CA (United States)] [Univ. of California, Berkeley, CA (United States); [Lawrence Berkeley National Lab., CA (United States). Life Sciences Div.; Soper, A.K. [Rutherford Appleton Lab., Didcot (United Kingdom). ISIS Facility] [Rutherford Appleton Lab., Didcot (United Kingdom). ISIS Facility; Pertsemlidis, A. [Univ. of Texas Southwestern Medical Center, Dallas, TX (United States). Dept. of Biochemistry] [Univ. of Texas Southwestern Medical Center, Dallas, TX (United States). Dept. of Biochemistry; Head-Gordon, T. [Lawrence Berkeley National Lab., CA (United States)] [Lawrence Berkeley National Lab., CA (United States)

1999-07-01T23:59:59.000Z

308

Characterization of the vocal fold lamina propria towards voice restoration  

E-Print Network [OSTI]

During normal speech, human vocal folds sustain greater than 100 high impact collisions each second. When the pliability of this complex biomechanical system is reduced by scarring, voice quality may be compromised. ...

Hahn, Mariah S

2004-01-01T23:59:59.000Z

309

Master equation approach to protein folding and kinetic traps  

E-Print Network [OSTI]

The master equation for 12-monomer lattice heteropolymers is solved numerically and the time evolution of the occupancy of the native state is determined. At low temperatures, the median folding time follows the Arrhenius law and is governed by the longest relaxation time. For good folders, significant kinetic traps appear in the folding funnel whereas for bad folders, the traps also occur in non-native energy valleys.

Marek Cieplak; Malte Henkel; Jan Karbowski; Jayanth R. Banavar

1998-04-21T23:59:59.000Z

310

Speeding up protein folding: mutations that increase the rate at which Rop folds and unfolds by over four orders of magnitude  

E-Print Network [OSTI]

Speeding up protein folding: mutations that increase the rate at which Rop folds and unfolds. Introduction When a protein folds, the backbone and sidechain atoms organize from the extensive number protein folding usually occurs on the order of milliseconds to seconds, it is gener- ally accepted

Mochrie, Simon

311

RESTORING SUSTAINABLE FORESTS ON APPALACHIAN MINED LANDS FOR WOOD PRODUCTS, RENEWABLE ENERGY, CARBON SEQUESTRATION, AND OTHER ECOSYSTEM SERVICES  

SciTech Connect (OSTI)

The overall purpose of this project is to evaluate the biological and economic feasibility of restoring high-quality forests on mined land, and to measure carbon sequestration and wood production benefits that would be achieved from forest restoration procedures. In this segment of work, our goal was to review methods for estimating tree survival, growth, yield and value of forests growing on surface mined land in the eastern coalfields of the USA, and to determine the extent to which carbon sequestration is influenced by these factors. Public Law 95-87, the Surface Mining Control and Reclamation Act of 1977 (SMCRA), mandates that mined land be reclaimed in a fashion that renders the land at least as productive after mining as it was before mining. In the central Appalachian region, where prime farmland and economic development opportunities for mined land are scarce, the most practical land use choices are hayland/pasture, wildlife habitat, or forest land. Since 1977, the majority of mined land has been reclaimed as hayland/pasture or wildlife habitat, which is less expensive to reclaim than forest land, since there are no tree planting costs. As a result, there are now hundreds of thousands of hectares of grasslands and scrublands in various stages of natural succession located throughout otherwise forested mountains in the U.S. A literature review was done to develop the basis for an economic feasibility study of a range of land-use conversion scenarios. Procedures were developed for both mixed hardwoods and white pine under a set of low product prices and under a set of high product prices. Economic feasibility is based on land expectation values. Further, our review shows that three types of incentive schemes might be important: (1) lump sum payment at planting (and equivalent series of annual payments); (2) revenue incentive at harvest; and (3) benefit based on carbon volume.

Jonathan Aggett

2003-12-15T23:59:59.000Z

312

Multi-scale and Integrated Characterization of the Marcellus Shale in the Appalachian Basin: From Microscopes to Mapping  

SciTech Connect (OSTI)

Historic data from the Department of Energy Eastern Gas Shale Project (ESGP) were compiled to develop a database of geochemical analyses, well logs, lithological and natural fracture descriptions from oriented core, and reservoir parameters. The nine EGSP wells were located throughout the Appalachian Basin and intercepted the Marcellus Shale from depths of 750 meters (2500 ft) to 2500 meters (8200 ft). A primary goal of this research is to use these existing data to help construct a geologic framework model of the Marcellus Shale across the basin and link rock properties to gas productivity. In addition to the historic data, x-ray computerized tomography (CT) of entire cores with a voxel resolution of 240mm and optical microscopy to quantify mineral and organic volumes was performed. Porosity and permeability measurements in a high resolution, steady-state flow apparatus are also planned. Earth Vision software was utilized to display and perform volumetric calculations on individual wells, small areas with several horizontal wells, and on a regional basis. The results indicate that the lithologic character of the Marcellus Shale changes across the basin. Gas productivity appears to be influenced by the properties of the organic material and the mineral composition of the rock, local and regional structural features, the current state of in-situ stress, and lithologic controls on the geometry of induced fractures during stimulations. The recoverable gas volume from the Marcellus Shale is variable over the vertical stratigraphic section, as well as laterally across the basin. The results from this study are expected to help improve the assessment of the resource, and help optimize the recovery of natural gas.

Crandall, Dustin; Soeder, Daniel J; McDannell, Kalin T.; Mroz, Thomas

2010-01-01T23:59:59.000Z

313

Sedimentology, petrology, and gas potential of the Brallier Formation: upper Devonian turbidite facies of the Central and Southern Appalachians  

SciTech Connect (OSTI)

The Upper Devonian Brallier Formation of the central and southern Appalachian basin is a regressive sequence of siltstone turbidites interbedded with mudstones, claystones, and shales. It reaches 1000 meters in thickness and overlies basinal mudrocks and underlies deltaic sandstones and mudrocks. Facies and paleocurrent analyses indicate differences between the depositional system of the Brallier Formation and those of modern submarine fans and ancient Alpine flysch-type sequences. The Brallier system is of finer grain size and lower flow intensity. In addition, the stratigraphic transition from turbidites to deltaic sediments is gradual and differs in its facies succession from the deposits of the proximal parts of modern submarine fans. Such features as massive and pebbly sandstones, conglomerates, debris flows, and massive slump structures are absent from this transition. Paleocurrents are uniformly to the west at right angles to basin isopach, which is atypical of ancient turbidite systems. This suggests that turbidity currents had multiple point sources. The petrography and paleocurrents of the Brallier Formation indicate an eastern source of sedimentary and low-grade metasedimentary rocks with modern relief and rainfall. The depositional system of the Brallier Formation is interpreted as a series of small ephemeral turbidite lobes of low flow intensity which coalesced in time to produce a laterally extensive wedge. The lobes were fed by deltas rather than submarine canyons or upper fan channel systems. This study shows that the present-day turbidite facies model, based mainly on modern submarine fans and ancient Alpine flysch-type sequences, does not adequately describe prodeltaic turbidite systems such as the Brallier Formation. Thickly bedded siltstone bundles are common features of the Brallier Formation and are probably its best gas reservoir facies, especially when fracture porosity is well developed.

Lundegard, P.D.; Samuels, N.D.; Pryor, W.A.

1980-03-01T23:59:59.000Z

314

DOI: 10.1002/ijch.201300141 Exploring the Protein Folding Dynamics of Beta3s with  

E-Print Network [OSTI]

DOI: 10.1002/ijch.201300141 Exploring the Protein Folding Dynamics of Beta3s with Two folding process. Howev- er, monitoring protein folding dynamics is still challeng- ing. Experiments of protein folding. However, most folding processes of interest occur on timescales (microsecond to second

Mukamel, Shaul

315

Using Bit-Vector Decision Procedures for Analysis of Protein Folding Pathways  

E-Print Network [OSTI]

Using Bit-Vector Decision Procedures for Analysis of Protein Folding Pathways Christopher James-vector decision procedures for the analysis of protein folding pathways. We argue that the protein fold- ing by the different nature of the protein folding problem, we present a translation of the protein folding pathways

Langmead, Christopher James

316

RoadmapMethodsforProteinFolding MarkMoll, DavidSchwarz, LydiaE.Kavraki  

E-Print Network [OSTI]

RoadmapMethodsforProteinFolding MarkMoll, DavidSchwarz, LydiaE.Kavraki Abstract--Protein folding, and get a coarse view of the energy landscape. Keywords: protein folding, folding kinetics, roadmap methods, conformation sampling techniques, energy landscape. 1 Introduction Protein folding refers

Kavraki, Lydia E.

317

Protein Quaternary Fold Recognition Using Conditional Graphical Models Yan Liu Jaime Carbonell  

E-Print Network [OSTI]

02139 pweigele@mit.edu Abstract Protein fold recognition is a crucial step in infer- ring biological- acid sequences is protein fold recognition and alignment. Given a target protein fold 1 , the task-to-topology alignment against the fold. There are different kinds of protein folds based on their structural properties

Carbonell, Jaime

318

Kinetic Studies of the Folding of Heterodimeric Monellin: Evidence for Switching between Alternative  

E-Print Network [OSTI]

Keywords: monellin; heterodimeric protein; folding kinetics; parallel pathways Determining whether or not a protein uses multiple pathways to fold is an important goal in protein folding studies. When multiple to the protein folding reaction, and the utilization of more than one pathway would speed protein folding.2

319

Tectonophysics, 104 (1984) 299-313 Elsevier Science Publishers B.V., Amsterdam -Printed in The Netherlands  

E-Print Network [OSTI]

in The Netherlands 299 SURFACE MORPHOLOGY ON CROSS-FOLD JOINTS OF THE APPALACHIAN PLATEAU, NEW YORK AND PENNSYLVANIA

Engelder, Terry

320

On the Complexity of Protein Folding Pierluigi Crescenzi, Deborah Goldman, Christos Papadimitriou  

E-Print Network [OSTI]

On the Complexity of Protein Folding Pierluigi Crescenzi, Deborah Goldman, Christos Papadimitriou Antonio Piccolboni, Mihalis Yannakakis Abstract We show that the protein folding problem in the two protein folding are the interactions between their monomers; recently, the view that non

California at Irvine, University of

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


321

Detection and characterization of partially folded forms on the protein energy landscape  

E-Print Network [OSTI]

can accelerate protein folding. Proc Natl Acad Sci U S A 96(coupling between protein folding and prolyl isomerization.The speed limit for protein folding measured by triplet-

Bernstein, Rachel Simma

2011-01-01T23:59:59.000Z

322

Crucial stages of protein folding through a solvable model: Predicting target sites  

E-Print Network [OSTI]

Crucial stages of protein folding through a solvable model: Predicting target sites for enzyme. Keywords: Protein-folding modeling; prediction of key folding sites; HIV-1 protease; drug resistance One

Cecconi, Fabio

323

Parallel ContinuationBased Global Optimization for Molecular Conformation and Protein Folding  

E-Print Network [OSTI]

Parallel Continuation­Based Global Optimization for Molecular Conformation and Protein Folding protein folding. Global minimization problems are difficult to solve when the objective functions have energy functions for molecular conformation and protein folding. Mathematical theory for the method

Neumaier, Arnold

324

Long-time protein folding dynamics from short-time molecular dynamics simulations  

E-Print Network [OSTI]

On the simulation of protein folding by short time scaleand W. A. Eaton, The protein folding speed limit, Curr.and T. Head-Gordon, Protein folding by distributed computing

Chodera, J D; Swope, W C; Pitera, J W; Dill, Ken A

2006-01-01T23:59:59.000Z

325

Intermediates and the folding of proteins L and G  

SciTech Connect (OSTI)

We use a minimalist protein model, in combination with a sequence design strategy, to determine differences in primary structure for proteins L and G that are responsible for the two proteins folding through distinctly different folding mechanisms. We find that the folding of proteins L and G are consistent with a nucleation-condensation mechanism, each of which is described as helix-assisted {beta}-1 and {beta}-2 hairpin formation, respectively. We determine that the model for protein G exhibits an early intermediate that precedes the rate-limiting barrier of folding and which draws together misaligned secondary structure elements that are stabilized by hydrophobic core contacts involving the third {beta}-strand, and presages the later transition state in which the correct strand alignment of these same secondary structure elements is restored. Finally the validity of the targeted intermediate ensemble for protein G was analyzed by fitting the kinetic data to a two-step first order reversible reaction, proving that protein G folding involves an on-pathway early intermediate, and should be populated and therefore observable by experiment.

Brown, Scott; Head-Gordon, Teresa

2003-07-01T23:59:59.000Z

326

Directed Evolution Designed to Optimize the in vivo Protein Folding Environment.  

E-Print Network [OSTI]

??Protein folding is assisted by molecular chaperones and folding catalysts in vivo. Understanding how chaperones are regulated and how they function in vivo may provide (more)

Quan, Shu

2010-01-01T23:59:59.000Z

327

Folding of a DNA Hairpin Loop Structure in Explicit SolventUsingRepli...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Folding of a DNA Hairpin Loop Structure in Explicit Solvent UsingReplica-Exchange Molecular Dynamics Simulations. Folding of a DNA Hairpin Loop Structure in Explicit Solvent...

328

E-Print Network 3.0 - assisted protein folding Sample Search...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

protein folding Search Powered by Explorit Topic List Advanced Search Sample search results for: assisted protein folding Page: << < 1 2 3 4 5 > >> 1 BIOLOGICAL FRAMEWORKS FOR...

329

E-Print Network 3.0 - ab initio folding Sample Search Results  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

fold recogniion Ab initio Methods... Methods Ab initio methods: solution of a protein folding problem search in conformational space Energy... Protein Structure Analysis...

330

E-Print Network 3.0 - acids detection folding Sample Search Results  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

Medicine 4 International Scientific Conference Computer Science'2008 Near-Native Protein Folding Summary: folded proteins generally have polar amino acids on the outside of their...

331

Topological Aspects of DNA Function and Protein Folding 523 Knotting pathways in proteins  

E-Print Network [OSTI]

Topological Aspects of DNA Function and Protein Folding 523 Knotting pathways in proteins Joanna I Key words: artificial knot, chaperone, free energy landscape, knotted protein, protein folding

Bigelow, Stephen

332

E-Print Network 3.0 - affecting protein folding Sample Search...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

protein folding Search Powered by Explorit Topic List Advanced Search Sample search results for: affecting protein folding Page: << < 1 2 3 4 5 > >> 1 Current status of membrane...

333

Folded Compact Range Development and Coherent Change Detection Measurement Project  

SciTech Connect (OSTI)

A novel, folded compact range configuration has been developed at the Sandia National Laboratories compact range antenna and radar cross section measurement facility, operated by the Radar/Antenna Department 2343, as a means of performing indoor, environmentally-controlled, far-field simulations of synthetic aperture radar (SAR) coherent change detection (CCD) measurements. This report describes the development of the folded compact range configuration, as well as the initial set of coherent change detection measurements made with the system. These measurements have been highly successful, and have demonstrated the viability of the folded compact range concept in simulating SAR CCD measurements. It is felt that follow-on measurements have the potential of contributing significantly to the body of knowledge available to the scientific community involved in CCD image generation and processing, and that this tool will be a significant aid in the research and development of change detection methodologies.

Sorensen, K.W.

1995-03-01T23:59:59.000Z

334

Concentration-Temperature Superposition of Helix Folding Rates in Gelatin  

E-Print Network [OSTI]

We study the kinetics of helix-coil transition in water solutions of gelatin (collagen protein) by optical rotation techniques combined with thermal characterization. By examining the rates of secondary helix folding, and covering a very wide range of solution concentrations, we are able to identify a universal exponential dependence of folding rate on concentration and quench temperature. We demonstrate a new concentration-temperature superposition of data at all temperatures and concentrations, and build the corresponding master curve. The results support the concept of a diffuse helix-coil transition. We find no concentration dependance of the normalized rate constant, suggesting first order (single) kinetics of secondary helix folding dominate in the early stages of renaturation.

J. L. Gornall; E. M. Terentjev

2006-03-05T23:59:59.000Z

335

Heteropolymer freezing and design: Towards physical models of protein folding  

SciTech Connect (OSTI)

Protein folding has become one of the most actively studied problems in modern molecular biophysics. Approaches to the problem combine ideas from the physics of disordered systems, polymer physics, and molecular biology. Much can be learned from the statistical properties of model heteropolymers, the chain molecules having different monomers in irregular sequences. Even in highly evolved proteins, there is a strong random element in the sequences, which gives rise to a statistical ensemble of sequences for a given folded shape. Simple analytic models give rise to phase transitions between random, glassy, and folded states, depending on the temperature T and the design temperature T{sup des} of the ensemble of sequences. Besides considering the analytic results obtainable in a random-energy model and in the Flory mean-field model of polymers, the article reports on confirming numerical simulations. (c) 2000 The American Physical Society.

Pande, Vijay S. [Chemistry Department, Stanford University, Stanford, California 94305-5080 (United States)] [Chemistry Department, Stanford University, Stanford, California 94305-5080 (United States); Grosberg, Alexander Yu. [Department of Physics, University of Minnesota, Minneapolis, Minnesota 55455 (United States)] [Department of Physics, University of Minnesota, Minneapolis, Minnesota 55455 (United States); Tanaka, Toyoichi [Department of Physics and Center for Materials Science and Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139 (United States)] [Department of Physics and Center for Materials Science and Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139 (United States)

2000-01-01T23:59:59.000Z

336

Collective aspects of protein folding illustrated by a toy model  

SciTech Connect (OSTI)

A simple toy model for polypeptides serves as a testbed to illuminate some nonlocal, or collective, aspects of protein folding phenomena. The model is two dimensional and has only two amino acids, but involves a continuous range of backbone bend angles. Global potential energy minima and their folding structures have been determined for leading members of two special and contrasting polypeptide sequences, center doped and Fibonacci, named descriptively for their primary structures. The results display the presence of spontaneous symmetry breaking, elastic strain, and substantial conformational variation for specific embedded amino acid strings. We conclude that collective variables generated by the primary amino acid structure may be required for fully effective protein folding predictors, including those based on neural networks.

Stillinger, F.H. [AT& T Bell Laboratories, Murray Hill, New Jersey 07974 (United States)] [AT& T Bell Laboratories, Murray Hill, New Jersey 07974 (United States); Head-Gordon, T. [Life Sciences Division, Lawrence Berkeley Laboratory, University of California, Berkeley, California 94720 (United States)] [Life Sciences Division, Lawrence Berkeley Laboratory, University of California, Berkeley, California 94720 (United States)

1995-09-01T23:59:59.000Z

337

NEP for a Kuiper Belt Object Rendezvous Mission  

SciTech Connect (OSTI)

Kuiper Belt Objects (KBOs) are a recently-discovered set of solar system bodies which lie at about the orbit of Pluto (40 AU) out to about 100 astronomical units (AU). There are estimated to be about 100,000 KBOS with a diameter greater than 100 km. KBOS are postulated to be composed of the pristine material which formed our solar system and may even have organic materials in them. A detailed study of KBO size, orbit distribution, structure, and surface composition could shed light on the origins of the solar system and perhaps even on the origin of life in our solar system. A rendezvous mission including a lander would be needed to perform chemical analysis of the surface and sub-surface composition of KBOS. These requirements set the size of the science probe at around a ton. Mission analyses show that a fission-powered system with an electric thruster could rendezvous at 40 AU in about 13.0 years with a total {Delta}V of 46 krnk. It would deliver a 1000-kg science payload while providing ample onboard power for relaying data back to earth. The launch mass of the entire system (power, thrusters, propellant, navigation, communication, structure, science payload, etc.) would be 7984 kg if it were placed into an earth-escape trajectory (C=O). Alternatively, the system could be placed into a 700-km earth orbit with more propellant,yielding a total mass in LEO of 8618 kg, and then spiral out of earth orbit to arrive at the KBO in 14.3 years. To achieve this performance, a fission power system with 100 kW of electrical power and a total mass (reactor, shield, conversion, and radiator) of about 2350 kg. Three possible configurations are proposed: (1) a UZrH-fueled, NaK-cooled reactor with a steam Rankine conversion system, (2) a UN-fueled gas-cooled reactor with a recuperated Brayton conversion system, and (3) a UN-fueled heatpipe-cooled reactor with a recuperated Brayton conversion system. (Boiling and condensation in the Rankine system is a technical risk at present.) All three of these systems have the potential to meet the weight requirement for the trip and to be built in the near term.

HOUTS,MICHAEL G.; LENARD,ROGER X.; LIPINSKI,RONALD J.; PATTON,BRUCE; POSTON,DAVID I.; WRIGHT,STEVEN A.

1999-11-03T23:59:59.000Z

338

Growth of asteroids, planetary embryos and Kuiper belt objects by chondrule accretion  

E-Print Network [OSTI]

Chondrules are millimeter-sized spherules that dominate primitive meteorites (chondrites) originating from the asteroid belt. The incorporation of chondrules into asteroidal bodies must be an important step in planet formation, but the mechanism is not understood. We show that the main growth of asteroids can result from gas-drag-assisted accretion of chondrules. The largest planetesimals of a population with a characteristic radius of 100 km undergo run-away accretion of chondrules within ~3 Myr, forming planetary embryos up to Mars sizes along with smaller asteroids whose size distribution matches that of main belt asteroids. The aerodynamical accretion leads to size-sorting of chondrules consistent with chondrites. Accretion of mm-sized chondrules and ice particles drives the growth of planetesimals beyond the ice line as well, but the growth time increases above the disk life time outside of 25 AU. The contribution of direct planetesimal accretion to the growth of both asteroids and Kuiper belt objects is...

Johansen, Anders; Lacerda, Pedro; Bizzarro, Martin

2015-01-01T23:59:59.000Z

339

Characterization of Protein Folding by Dominant Reaction Pathways  

E-Print Network [OSTI]

We assess the reliability of the recently developed approach denominated Dominant Reaction Pathways (DRP) by studying the folding of a 16-residue beta-hairpin, within a coarse-grained Go-type model. We show that the DRP predictions are in quantitative agreement with the results of Molecular Dynamics simulations, performed in the same model. On the other hand, in the DRP approach, the computational difficulties associated to the decoupling of time scales are rigorously bypassed. The analysis of the important transition pathways supports a picture of the beta-hairpin folding in which the reaction is initiated by the collapse of the hydrophobic cluster.

Pietro Faccioli

2008-06-23T23:59:59.000Z

340

The role of the energy gap in protein folding dynamics  

E-Print Network [OSTI]

The dynamics of folding of proteins is studied by means of a phenomenological master equation. The energy distribution is taken as a truncated exponential for the misfolded states plus a native state sitting below the continuum. The influence of the gap on the folding dynamics is studied, for various models of the transition probabilities between the different states of the protein. We show that for certain models, the relaxation to the native state is accelerated by increasing the gap, whereas for others it is slowed down .

Estelle Pitard; Henri Orland

1998-11-17T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


341

SHuffle, a novel Escherichia coli protein expression strain capable of correctly folding disulfide bonded proteins in its cytoplasm  

E-Print Network [OSTI]

Schein CH: Optimizing protein folding to the native state inJ, Terwilliger TC: Rapid protein-folding assay using greenbuilding bridges in protein folding. Trends Biochem Sci

Lobstein, Julie; Emrich, Charlie A; Jeans, Chris; Faulkner, Melinda; Riggs, Paul; Berkmen, Mehmet

2012-01-01T23:59:59.000Z

342

The effect of consensus mutation on the folding and binding kinetics of I(kappa)B(alpha)  

E-Print Network [OSTI]

in the transition state of protein folding: alternativeet al. (2008). "Protein folding and stability usingH. Rosner, et al. (2002). "Protein folding and stability of

DeVries, Ingrid L.

2011-01-01T23:59:59.000Z

343

Planck intermediate results. XII: Diffuse Galactic components in the Gould Belt System  

E-Print Network [OSTI]

We perform an analysis of the diffuse low-frequency Galactic components in the Southern part of the Gould Belt system ($130^\\circ\\leq l\\leq 230^\\circ$ and $-50^\\circ\\leq b\\leq -10^\\circ$). Strong UV flux coming from the Gould Belt super-association is responsible for bright diffuse foregrounds that we observe from our position inside the system and that can help us improve our knowledge of the Galactic emission. Free-free emission and anomalous microwave emission (AME) are the dominant components at low frequencies ($\

Ade, P A R; Alves, M I R; Arnaud, M; Ashdown, M; Atrio-Barandela, F; Aumont, J; Baccigalupi, C; Banday, A J; Barreiro, R B; Bartlett, J G; Battaner, E; Bedini, L; Benabed, K; Benot, A; Bernard, J -P; Bersanelli, M; Bonaldi, A; Bond, J R; Borrill, J; Bouchet, F R; Boulanger, F; Burigana, C; Butler, R C; Chen, X; Chiang, L -Y; Christensen, P R; Clements, D L; Colombi, S; Colombo, L P L; Coulais, A; Cuttaia, F; Davies, R D; Davis, R J; de Bernardis, P; de Zotti, G; Delabrouille, J; Dickinson, C; Diego, J M; Dobler, G; Dole, H; Donzelli, S; Dor, O; Douspis, M; Dupac, X; Enlin, T A; Finelli, F; Forni, O; Frailis, M; Franceschi, E; Galeotta, S; Ganga, K; Gnova-Santos, R T; Ghosh, T; Giard, M; Giardino, G; Giraud-Hraud, Y; Gonzlez-Nuevo, J; Grski, K M; Gregorio, A; Gruppuso, A; Hansen, F K; Harrison, D; Hernndez-Monteagudo, C; Hildebrandt, S R; Hivon, E; Hobson, M; Holmes, W A; Hornstrup, A; Hovest, W; Huffenberger, K M; Jaffe, T R; Jaffe, A H; Juvela, M; Keihnen, E; Keskitalo, R; Kisner, T S; Knoche, J; Kunz, M; Kurki-Suonio, H; Lagache, G; Lhteenmki, A; Lamarre, J -M; Lasenby, A; Lawrence, C R; Leach, S; Leonardi, R; Lilje, P B; Linden-Vrnle, M; Lubin, P M; Macas-Prez, J F; Maffei, B; Maino, D; Mandolesi, N; Maris, M; Marshall, D J; Martin, P G; Martnez-Gonzlez, E; Masi, S; Massardi, M; Matarrese, S; Mazzotta, P; Melchiorri, A; Mennella, A; Mitra, S; Miville-Deschnes, M -A; Moneti, A; Montier, L; Morgante, G; Mortlock, D; Munshi, D; Murphy, J A; Naselsky, P; Nati, F; Natoli, P; Nrgaard-Nielsen, H U; Noviello, F; Novikov, D; Novikov, I; Osborne, S; Oxborrow, C A; Pajot, F; Paladini, R; Paoletti, D; Peel, M; Perotto, L; Perrotta, F; Piacentini, F; Piat, M; Pierpaoli, E; Pietrobon, D; Plaszczynski, S; Pointecouteau, E; Polenta, G; Popa, L; Poutanen, T; Pratt, G W; Prunet, S; Puget, J -L; Rachen, J P; Reach, W T; Rebolo, R; Reinecke, M; Renault, C; Ricciardi, S; Ristorcelli, I; Rocha, G; Rosset, C; Rubio-Martn, J A; Rusholme, B; Salerno, E; Sandri, M; Savini, G; Scott, D; Spencer, L; Stolyarov, V; Sudiwala, R; Suur-Uski, A -S; Sygnet, J -F; Tauber, J A; Terenzi, L; Tibbs, C T; Toffolatti, L; Tomasi, M; Tristram, M; Valenziano, L; Van Tent, B; Varis, J; Vielva, P; Villa, F; Vittorio, N; Wade, L A; Wandelt, B D; Ysard, N; Yvon, D; Zacchei, A; Zonca, A

2013-01-01T23:59:59.000Z

344

The Antarctic Circumpolar Productivity Belt Joint Institute for the Study of the Atmosphere and Ocean, University of Washington, Seattle, Washington, USA  

E-Print Network [OSTI]

The Antarctic Circumpolar Productivity Belt T. Ito Joint Institute for the Study of the Atmosphere] We illustrate the mechanisms controlling the spatial patterns of biological productivity of enhanced export production, figuratively termed as the Antarctic Circumpolar Productivity Belt. As observed

Follows, Mick

345

Folding model description of reactions with exotic nuclei  

SciTech Connect (OSTI)

Microscopic folding calculations based upon the effective M3Y nucleon-nucleon interaction and the nuclearmatter densities of the interacting nuclei have been carried out to explain recently measured experimental data of the {sup 6}He+{sup 120}Sn elastic scattering cross section at four different laboratory energies near the Coulomb barrier. The extracted reaction cross sections are also considered.

Ibraheem, Awad A., E-mail: awad_ah_eb@hotmail.com [Al-Azhar University, Assiut Branch, Physics Department (Egypt); Hassanain, M. A. [King Khalid University, Physics Department (Saudi Arabia); Mokhtar, S. R. [Assiut University, Physics Department (Egypt); Zaki, M. A. [South-Valley University, Physics Department (Egypt); Mahmoud, Zakaria M. M. [Assiut University, Sciences Department, New-Valley Faculty of Education (Egypt); Farid, M. El-Azab [Assiut University, Physics Department (Egypt)

2012-08-15T23:59:59.000Z

346

Thermodynamics of Protein Folding from Coarse-Grained Models' Perspectives  

E-Print Network [OSTI]

Folding and aggregation of proteins, the interaction between proteins and membranes, as well as the adsorption of organic soft matter to inorganic solid substrates belong to the most interesting challenges in understanding structure and function of complex macromolecules. This is reasoned by the interdisciplinary character of the associated questions ranging from the molecular origin of the loss of biological functionality as, for example, in Alzheimer's disease to the development of organic circuits for biosensory applications. In this lecture, we focus on the analysis of mesoscopic models for protein folding, aggregation, and hybrid systems of soft and solid condensed matter. The simplicity of the coarse-grained models allows for a more universal description of the notoriously difficult problem of protein folding. In this approach, classifications of structure formation processes with respect to the conformational pseudophases are possible. This is similar in aggregation and adsorption processes, where the individual folding propensity is influenced by external forces. The main problem in studies of conformational transitions is that the sequences of amino acids proteins are built up of are necessarily of finite length and, therefore, a thermodynamic limit does not exist. Thus, structural transitions are not phase transitions in the strict thermodynamic sense and the analysis of pseudouniversal aspects is intricate, as apparently small-system effects accompany all conformational transitions and cannot be neglected.

Michael Bachmann; Wolfhard Janke

2007-10-25T23:59:59.000Z

347

Funnel-Like Organization in Sequence Space Determines the Distributions of Protein Stability and Folding Rate  

E-Print Network [OSTI]

determinants of protein folding, we map out the complete organization of thermody- namic and kinetic properties simplified models of protein folding. We obtain a stability map and a folding rate map in sequence space. Proteins 2004;55:107­114. © 2004 Wiley-Liss, Inc. Key words: protein folding; protein sequence struc- ture

Levitt, Michael

348

A New Algorithm for Protein Folding in the HP Model Alantha Newman *  

E-Print Network [OSTI]

876 A New Algorithm for Protein Folding in the HP Model Alantha Newman * Abstract We consider the problem of protein folding in the HP model ozt the two-dimensional square lattice. This problem.e.pairsof H's that are adjacent in the folding but not in the string) are present. The protein folding problem

Istrail, Sorin

349

International Scientific Conference Computer Science'2008 Near-Native Protein Folding  

E-Print Network [OSTI]

International Scientific Conference Computer Science'2008 61 Near-Native Protein Folding Stefka: The protein folding problem is a fundamental problem in computational molecular biology. The high resolution 3. After that the folding problem is de- fined like optimization problem. Keywords: Protein folding

Fidanova, Stefka

350

Estimates of the Loss of Main-Chain Conformational Entropy of Different Residues on Protein Folding  

E-Print Network [OSTI]

Estimates of the Loss of Main-Chain Conformational Entropy of Different Residues on Protein Folding energy of protein folding is not well understood. We have developed empirical scales for the loss; protein folding; pro- tein engineering INTRODUCTION When a protein folds into a compact globule, the resi

Pal, Debnath

351

Genetic Algorithm for Predicting Protein Folding in the 2D HP Model  

E-Print Network [OSTI]

Genetic Algorithm for Predicting Protein Folding in the 2D HP Model A Parameter Tuning Case Study of a protein, predicting its tertiary structure is known as the protein folding problem. This problem has been. The protein folding problem in the HP model is to find a conformation (a folded sequence) with the lowest

Emmerich, Michael

352

Internal friction in the ultrafast folding of the tryptophan cage q Linlin Qiu 1  

E-Print Network [OSTI]

Internal friction in the ultrafast folding of the tryptophan cage q Linlin Qiu 1 , Stephen J. Hagen is a diffusional process, and the speed of folding is controlled by the frictional forces that act important source of friction in folding reactions. By contrast, our studies of the folding dynamics

Hagen, Stephen J.

353

Directed evolution methods for improving polypeptide folding and solubility and superfolder fluorescent proteins generated thereby  

DOE Patents [OSTI]

The current invention provides methods of improving folding of polypeptides using a poorly folding domain as a component of a fusion protein comprising the poorly folding domain and a polypeptide of interest to be improved. The invention also provides novel green fluorescent proteins (GFPs) and red fluorescent proteins that have enhanced folding properties.

Waldo, Geoffrey S. (Santa Fe, NM)

2007-09-18T23:59:59.000Z

354

Identifying the importance of amino acids for protein folding from crystal structures  

E-Print Network [OSTI]

Identifying the importance of amino acids for protein folding from crystal structures Nikolay V and characterizing protein folding kinetics from crystal structures using computational techniques. We also describe as the protein folding prob- lem [1­25], is of great importance because understanding protein folding mechanisms

Stanley, H. Eugene

355

The energy landscape for protein folding and possible connections to function  

E-Print Network [OSTI]

The energy landscape for protein folding and possible connections to function Margaret S. Cheunga to study protein folding. As good agreement between computational/theoretical studies and experimental-state proteins and larger proteins with more complex folding kinetics. How proteins fold from one

Onuchic, José

356

Constrained Proper Sampling of Conformations of Transition State Ensemble during Protein Folding  

E-Print Network [OSTI]

Constrained Proper Sampling of Conformations of Transition State Ensemble during Protein Folding) is important for studying protein folding. A promising approach pioneered by Vendruscolo et al40 to study TSE to understand how proteins fold to its native state8,29,37 . Protein folding is a complex process that involves

Dai, Yang

357

BiP Clustering Facilitates Protein Folding in the Endoplasmic Reticulum  

E-Print Network [OSTI]

BiP Clustering Facilitates Protein Folding in the Endoplasmic Reticulum Marc Griesemer1. *, Carissa (ER): translocation, protein folding, and ER-associated degradation. To facilitate protein folding may enhance protein folding and maturation. Scenarios were simulated to gauge the effectiveness

Petzold, Linda R.

358

Pairwise contact potentials are unsuitable for protein folding Michele Vendruscolo and Eytan Domany  

E-Print Network [OSTI]

Pairwise contact potentials are unsuitable for protein folding Michele Vendruscolo and Eytan Domany: protein folding; protein folding potential; contact map; neural networks; per­ ceptron. I. INTRODUCTION of protein folding [1] is to predict proteins' native structures from their amino acid sequences; solution

Domany, Eytan

359

Identification of characteristic protein folding channels in a coarse-grained hydrophobic-polar peptide model  

E-Print Network [OSTI]

Identification of characteristic protein folding channels in a coarse-grained hydrophobic of protein folding is one of the major challenges of modern interdisciplinary science. Proteins are linear simulations of protein folding are difficult, mainly for two reasons. Firstly, the folding process is so slow

Bachmann, Michael

360

proteinsSTRUCTURE O FUNCTION O BIOINFORMATICS Studying submicrosecond protein folding  

E-Print Network [OSTI]

proteinsSTRUCTURE O FUNCTION O BIOINFORMATICS Studying submicrosecond protein folding kinetics INTRODUCTION To understand the intrinsic principles of protein folding, the events in the folding process have to be systematically explored from small to large time scales. Tradi- tional methods for triggering protein folding

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


361

In and Out of the ER: Protein Folding, Quality Control, Degradation, and Related Human Diseases  

E-Print Network [OSTI]

In and Out of the ER: Protein Folding, Quality Control, Degradation, and Related Human Diseases 1377 C. Protein folding 1378 II. Protein Translocation, Folding, and Quality Control in the Endoplasmic Reticulum 1379 A. Protein targeting to the ER 1379 B. Chaperone-assisted protein folding in the ER 1379 C

Hebert, Daniel N.

362

John von Neumann Institute for Computing Different Types of Protein Folding Identified with  

E-Print Network [OSTI]

John von Neumann Institute for Computing Different Types of Protein Folding Identified://www.fz-juelich.de/nic-series/volume40 #12;Different Types of Protein Folding Identified with a Coarse-Grained Heteropolymer Model Stefan The identification of folding channels is one of the key tasks of protein folding studies. While secondary structures

Janke, Wolfhard

363

A new protein folding screen: Application to the ligand binding domains of a glutamate and kainate  

E-Print Network [OSTI]

A new protein folding screen: Application to the ligand binding domains of a glutamate and kainate of determining and evaluating protein folding conditions, we have designed a new fractional factorial protein folding screen. The screen includes 12 factors shown by previous experiments to enhance protein folding

Lebendiker, Mario

364

J. Mol. Biol. (1996) 264, 11641179 How to Derive a Protein Folding Potential? A New  

E-Print Network [OSTI]

J. Mol. Biol. (1996) 264, 1164­1179 How to Derive a Protein Folding Potential? A New Approach of deriving a pairwise potentialHarvard University Department of Chemistry for protein folding. The potential of accuracy. 7 1996 Academic Press Limited *Corresponding author Keywords: protein folding; protein folding

Mirny, Leonid

365

Predicting Experimental Quantities in Protein Folding Kinetics using Stochastic Roadmap Simulation  

E-Print Network [OSTI]

Predicting Experimental Quantities in Protein Folding Kinetics using Stochastic Roadmap Simulation the transition state ensemble (TSE) and predict the rates and -values for protein folding. The new method as a gen- eral tool for studying protein folding kinetics. 1 Introduction Protein folding is a crucial

Pratt, Vaughan

366

A New Method for Modeling and Solving the Protein Fold Recognition Problem  

E-Print Network [OSTI]

Idstract A New Method for Modeling and Solving the Protein Fold Recognition Problem (Extended}@ornl.gov Computational recognition of native-like folds from a protein fold database is considered to be a promising recog- nition through optimally aligning (threading) an amino acid sequence and a protein fold (template

Istrail, Sorin

367

A Branch and Bound Algorithm for the Protein Folding Problem in the HP Lattice Model  

E-Print Network [OSTI]

Article A Branch and Bound Algorithm for the Protein Folding Problem in the HP Lattice Model Mao tool for the protein folding problem. Key words: protein folding, HP model, branch and bound, lattice Introduction The protein folding problem, or the protein struc- ture prediction problem, is one of the most

Istrail, Sorin

368

Autotransporters: The Cellular Environment Reshapes a Folding Mechanism to Promote Protein Transport  

E-Print Network [OSTI]

the cellular environment affects protein folding mechanisms. Here, we focus on one unique aspect affect protein folding kinetics and the conformations of folding intermediates? We focus on recent have been made to understand the mechanisms by which proteins fold to their native conformations.3

Clark, Patricia L.

369

Low-Dimensional Free Energy Landscapes of Protein Folding Reactions by Nonlinear Dimensionality Reduction  

E-Print Network [OSTI]

Low-Dimensional Free Energy Landscapes of Protein Folding Reactions by Nonlinear Dimensionality(26):9885-9890, 2006 #12;Abstract The definition of reaction coordinates for the characterization of a protein folding along the main folding route. These results clearly show that a complex process such as protein folding

Kavraki, Lydia E.

370

Ultraviolet resonance Raman spectroscopy of the integral membrane protein OmpA : elucidating structure and tryptophan microenvironment of folded and unfolded states  

E-Print Network [OSTI]

Intermediates in Membrane Protein Folding, Biochemistry (Intermediates in Membrane Protein Folding, Biochemistry (Engelman. Membrane-Protein Folding and Oligomerization -

Neary, Tiffany Jonean

2008-01-01T23:59:59.000Z

371

Geologic Controls of Hydrocarbon Occurrence in the Southern Appalachian Basin in Eastern Tennessee, Southwestern Virginia, Eastern Kentucky, and Southern West Virginia  

SciTech Connect (OSTI)

This report summarizes the first-year accomplishments of a three-year program to investigate the geologic controls of hydrocarbon occurrence in the southern Appalachian basin in eastern Tennessee, southwestern Virginia, eastern Kentucky, and southern West Virginia. The project: (1) employs the petroleum system approach to understand the geologic controls of hydrocarbons; (2) attempts to characterize the T-P parameters driving petroleum evolution; (3) attempts to obtain more quantitative definitions of reservoir architecture and identify new traps; (4) is working with USGS and industry partners to develop new play concepts and geophysical log standards for subsurface correlation; and (5) is geochemically characterizing the hydrocarbons (cooperatively with USGS). First-year results include: (1) meeting specific milestones (determination of thrust movement vectors, fracture analysis, and communicating results at professional meetings and through publication). All milestones were met. Movement vectors for Valley and Ridge thrusts were confirmed to be west-directed and derived from pushing by the Blue Ridge thrust sheet, and fan about the Tennessee salient. Fracture systems developed during Paleozoic, Mesozoic, and Cenozoic to Holocene compressional and extensional tectonic events, and are more intense near faults. Presentations of first-year results were made at the Tennessee Oil and Gas Association meeting (invited) in June, 2003, at a workshop in August 2003 on geophysical logs in Ordovician rocks, and at the Eastern Section AAPG meeting in September 2003. Papers on thrust tectonics and a major prospect discovered during the first year are in press in an AAPG Memoir and published in the July 28, 2003, issue of the Oil and Gas Journal. (2) collaboration with industry and USGS partners. Several Middle Ordovician black shale samples were sent to USGS for organic carbon analysis. Mississippian and Middle Ordovician rock samples were collected by John Repetski (USGS) and RDH for conodont alteration index determination to better define regional P-T conditions. Efforts are being made to calibrate and standardize geophysical log correlation, seismic reflection data, and Ordovician lithologic signatures to better resolve subsurface stratigraphy and structure beneath the poorly explored Plateau in Tennessee and southern Kentucky. We held a successful workshop on Ordovician rocks geophysical log correlation August 7, 2003 that was cosponsored by the Appalachian PTTC, the Kentucky and Tennessee geological surveys, the Tennessee Oil and Gas Association, and small independents. Detailed field structural and stratigraphic mapping of a transect across part of the Ordovician clastic wedge in Tennessee was begun in January 2003 to assist in 3-D reconstruction of part of the southern Appalachian basin and better assess the nature of a major potential source rock assemblage. (3) Laying the groundwork through (1) and (2) to understand reservoir architecture, the petroleum systems, ancient fluid migration, and conduct 3-D analysis of the southern Appalachian basin.

Robert D. Hatcher

2003-05-31T23:59:59.000Z

372

* Corresponding author. : Primary student contributor. Folding-aware and Structure-conscious 3D Substructures in Folding Data: Identification and Applications  

E-Print Network [OSTI]

employed by biologists to study the protein folding problem. Such simulations have resulted in a large number of protein folding trajectories, each of which consists of a sequence of three, and cross-trajectory comparison. Key Words: protein folding trajectories, 3D substructure identification

Yang, Hui

373

The role of sidechain packing and native contact interactions in folding: Discontinuous molecular dynamics folding simulations of an all-atom  

E-Print Network [OSTI]

structures of proteins, has been extensively investigated to examine its role in protein folding. However the important role of sidechain packing in determining the specific pathway of protein folding. Additional 96 of Physics. DOI: 10.1063/1.1514574 I. INTRODUCTION Theoretical/computational studies of protein folding

Zhou, Yaoqi

374

Tuesday, 31 July, 2012 Rapid radiation belt losses occurring during high speed solar wind stream1  

E-Print Network [OSTI]

Tuesday, 31 July, 2012 1 Rapid radiation belt losses occurring during high speed solar wind stream1 Raita11 Sodankylä Geophysical Observatory, University of Oulu, Sodankylä, Finland12 Abstract. Recent geomagnetic disturbances triggered by the arrival of a Solar14 Wind Stream Interface (SWSI). In the current

Otago, University of

375

Are energetic electrons in the solar wind the source of the outer radiation belt?  

E-Print Network [OSTI]

Are energetic electrons in the solar wind the source of the outer radiation belt? Xinlin Li,1 D. N. Mewaldt6 Abstract. Using data from WIND, SAMPEX (Solar, Anomalous, and Magnetospheric Particle Explorer), and the Los Alamos National Laboratory (LANL) sensors onboard geostationary satellites, we investigate

Li, Xinlin

376

GEOSPATIAL DECISION SUPPORT FOR SEED COMPANIES IN THE CORN BELT Marcus E. Tooze1  

E-Print Network [OSTI]

GEOSPATIAL DECISION SUPPORT FOR SEED COMPANIES IN THE CORN BELT Marcus E. Tooze1 , S. Hatten2 , W in the seed industry, new applications emerge for mapping, analysis, and interpretation of cultivar. In addition, a geospatial framework was developed to identify the soil landscapes that had the best soil

Reichenbach, Stephen E.

377

Incorporating spectral characteristics of Pc5 waves into three-dimensional radiation belt  

E-Print Network [OSTI]

. This is the first analysis in three dimensions utilizing model ULF wave electric and magnetic fields on the guiding losses at MeV energies. This inner electron belt resides mainly below 2 RE geocen- tric distance center trajectories of relativistic electrons. A model is developed, describing magnetic and electric

Elkington, Scot R.

378

Energetic outer radiation-belt electron precipitation during recurrent solar activity  

E-Print Network [OSTI]

on the atmosphere [Seppälä et al., 2004]. During some intense solar storms solar protons in the energy range 1Energetic outer radiation-belt electron precipitation during recurrent solar activity Mark A and Physical Sciences, University of Newcastle, Callaghan, Australia. Russell S. Grew School of Mathematical

Otago, University of

379

Analysis of Heavy Oil Recovery by Thermal EOR in a Meander Belt: From Geological  

E-Print Network [OSTI]

Analysis of Heavy Oil Recovery by Thermal EOR in a Meander Belt: From Geological to Reservoir aux priodes cruciales de production. Oil & Gas Science and Technology Rev. IFP Energies nouvelles Dfis et nouvelles approches en EOR D o s s i e r #12;Oil & Gas Science and Technology Rev. IFP

Paris-Sud XI, Universit de

380

Precipitation of relativistic electrons of the Van Allen belts into the proton aurora  

SciTech Connect (OSTI)

The Van Allen electron belts consist of two regions encircling the earth in which relativistic electrons are trapped in the earth's magnetic field. Populations of relativistic electrons in the Van Allen belts vary greatly with geomagnetic disturbance and they are a major source of damage to space vehicles. In order to know when and by how much these populations of relativistic electrons increase, it is important to elucidate not only the cause of acceleration of relativistic electrons but also the cause of their loss from the Van Allen belts. Here we show the first evidence that left-hand polarized electromagnetic ion cyclotron (EMIC) plasma waves can cause the loss of relativistic electrons into the atmosphere, on the basis of results of an excellent set of ground and satellite observations showing coincident precipitation of ions with energies of tens of keV and of relativistic electrons into an isolated proton aurora. The proton aurora was produced by precipitation of ions with energies of tens of keV due to EMIC waves near the plasma pause, which is a manifestation of wave-particle interactions. These observations clarify that ions with energies of tens of keV affect the evolution of relativistic electrons in the Van Allen belts via parasitic resonance with EMIC waves, an effect that was first theoretically predicted in the early 1970's.

Jordanova, Vania K [Los Alamos National Laboratory; Miyoshi, Y [NAGOYA UNIV; Sakaguchi, K [NAGOYA UNIV; Shiokawa, K [NAGOYA UNIV; Evans, D S [SEC/NOAA; Albert, Jay [AFRL; Connors, M [UNIV OF ATHABASCA

2008-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


381

Holocene vegetation and fire dynamics in the supra-mediterranean belt of the Nebrodi Mountains  

E-Print Network [OSTI]

and the Mediterranean region. Copyright # 2012 John Wiley & Sons, Ltd. KEYWORDS: climate change; human impact; Ilex TINNER1 1 Institute of Plant Sciences and Oeschger Centre for Climate Change Research, University of BernHolocene vegetation and fire dynamics in the supra-mediterranean belt of the Nebrodi Mountains

Bern, Universität

382

METHANE AND ETHANE ON THE BRIGHT KUIPER BELT OBJECT 2005 FY9 M. E. Brown,1  

E-Print Network [OSTI]

METHANE AND ETHANE ON THE BRIGHT KUIPER BELT OBJECT 2005 FY9 M. E. Brown,1 K. M. Barkume,1 G. A regime and by absorption due to methane in the near-infrared. The solid methane absorption lines through the methane. These long path lengths can be parameterized as a methane grain size of approximately

Brown, Michael E.

383

Seismic imaging of the lithospheric structure of the Zagros mountain belt (Iran)  

E-Print Network [OSTI]

Seismic imaging of the lithospheric structure of the Zagros mountain belt (Iran) ANNE PAUL1*, DENIS International Institute of Earthquake Engineering and Seismology, Tehran, Iran 3 Institute for Advanced Studies in Basic Sciences (IASBS), PO Box 45195-1159, Zanjan, Iran *Corresponding author (e-mail: Anne

Hatzfeld, Denis

384

Seismological evidence for crustal-scale thrusting in the Zagros mountain belt (Iran)  

E-Print Network [OSTI]

Seismological evidence for crustal-scale thrusting in the Zagros mountain belt (Iran) Anne Paul 1 Grenoble Cedex, France 2 International Institute of Earthquake Engineering and Seismology, Tehran, Iran 3 that the crust of Zagros underthrusts the crust of central Iran along the MZT considered as a crustal

Paris-Sud XI, Université de

385

Different Kinds of Protein Folding Identified with a Coarse-Grained Heteropolymer Model  

E-Print Network [OSTI]

Applying multicanonical simulations we investigated folding properties of off-lattice heteropolymers employing a mesoscopic hydrophobic-polar model. We study for various sequences folding channels in the free-energy landscape by comparing the equilibrium conformations with the folded state in terms of an angular overlap parameter. Although all investigated heteropolymer sequences contain the same content of hydrophobic and polar monomers, our analysis of the folding channels reveals a variety of characteristic folding behaviors known from realistic peptides.

Stefan Schnabel; Michael Bachmann; Wolfhard Janke

2009-02-16T23:59:59.000Z

386

Restoring Sustainable Forests on Appalachian Mined Lands for Wood Products, Renewable Energy, Carbon Sequestration, and Other Ecosystem Services  

SciTech Connect (OSTI)

The overall purpose of this project is to evaluate the biological and economic feasibility of restoring high-quality forests on mined land, and to measure carbon sequestration and wood production benefits that would be achieved from forest restoration procedures. We are currently estimating the acreage of lands in Virginia, West Virginia, Kentucky, Ohio, and Pennsylvania mined under SMCRA and reclaimed to non-forested post-mining land uses that are not currently under active management, and therefore can be considered as available for carbon sequestration. To determine actual sequestration under different forest management scenarios, a field study was installed as a 3 x 3 factorial in a random complete block design with three replications at each of three locations, one each in Ohio, West Virginia, and Virginia. The treatments included three forest types (white pine, hybrid poplar, mixed hardwood) and three silvicultural regimes (competition control, competition control plus tillage, competition control plus tillage plus fertilization). Each individual treatment plot is 0.5 acres. Each block of nine plots is 4.5 acres, and the complete installation at each site is 13.5 acres. During the reporting period we determined that by grinding the soil samples to a finer particle size of less than 250 ?m (sieve No. 60), the effect of mine soil coal particle size on the extent to which these particles will be oxidized during the thermal treatment of the carbon partitioning procedure will be eliminated, thus making the procedure more accurate and precise. In the second phase of the carbon sequestration project, we focused our attention on determining the sample size required for carbon accounting on grassland mined fields in order to achieve a desired accuracy and precision of the final soil organic carbon (SOC) estimate. A mine land site quality classification scheme was developed and some field-testing of the methods of implementation was completed. The classification model has been validated for softwoods (white pine) on several reclaimed mine sites in the southern Appalachian coal region. The classification model is a viable method for classifying post-SMCRA abandoned mined lands into productivity classes for white pine. A thinning study was established as a random complete block design to evaluate the response to thinning of a 26-year-old white pine stand growing on a reclaimed surface mine in southwest Virginia. Stand parameters were projected to age 30 using a stand table projection. Site index of the stand was found to be 32.3 m at base age 50 years. Thinning rapidly increased the diameter growth of the residual trees to 0.84 cm yr{sup -1} compared to 0.58 cm yr{sup -1} for the unthinned treatment; however, at age 26, there was no difference in volume or value per hectare. At age 30, the unthinned treatment had a volume of 457.1 m{sup 3} ha{sup -1} but was only worth $8807 ha{sup -1}, while the thinned treatment was projected to have 465.8 m{sup 3} ha{sup -1}, which was worth $11265 ha{sup -1} due to a larger percentage of the volume being in sawtimber size classes.

Burger, James A

2005-07-20T23:59:59.000Z

387

Strong Nernst-Ettingshausen effect in folded graphene  

E-Print Network [OSTI]

We study electronic transport in graphene under the influence of a transversal magnetic field $\\f{B}(\\f{r})=B(x)\\f{e}_z$ with the asymptotics $B(x\\to\\pm\\infty)=\\pm B_0$, which could be realized via a folded graphene sheet in a constant magnetic field, for example. By solving the effective Dirac equation, we find robust modes with a finite energy gap which propagate along the fold -- where particles and holes move in opposite directions. Exciting these particle-hole pairs with incident photons would then generate a nearly perfect charge separation and thus a strong magneto-thermoelectric (Nernst-Ettingshausen) or magneto-photoelectric effect -- even at room temperature.

Friedemann Queisser; Ralf Schtzhold

2013-01-17T23:59:59.000Z

388

A coarse-grained, ``realistic'' model for Protein Folding  

E-Print Network [OSTI]

A phenomenological model hamiltonian to describe the folding of a protein with any given sequence is proposed. The protein is thought of as a collection of pieces of helices; as a consequence its configuration space increases with the number of secondary structure elements rather than with the number of residues. The hamiltonian presents both local (i.e. single helix, accounting for the stiffness of the chain) and non local (interactions between hydrophobically-charged helices) terms, and is expected to provide a first tool for studying the folding of real proteins. The partition function for a simplified, but by no means trivial, version of the model is calculated almost completely in an analytical way. The latter simplified model is also applied to the study of a synthetic protein, and some preliminary results are shown.

Pierpaolo Bruscolini

1997-07-24T23:59:59.000Z

389

Invariant patterns in crystal lattices: Implications for protein folding algorithms  

SciTech Connect (OSTI)

Crystal lattices are infinite periodic graphs that occur naturally in a variety of geometries and which are of fundamental importance in polymer science. Discrete models of protein folding use crystal lattices to define the space of protein conformations. Because various crystal lattices provide discretizations of the same physical phenomenon, it is reasonable to expect that there will exist invariants across lattices related to fundamental properties of the protein folding process. This paper considers whether performance-guaranteed approximability is such an invariant for HP lattice models. The authors define a master approximation algorithm that has provable performance guarantees provided that a specific sublattice exists within a given lattice. They describe a broad class of crystal lattices that are approximable, which further suggests that approximability is a general property of HP lattice models.

HART,WILLIAM E.; ISTRAIL,SORIN

2000-06-01T23:59:59.000Z

390

When pigs fly: a study of computer generated paper folding  

E-Print Network [OSTI]

&M University in partial fulfillment of the requirements for the degree of MASTER OF SCIENCE Approved by: Chair of Committee, Carol LaFayette Committee Members, Frederic I. Parke Michael Greenwald Head of Department, Tim McLaughlin December 2008... Major Subject: Visualization Sciences iii ABSTRACT When Pigs Fly: A Study of Computer Generated Paper Folding. (December 2008) Elizabeth Jeanette Nitsch, B.E.D., Texas A&M University Chair of Advisory Committee: Prof. Carol LaFayette...

Nitsch, Elizabeth Jeanette

2009-05-15T23:59:59.000Z

391

Elastic energy of proteins and the stages of protein folding  

E-Print Network [OSTI]

We propose a universal elastic energy for proteins, which depends only on the radius of gyration $R_{g}$ and the residue number $N$. It is constructed using physical arguments based on the hydrophobic effect and hydrogen bonding. Adjustable parameters are fitted to data from the computer simulation of the folding of a set of proteins using the CSAW (conditioned self-avoiding walk) model. The elastic energy gives rise to scaling relations of the form $R_{g}\\sim N^{\

Lei, Jinzhi

2010-01-01T23:59:59.000Z

392

Combined approach to the inverse protein folding problem. Final report  

SciTech Connect (OSTI)

The main scientific contribution of the project ''Combined approach to the inverse protein folding problem'' submitted in 1996 and funded by the Department of Energy in 1997 is the formulation and development of the idea of the multilink recognition method for identification of functional and structural homologues of newly discovered genes. This idea became very popular after they first announced it and used it in prediction of the threading targets for the CASP2 competition (Critical Assessment of Structure Prediction).

Ruben A. Abagyan

2000-06-01T23:59:59.000Z

393

Invariant patterns in crystal lattices: Implications for protein folding algorithms  

SciTech Connect (OSTI)

Crystal lattices are infinite periodic graphs that occur naturally in a variety of geometries and which are of fundamental importance in polymer science. Discrete models of protein folding use crystal lattices to define the space of protein conformations. Because various crystal lattices provide discretizations of the same physical phenomenon, it is reasonable to expect that there will exist ``invariants`` across lattices that define fundamental properties of protein folding process; an invariant defines a property that transcends particular lattice formulations. This paper identifies two classes of invariants, defined in terms of sublattices that are related to the design of algorithms for the structure prediction problem. The first class of invariants is, used to define a master approximation algorithm for which provable performance guarantees exist. This algorithm can be applied to generalizations of the hydrophobic-hydrophilic model that have lattices other than the cubic lattice, including most of the crystal lattices commonly used in protein folding lattice models. The second class of invariants applies to a related lattice model. Using these invariants, we show that for this model the structure prediction problem is intractable across a variety of three-dimensional lattices. It`` turns out that these two classes of invariants are respectively sublattices of the two- and three-dimensional square lattice. As the square lattices are the standard lattices used in empirical protein folding` studies, our results provide a rigorous confirmation of the ability of these lattices to provide insight into biological phenomenon. Our results are the first in the literature that identify algorithmic paradigms for the protein structure prediction problem which transcend particular lattice formulations.

Hart, W.E.; Istrail, S.

1995-12-11T23:59:59.000Z

394

An evaluation of a weight-lifting belt and back injury prevention training class for fleet service clerks  

E-Print Network [OSTI]

. 3142 NS 0. 0323 0. 8390 NS 0. 1181 NS 0. 1606 NS 0. 4043 NS 0. 0703 NS ' Significant at pc0. 05. NS Non-Significant at pe0. 05 8: Belt Group 8&T: Belt & Training Group L: Line(inside/Outside Aircraft) BR: Bagroom C: Cabin Service M...AN EVALUATION OF A WEIGHT-LIFTING BELT AND BACK INJURY PREVENTION TRAINING CLASS FOR FLEET SERVICE CLERKS A Thesis by CHERYL RENEE REDDELL Submitted to the Office of Graduate Studies of Texas A&M University in partial fulfillment...

Reddell, Cheryl Renee?

2012-06-07T23:59:59.000Z

395

PENNSYLVANIA APPALACHIAN LABORATORY  

E-Print Network [OSTI]

. Planning Principles 10 4. Sustainable Design Goals and Initiatives 13 5. Major Capital Projects 15 #12;R knowledge through scientific discovery, integration, application, and teaching, that results in a comprehensive understanding of our environment and natural resources, helping to guide the State and world

Boynton, Walter R.

396

Review Protein folding: Then and now www.elsevier.com/locate/yabbi  

E-Print Network [OSTI]

Over the past three decades the protein folding field has undergone monumental changes. Originally a purely academic question, how a protein folds has now become vital in understanding diseases and our abilities to rationally manipulate cellular life by engineering protein folding pathways. We review and contrast past and recent developments in the protein folding field. Specifically, we discuss the progress in our understanding of protein folding thermodynamics and kinetics, the properties of evasive intermediates, and unfolded states. We also discuss how some abnormalities in protein folding lead to protein aggregation and human diseases.

Yiwen Chen; Feng Ding; Huifen Nie; Adrian W. Serohijos; Shantanu Sharma; Kyle C. Wilcox; Shuangye Yin; Nikolay V. Dokholyan

2007-01-01T23:59:59.000Z

397

Factors determining the adoption or non-adoption of precision agriculture by producers across the cotton belt  

E-Print Network [OSTI]

The purpose of this study was to determine factors influencing cotton producer adoption of Precision Agriculture in the cotton belt according to members of the American Cotton Producers of the National Cotton Council. The National Research Council...

Lavergne, Christopher Bernard

2006-04-12T23:59:59.000Z

398

Conformation changes and protein folding induced by \\phi^4 interaction  

E-Print Network [OSTI]

A model to describe the mechanism of conformational dynamics in protein based on matter interactions using lagrangian approach and imposing certain symmetry breaking is proposed. Both conformation changes of proteins and the injected non-linear sources are represented by the bosonic lagrangian with an additional \\phi^4 interaction for the sources. In the model the spring tension of protein representing the internal hydrogen bonds is realized as the interactions between individual amino acids and nonlinear sources. The folding pathway is determined by the strength of nonlinear sources that propagate through the protein backbone. It is also shown that the model reproduces the results in some previous works.

Januar, M; Handoko, L T; 10.1142/9789814335614_0047

2011-01-01T23:59:59.000Z

399

Directed transport as a mechanism for protein folding in vivo  

E-Print Network [OSTI]

We propose a model for protein folding in vivo based on a Brownian-ratchet mechanism in the multidimensional energy landscape space. The device is able to produce directed transport taking advantage of the assumed intrinsic asymmetric properties of the proteins and employing the consumption of energy provided by an external source. Through such a directed transport phenomenon, the polypeptide finds the native state starting from any initial state in the energy landscape with great efficacy and robustness, even in the presence of different type of obstacles. This model solves Levinthal's paradox without requiring biased transition probabilities but at the expense of opening the system to an external field.

Ernesto Gonzalez-Candela; Victor Romero-Rochin

2009-09-23T23:59:59.000Z

400

Microsecond Microfluidic Mixing for Investigation of Protein Folding Kinetics  

SciTech Connect (OSTI)

We have developed and characterized a mixer to study the reaction kinetics of protein folding on a microsecond timescale. The mixer uses hydrodynamic focusing of pressure-driven flow in a microfluidic channel to reduce diffusion times as first demonstrated by Knight et al.[1]. Features of the mixer include 1 {micro}s mixing times, sample consumptions of order 1 nl/s, loading sample volumes on the order of microliters, and the ability to manufacture in fused silica for compatibility with most spectroscopic methods.

Hertzog, D E; Santiago, J G; Bakajin, O

2003-06-25T23:59:59.000Z

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


401

A density-temperature description of the outer electron radiation belt during geomagnetic storms  

SciTech Connect (OSTI)

Electron flux measurements from 7 satellites in geosynchronous orbit from 1990-2007 are fit with relativistic bi-Maxwellians, yielding a number density n and temperature T description of the outer electron radiation belt. For 54.5 spacecraft years of measurements the median value ofn is 3.7x10-4 cm-3 and the median value ofT is 142 keY. General statistical properties of n, T, and the 1.1-1.5 MeV flux J are investigated, including local-time and solar-cycle dependencies. Using superposed-epoch analysis triggered on storm onset, the evolution of the outer electron radiation belt through high-speed-steam-driven storms is investigated. The number density decay during the calm before the storm is seen, relativistic-electron dropouts and recoveries from dropout are investigated, and the heating of the outer electron radiation belt during storms is examined. Using four different triggers (SSCs, southward-IMF CME sheaths, southward-IMF magnetic clouds, and minimum Dst), CME-driven storms are analyzed with superposed-epoch techniques. For CME-driven storms an absence of a density decay prior to storm onset is found, the compression of the outer electron radiation belt at time of SSC is analyzed, the number-density increase and temperature decrease during storm main phase is seen, and the increase in density and temperature during storm recovery phase is observed. Differences are found between the density-temperature and the flux descriptions, with more information for analysis being available in the density-temperature description.

Borovsky, Joseph E [Los Alamos National Laboratory; Cayton, Thomas E [Los Alamos National Laboratory; Denton, Michael H [LANCASTER UNIV

2009-01-01T23:59:59.000Z

402

Protein folding and macromolecular dynamics : fundamental limits of length and time scales.  

E-Print Network [OSTI]

??In this thesis, physics-based models of protein folding at the secondary and tertiary level are developed to resolve long-standing issues of protein folding kinetics. As (more)

Lin, Milo M.

2012-01-01T23:59:59.000Z

403

Self-organization and mismatch tolerance in protein folding: General theory and an application  

E-Print Network [OSTI]

Self-organization and mismatch tolerance in protein folding: General theory and an application approaches to the so-called protein folding problem, mainly because the microscopic models have no explicit

Berry, R. Stephen

404

Protein folding and phylogenetic tree reconstruction using stochastic approximation Monte Carlo  

E-Print Network [OSTI]

folding problems. The numerical results indicate that it outperforms simulated annealing and conventional Monte Carlo algorithms as a stochastic optimization algorithm. We also propose one method for the use of secondary structures in protein folding...

Cheon, Sooyoung

2007-09-17T23:59:59.000Z

405

Restoring Sustainable Forests on Appalachian Mined Lands for Wood Product, Renewable Energy, Carbon Sequestration, and Other Ecosystem Services  

SciTech Connect (OSTI)

Concentrations of CO{sub 2} in the Earths atmosphere have increased dramatically in the past 100 years due to deforestation, land use change, and fossil fuel combustion. These humancaused, higher levels of CO{sub 2} may enhance the atmospheric greenhouse effect and may contribute to climate change. Many reclaimed coal-surface mine areas in the eastern U.S. are not in productive use. Reforestation of these lands could provide societal benefits, including sequestration of atmospheric carbon. The goal of this project was to determine the biological and economic feasibility of restoring high-quality forests on the tens of thousands of hectares of mined land and to measure carbon sequestration and wood production benefits that would be achieved from large-scale application of forest restoration procedures. We developed a mine soil quality model that can be used to estimate the suitability of selected mined sites for carbon sequestration projects. Across the mine soil quality gradient, we tested survival and growth performance of three species assemblages under three levels of silvicultural. Hardwood species survived well in WV and VA, and survived better than the other species used in OH, while white pine had the poorest survival of all species at all sites. Survival was particularly good for the site-specific hardwoods planted at each site. Weed control plus tillage may be the optimum treatment for hardwoods and white pine, as any increased growth resulting from fertilization may not offset the decreased survival that accompanied fertilization. Grassland to forest conversion costs may be a major contributor to the lack of reforestation of previously reclaimed mine lands in the Appalachian coal-mining region. Otherwise profitable forestry opportunities may be precluded by these conversion costs, which for many combinations of factors (site class, forest type, timber prices, regeneration intensity, and interest rate) result in negative land expectation values. Improved technology and/or knowledge of reforestation practices in these situations may provide opportunities to reduce the costs of converting many of these sites as research continues into these practices. It also appears that in many cases substantial payments, non-revenue values, or carbon values are required to reach profitability under the present circumstances. It is unclear when, or in what form, markets will develop to support any of these add-on values to supplement commercial forestry revenues. However, as these markets do develop, they will only enhance the viability of forestry on reclaimed mined lands, although as we demonstrate in our analysis of carbon payments, the form of the revenue source may itself influence management, potentially mitigating some of the benefits of reforestation. For a representative mined-land resource base, reforestation of mined lands with mixed pine-hardwood species would result in an average estimated C accumulation in forms that can be harvested for use as wood products or are likely to remain in the soil C pool at ~250 Mg C ha{sup -1} over a 60 year period following reforestation. The additionality of this potential C sequestration was estimated considering data in scientific literature that defines C accumulation in mined-land grasslands over the long term. Given assumptions detailed in the text, these lands have the potential to sequester ~180 Mg C ha{sup -1}, a total of 53.5 x 10{sup 6} Mg C, over 60 years, an average of ~900,000 Mg C / yr, an amount equivalent to about 0.04% of projected US C emissions at the midpoint of a 60-year period (circa 2040) following assumed reforestation. Although potential sequestration quantities are not great relative to potential national needs should an energy-related C emissions offset requirement be developed at some future date, these lands are available and unused for other economically valued purposes and many possess soil and site properties that are well-suited to reforestation. Should such reforestation occur, it would also produce ancillary benefits by providing env

Burger, James A

2006-09-30T23:59:59.000Z

406

Examining the specific entropy (density of adiabatic invariants) of the outer electron radiation belt  

SciTech Connect (OSTI)

Using temperature and number-density measurements of the energetic-electron population from multiple spacecraft in geosynchronous orbit, the specific entropy S = T/n{sup 2/3} of the outer electron radiation belt is calculated. Then 955,527 half-hour-long data intervals are statistically analyzed. Local-time and solar-cycle variations in S are examined. The median value of the specific entropy (2.8 x 10{sup 7} eVcm{sup 2}) is much larger than the specific entropy of other particle populations in and around the magnetosphere. The evolution of the specific entropy through high-speed-stream-driven geomagnetic storms and through magnetic-cloud-driven geomagnetic storms is studied using superposed-epoch analysis. For high-speed-stream-driven storms, systematic variations in the entropy associated with electron loss and gain and with radiation-belt heating are observed in the various storm phases. For magnetic-cloud-driven storms, multiple trigger choices for the data superpositions reveal the effects of interplanetary shock arrival, sheath driving, cloud driving, and recovery phase. The specific entropy S = T/n{sup 2/3} is algebraically expressed in terms of the first and second adiabatic invariants of the electrons: this allows a relativistic expression for S in terms of T and n to be derived. For the outer electron radiation belt at geosynchronous orbit, the relativistic corrections to the specific entropy expression are -15%.

Borovsky, Joseph E [Los Alamos National Laboratory; Denton, Michael H [LANCASTER UNIV

2008-01-01T23:59:59.000Z

407

Efficient Traversal of Beta-Sheet Protein Folding Pathways Using Ensemble Models  

E-Print Network [OSTI]

Efficient Traversal of Beta-Sheet Protein Folding Pathways Using Ensemble Models SOLOMON SHENKER,1 introduce a complete methodology to

Gifford, David K.

408

The Trp Cage: Folding Kinetics and Unfolded State Topology via Molecular Dynamics Simulations  

E-Print Network [OSTI]

, ) 91 ps-1). The Folding@Home distributed computing project was used to generate an aggregate simulation

Snow, Christopher

409

Controlling protein molecular dynamics: How to accelerate folding while preserving the native state  

E-Print Network [OSTI]

pioneered, in particular, in the Folding@Home project and taken to the extent where hundred of thousands

Nerukh, Dmitry

410

Identification of Characteristic Protein Folding Channels in a Coarse-Grained Hydrophobic-Polar Peptide Model  

E-Print Network [OSTI]

Folding channels and free-energy landscapes of hydrophobic-polar heteropolymers are discussed on the basis of a minimalistic off-lattice coarse-grained model. We investigate how rearrangements of hydrophobic and polar monomers in a heteropolymer sequence lead to completely different folding behaviors. Studying three exemplified sequences with the same content of hydrophobic and polar residues, we can reproduce within this simple model two-state folding, folding through intermediates, as well as metastability.

Stefan Schnabel; Michael Bachmann; Wolfhard Janke

2007-10-25T23:59:59.000Z

411

Folding and Function of Proteorhodopsins in Photoenergy Transducing Membranes  

SciTech Connect (OSTI)

The overall research objectives are to develop proteorhodopsin (PR) proteins as a model system for {alpha}?-helical membrane protein insertion and folding, and to advance understanding of the diversity and mechanisms of PRs, a large family of photoenergy transducers (~4000 identified) abundant in the worlds oceans. Specific aims are: (1) To develop a highefficiency genetic selection procedure for light-driven proton-pumping in E. coli cells. Such a procedure would provide a positive selection method for proper folding and function of PRs in the E. coli membrane. (2) Characterize flash-induced absorption changes and photocurrents in PR variants in organisms from various environments, and their expression level and function when expressed in E. coli. Subaims are to: (a) elucidate the relationship of the transport mechanism to mechanisms of other microbial rhodopsins, some of which like PRs function as ion transporters and some of which use light energy to activate signaling pathways (sensory rhodopsins); and (b) identify important residues and chemical events in light-driven proton transport by PRs. In addition to their importance to the energy of the biosphere PRs have attracted interest for their potential for use in making photoenergy-transducing membranes for bioengineering applications.

Spudich, John L

2012-08-10T23:59:59.000Z

412

Temperature dependence of the folding rate in a simple protein model: Search for a ``glass'' transition  

E-Print Network [OSTI]

the thermodynamics and kinetics of protein folding over a wide range of temperatures. Both random sequences are in qualitative disagreement with the conclusions of a theoretical analysis of protein folding kinetics based. INTRODUCTION The protein folding problem has both thermodynamic and kinetic aspects. The existence of a unique

Sali, Andrej

413

Kinetics of Folding of Proteins and RNA D. THIRUMALAI* AND S. A. WOODSON  

E-Print Network [OSTI]

protein folding is a self-assembly process; i.e., the information needed for obtaining the three of protein folding came from Levinthal6 who wondered how a protein molecule searches the astronomically large to general kinetic scenarios for protein folding which are just beginning to be con- firmed experimentally

Thirumalai, Devarajan

414

BarMap: RNA Folding on Dynamics Energy Landscapes Ivo L. Hofacker,a  

E-Print Network [OSTI]

of pulling polymers through a pore. Key words: RNA folding kinetics, barrier tree, dynamic energy landscapeBarMap: RNA Folding on Dynamics Energy Landscapes Ivo L. Hofacker,a , Christoph Flamma , Christian required to analyse the folding energy landscapes to a one-time preprocessing step. The basic idea

Flamm, Christoph

415

Cooperativity, Smooth Energy Landscapes and the Origins of Topology-dependent Protein Folding Rates  

E-Print Network [OSTI]

folding of simple proteins. We demonstrate that tra- ditional Go polymers lack the extreme cooperativityCooperativity, Smooth Energy Landscapes and the Origins of Topology-dependent Protein Folding Rates Barbara Santa Barbara, CA 93106-9510 USA The relative folding rates of simple, single-domain proteins

Levine, Alex J.

416

Cotranslational protein folding with L-systems Gemma B. Danks1,2  

E-Print Network [OSTI]

Cotranslational protein folding with L-systems Gemma B. Danks1,2 , Susan Stepney2 , and Leo S. D-systems, parallel rewriting rules, to modelling protein folding using two complementary approaches: a physics an adaptive stochas- tic open L-systems model of protein folding. L-systems were originally developed to model

Stepney, Susan

417

An Ant Colony Optimization Algorithm for the 2D HP Protein Folding Problem  

E-Print Network [OSTI]

An Ant Colony Optimization Algorithm for the 2D HP Protein Folding Problem Alena Shmygelska, Rosal, the two dimensional hydrophobic-polar (2D HP) protein folding problem. We introduce an ant colony algorithm closely approaches that of specialised, state-of-the methods for 2D HP protein folding. 1

Hoos, Holger H.

418

Using Motion Planning to Study Protein Folding Pathways Department of Computer Science  

E-Print Network [OSTI]

Using Motion Planning to Study Protein Folding Pathways #3; Guang Song Department of Computer a framework for studying protein folding path- ways and potential landscapes which is based on techniques and study with other methods. Our focus in this work is to study the protein folding mech- anism assuming we

LaValle, Steven M.

419

An Improved Ant Colony Optimisation Algorithm for the 2D HP Protein Folding Problem  

E-Print Network [OSTI]

An Improved Ant Colony Optimisation Algorithm for the 2D HP Protein Folding Problem Alena hydrophobic-polar (2D HP) protein folding problem. We present an improved version of our recently proposed Ant search. Overall, the results presented here establish our new ACO algorithm for 2D HP protein folding

Hoos, Holger H.

420

Protein Folding, Spin Glass and Computational Complexity 1 Aviezri S. Fraenkel  

E-Print Network [OSTI]

Protein Folding, Spin Glass and Computational Complexity 1 Aviezri S. Fraenkel Abstract of protein folding to solve computationally intractable problems. One way of investigating this idea is to encode known NP­complete problems in terms of protein folding. The main content of this paper is to do

Fraenkel, Aviezri

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


421

A New Algorithm for Protein Folding in the HP Model Alantha Newman  

E-Print Network [OSTI]

A New Algorithm for Protein Folding in the HP Model Alantha Newman #3; Abstract We consider the problem of protein folding in the HP model on the two-dimensional square lattice. This problem but not in the string) are present. The protein folding problem in the hydrophobic-hydrophilic (HP) model on the 2D

Newman, Alantha

422

Sequence-Based Prediction of Protein Folding Rates Using Contacts, Secondary Structures and Support Vector Machines  

E-Print Network [OSTI]

Sequence-Based Prediction of Protein Folding Rates Using Contacts, Secondary Structures and Support, Columbia, Missouri * Corresponding author: chengji@missouri.edu Abstract Predicting protein folding rate is useful for understanding protein folding process and guiding protein design. Here we developed a method

Cheng, Jianlin Jack

423

PROTEIN FOLD RECOGNITION USING RESIDUE-BASED ALIGNMENTS OF SEQUENCE AND SECONDARY STRUCTURE  

E-Print Network [OSTI]

PROTEIN FOLD RECOGNITION USING RESIDUE-BASED ALIGNMENTS OF SEQUENCE AND SECONDARY STRUCTURE Zafer methods [3,4]. Index Terms- protein fold recognition, secondary structure alignment, amino acid alignment &sabanciuniv.edu culated for each sequence-structure alignment. Protein fold recog- nition problem can

Erdogan, Hakan

424

Topological Aspects of DNA Function and Protein Folding 533 Identifying knots in proteins  

E-Print Network [OSTI]

Topological Aspects of DNA Function and Protein Folding 533 Identifying knots in proteins Kenneth C proteins. How these knotted proteins fold and finding the evolutionary advantage provided by these knots are among some of the key questions currently being studied in the protein folding field. The detection

Bigelow, Stephen

425

Protein Folding in the Hydrophobic-Hydrophilic (HP) Model is NP-Complete  

E-Print Network [OSTI]

Protein Folding in the Hydrophobic-Hydrophilic (HP) Model is NP-Complete Bonnie Berger* Tom Leightont Abstract One of the simplest and most popular biophysical mod- els of protein folding is the hydrophobic-hydrophilic (HP) model. The HP model abstracts the hydrophobic in- teraction in protein folding

Istrail, Sorin

426

Single-molecule spectroscopy of protein folding in a chaperonin cage  

E-Print Network [OSTI]

Single-molecule spectroscopy of protein folding in a chaperonin cage Hagen Hofmanna , Frank for avoiding protein aggregation in vivo, but it is still unclear how they affect protein folding mechanisms In the recent past, a large number of components have been identified that control and modulate protein folding

Lipman, Everett A.

427

Hydrophobic Aided Replica Exchange: an Efficient Algorithm for Protein Folding in Explicit Solvent  

E-Print Network [OSTI]

Hydrophobic Aided Replica Exchange: an Efficient Algorithm for Protein Folding in Explicit Solvent protein folding in explicit solvent. This method is based on exaggerating the hydrophobic effect understanding of protein folding and misfolding is critical to many problems in computational biology.1 Many

Berne, Bruce J.

428

Lattice Protein Folding With Two and Four-Body Statistical Hin Hark Gan,1  

E-Print Network [OSTI]

Lattice Protein Folding With Two and Four-Body Statistical Potentials Hin Hark Gan,1 Alexander/sequence compatibility of proteins,5,6 homology modeling,7 and protein folding simulations.8 ­10 Currently, most structures. Multibody potentials may help improve our understanding of the cooperativity of protein folding

Schlick, Tamar

429

Reliable Protein Folding on Complex Energy Landscapes: The Free Energy Reaction Path  

E-Print Network [OSTI]

Reliable Protein Folding on Complex Energy Landscapes: The Free Energy Reaction Path Gregg Lois the dynamics of protein folding. The key insight is that the search for the native protein conformation. In the ``new view'' of protein folding (3,7), statistical fluctuations on an energy landscape give rise

O'Hern, Corey S.

430

Designability, thermodynamic stability, and dynamics in protein folding: A lattice model study  

E-Print Network [OSTI]

Designability, thermodynamic stability, and dynamics in protein folding: A lattice model study Re October 1998 In the framework of a lattice-model study of protein folding, we investigate the interplay model. Lattice models have been widely used in the study of protein folding dynamics.2­8 The main

Levine, Alex J.

431

A new approach to multi-modal diffusions with applications to protein folding  

E-Print Network [OSTI]

A new approach to multi-modal diffusions with applications to protein folding Julie Lyng Forman1 rates are estimated. The new models provide a better fit to this type of protein folding data than time; measurement error; martingale estimating func- tion; multi-modality; protein folding; stochastic

Sørensen, Michael

432

Is Protein Unfolding the Reverse of Protein Folding? A Lattice Simulation Analysis  

E-Print Network [OSTI]

Is Protein Unfolding the Reverse of Protein Folding? A Lattice Simulation Analysis Aaron R. Dinner1- turing conditions are commonly employed to study the mechanism by which a protein folds to its native of determining the mechanism by which a protein folds would be to use an accurate high-resolution model

Dinner, Aaron

433

Atomistic Modeling of Macromolecular Crowding Predicts Modest Increases in Protein Folding and Binding Stability  

E-Print Network [OSTI]

Atomistic Modeling of Macromolecular Crowding Predicts Modest Increases in Protein Folding that macromolecular crowding can increase protein folding stability, but depending on details of the models (e.g., how on the effects of macro- molecular crowding on protein folding and binding stability has been reached. Crowders

Weston, Ken

434

Predicting protein folding rates from geometric contact and amino acid sequence  

E-Print Network [OSTI]

Predicting protein folding rates from geometric contact and amino acid sequence ZHENG OUYANG structural properties. Keywords: protein folding; geometric contact number; zippers model; folding rate, USA (RECEIVED January 22, 2008; FINAL REVISION April 4, 2008; ACCEPTED April 7, 2008) Abstract Protein

Dai, Yang

435

Single-molecule protein folding: Diffusion fluorescence resonance energy transfer studies  

E-Print Network [OSTI]

Single-molecule protein folding: Diffusion fluorescence resonance energy transfer studies for protein folding studies and has been extensively stud- ied, both experimentally (at the ensemble level concentration. It is shown that new infor- mation about different aspects of the protein folding reaction can

Croquette, Vincent

436

AN ANALYSIS OF PROTEIN FOLDING BY DECODING THE HIERARCHY OF NATIVE-STATE STRUCTURAL INTERACTIONS  

E-Print Network [OSTI]

AN ANALYSIS OF PROTEIN FOLDING BY DECODING THE HIERARCHY OF NATIVE-STATE STRUCTURAL INTERACTIONS and Department of Physics and Astronomy 2002 #12;ABSTRACT AN ANALYSIS OF PROTEIN FOLDING BY DECODING by which proteins fold is one of the most intensely studied prob- lems in science. Here, an analysis

Thorpe, Michael

437

Signatures of the Protein Folding Pathway in Two-Dimensional Ultraviolet Spectroscopy  

E-Print Network [OSTI]

Signatures of the Protein Folding Pathway in Two-Dimensional Ultraviolet Spectroscopy Jun Jiang of the signals provides a quantitative marker of protein folding status, accessible by both theoretical calculations and experiments. SECTION: Biophysical Chemistry and Biomolecules Protein folding is an important

Mukamel, Shaul

438

Effect of Macromolecular Crowding on Protein Folding Dynamics at the Secondary Structure Level  

E-Print Network [OSTI]

Effect of Macromolecular Crowding on Protein Folding Dynamics at the Secondary Structure Level coupled to the process of protein folding in vivo. While previous studies have provided invaluable insight about how crowding affects protein folding dynamics at the secondary structure level. In this study, we

Shorter, James

439

Semi-deterministic and genetic algorithms for global optimization of microfluidic protein folding  

E-Print Network [OSTI]

Semi-deterministic and genetic algorithms for global optimization of microfluidic protein folding of a fast microfluidic protein folding device. The aim of the latter design is to reduce mixing times protein folding devices design. Section 3 presents three global optimization algorithms with associated

Santiago, Juan G.

440

Simple Physical Models Connect Theory and Experiment in Protein Folding Kinetics  

E-Print Network [OSTI]

Simple Physical Models Connect Theory and Experiment in Protein Folding Kinetics Eric Alm1 underlying the protein-folding problem can be tested by developing and characterizing simple models that make prefactor for protein folding. Finally, we discuss the limitations of simple native-state-based models

Morozov, Alexandre V.

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


441

Gibbs Adsorption Isotherm Combined with Monte Carlo Sampling to See Action of Cosolutes on Protein Folding  

E-Print Network [OSTI]

Driven by conditions set by smaller solutes, proteins fold and unfold. Experimentally, these conditions stability. Proteins 2004;57:311­321. © 2004 Wiley-Liss, Inc. INTRODUCTION Inside cells, proteins fold poten- tials, to follow the process of protein folding or unfolding in response to its environment

Harries, Daniel

442

Parallel ContinuationBased Global Optimization for Molecular Conformation and Protein Folding \\Lambda  

E-Print Network [OSTI]

Parallel Continuation­Based Global Optimization for Molecular Conformation and Protein Folding­ pecially protein folding. Global minimization problems are difficult to solve when the objective functions­ cluding energy functions for molecular conformation and protein folding. Mathematical theory

Neumaier, Arnold

443

Combinatorial Algorithms for Protein Folding in Lattice Models: A Survey of Mathematical Results  

E-Print Network [OSTI]

Combinatorial Algorithms for Protein Folding in Lattice Models: A Survey of Mathematical Results a comprehensive survey of combinatorial algorithms and theorems about lattice protein folding models obtained in the almost 15 years since the publication in 1995 of the first protein folding approximation algorithm

Istrail, Sorin

444

Pathways for protein folding: is a "new view" needed? Vijay S Pande1  

E-Print Network [OSTI]

Pathways for protein folding: is a "new view" needed? Vijay S Pande1 , Alexander Yu Grosberg2 energy MG Molten globule Introduction How do proteins fold? While the thirty five years since Anfinsen has demonstrated the complexity of protein folding, the search continues for the general principles

Croquette, Vincent

445

A minimum-reaction-flux solution to master-equation models of protein folding  

E-Print Network [OSTI]

A minimum-reaction-flux solution to master-equation models of protein folding Huan-Xiang Zhoua; published online 20 May 2008 Master equations are widely used for modeling protein folding. Here- ceptual and quantitative models for protein folding.1­15 In such models, the conformational space

Weston, Ken

446

Relationship between protein folding thermodynamics and the energy landscape Jaegil Kim,* Thomas Keyes,  

E-Print Network [OSTI]

Relationship between protein folding thermodynamics and the energy landscape Jaegil Kim,* Thomas Received 23 September 2008; published 4 March 2009 The origin of protein folding thermodynamics is examined.15.Cc, 05.70. a, 87.15.A Protein folding--i.e., how a polypeptide chain reaches a unique native state

Straub, John E.

447

From residue matching patterns to protein folding topographies: General model and bovine  

E-Print Network [OSTI]

From residue matching patterns to protein folding topographies: General model and bovine pancreatic-grained model for protein-folding dynamics is introduced based on a discretized representation of torsional, pattern recognition, and general characteristics of protein folding kinetics. Topology here implies

Berry, R. Stephen

448

Protein Folding and Misfolding in Disease Instructors: Jean Baum and Ron Levy  

E-Print Network [OSTI]

Protein Folding and Misfolding in Disease Instructors: Jean Baum and Ron Levy Tuesday 2:30-5:00 PDB Training Room Syllabus Part I: Protein Folding 9/4: Introduction to Protein Architecture 9/11: Cooperative Transitions in Protein Molecules 9/16: Kinetics of Protein Folding and the Energy Landscape Model 9

Chen, Kuang-Yu

449

Interplay between Secondary and Tertiary Structure Formation in Protein Folding Cooperativity  

E-Print Network [OSTI]

Interplay between Secondary and Tertiary Structure Formation in Protein Folding Cooperativity¨lich, 52425 Ju¨lich, Germany Received June 14, 2010; E-mail: deserno@andrew.cmu.edu Abstract: Protein folding be difficult to measure. Therefore, protein folding cooperativity is often probed using the calorimetric

Bachmann, Michael

450

[25] Identifying Importance of Amino Acids for Protein Folding from Crystal Structures  

E-Print Network [OSTI]

[25] Identifying Importance of Amino Acids for Protein Folding from Crystal Structures By Nikolay V their unique three-dimensional structure. This ques- tion, known as the protein-folding problem,1­25 is of great importance because understanding protein-folding mechanisms is a key to success- ful manipulation

Dokholyan, Nikolay V.

451

Combining Task-and Data Parallelism to Speed up Protein Folding on a Desktop Grid Platform  

E-Print Network [OSTI]

Combining Task- and Data Parallelism to Speed up Protein Folding on a Desktop Grid Platform Is efficient protein folding possible with CHARMM on the United Devices MetaProcessor? B. Uk1 , M. Taufer1 parallelism and might not fit the needs for protein folding simulations with explicit water molecules. A short

Taufer, Michela

452

RESEARCH ARTICLE Open Access Probing the folding of mini-protein Beta3s by  

E-Print Network [OSTI]

RESEARCH ARTICLE Open Access Probing the folding of mini-protein Beta3s by two-dimensional infrared-dimensional correlation spectroscopy (2DCS) to characterize the folding mechanism of the mini-protein Beta3s. In this study Beta3s was folded by molecular dynamics (MD) simulation and intermediate conformational ensembles

Mukamel, Shaul

453

3D finite amplitude folding: Implications for stress evolution during crustal and lithospheric deformation  

E-Print Network [OSTI]

3D finite amplitude folding: Implications for stress evolution during crustal and lithospheric-layer folding to study this instability in 3D. It is demonstrated that linear theories correctly describe insensitive to the applied background shortening directions. Furthermore, the 3D folding instability reduces

Kaus, Boris

454

Techniques for modeling and analyzing RNA and protein folding energy landscapes  

E-Print Network [OSTI]

techniques can be used to study RNA and protein fold- ing kinetics such as population kinetics, folding rates, and the folding of particular subsequences. In particular, a map-based Master Equation (MME) method can be used to analyze the population kinetics...

Tang, Xinyu

2009-05-15T23:59:59.000Z

455

Microscopic theory of protein folding rates. II. Local reaction coordinates and chain dynamics  

E-Print Network [OSTI]

Microscopic theory of protein folding rates. II. Local reaction coordinates and chain dynamics John involved in barrier crossing for protein folding are investigated in terms of the chain dynamics of the polymer backbone, completing the microscopic description of protein folding presented in the preceding

Takada, Shoji

456

The Flory isolated-pair hypothesis is not valid for polypeptide chains: Implications for protein folding  

E-Print Network [OSTI]

­coil theories and protein folding. Contrary to the hypothesis, we find that systematic local steric effects can). The central thermodynamic question in protein folding is: How can a polypeptide chain overcome conformational­6) and protein-folding theories (7). It follows from the hypothesis that local structural transitions are ruled

Fleming, Patrick

457

Some New Features for Protein Fold Prediction Nikhil Ranjan Pal and Debrup Chakraborty  

E-Print Network [OSTI]

Some New Features for Protein Fold Prediction Nikhil Ranjan Pal and Debrup Chakraborty Electronics}@isical.ac.in Abstract. In this paper we propose several sets of new features for protein fold prediction. The first discriminating powers in predicting protein folds. 1 Introduction One of the most important and challenging

Chakraborty, Debrup

458

Fluctuations of primary ubiquitin folding intermediates in a force clamp Frauke Grater, Helmut Grubmuller *  

E-Print Network [OSTI]

function of which is determined by their three-dimensional struc- ture, the protein fold. Understanding the basic mechanism and associated driving forces of protein folding remains a major task in biology and has., 1997; Marszalek et al., 1999). Along these lines, new insights into protein folding have been recently

Gräter, Frauke

459

J. Mol. Biol. (1996) 259, 988994 Local Interactions Dominate Folding in a Simple  

E-Print Network [OSTI]

Unger1,2 * and John Moult2 Recent computational studies of simple models of protein folding have1 Press Limited Keywords: protein folding; lattice models; local interactions*Corresponding author Introduction What are the dominant contributions guiding the process of protein folding? The short life

Unger, Ron

460

Sparsely populated folding intermediates of the Fyn SH3 domain: Matching native-centric essential  

E-Print Network [OSTI]

the important contributions that computational methods can make in providing insights into protein folding. Understanding protein folding at the atomic level is a critical but elusive goal in structural biology. A protein's folded state can often be studied by x-ray crystallography or NMR spectroscopy, and recent

Chan, Hue Sun

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


461

Low-dimensional, free-energy landscapes of protein-folding reactions by nonlinear  

E-Print Network [OSTI]

Low-dimensional, free-energy landscapes of protein-folding reactions by nonlinear dimensionality) The definition of reaction coordinates for the characterization of a protein-folding reaction has long been-dimensional represen- tation of a complex process such as protein folding. reaction coordinate transition state

Moll, Mark

462

Within the folds, outside the box Susan Lindquist uncovers the roles that misshapen proteins  

E-Print Network [OSTI]

a com- mon thread. "The one universal theme in our lab is protein folding and how changes in protein on a hazy day. "People didn't realize how broad the protein folding problems are. A lot of things that started out as basic research into protein folding are now translating into a direct interest in human

Lindquist, Susan

463

Implementation and Characterization of Protein Folding on a Desktop Computational Grid  

E-Print Network [OSTI]

Implementation and Characterization of Protein Folding on a Desktop Computational Grid Is CHARMM such as protein folding, desktop grids could become viable alter- natives to clusters of PCs. In this paper, we present a prototype and discuss the viabil- ity of a protein folding application with CHARMM on the United

Taufer, Michela

464

Molecular Dynamics Simulations: Methods and Value in the Folding Problem Devon Chandler-Brown  

E-Print Network [OSTI]

March 2013 Introduction The protein folding has been an outstanding problem in molecular biology for a long period of time. Stated simply, the question of protein folding is that of how the primary amino that govern protein folding are thought to be well established. Forces driven by ionic, Van der Waals

465

Multi-class Protein Fold Recognition Through a Symbolic-Statistical Framework  

E-Print Network [OSTI]

Multi-class Protein Fold Recognition Through a Symbolic-Statistical Framework Marenglen Biba, University of Bari, Italy {biba,esposito,ferilli,basile,ndm}@di.uniba.it Abstract. Protein fold recognition to a multi-class protein fold recognition problem. We compare the proposed approach to a symbolic

Di Mauro, Nicola

466

Task-parallel global optimization with application to protein folding C. Voglis, P. E. Hadjidoukas,  

E-Print Network [OSTI]

Task-parallel global optimization with application to protein folding C. Voglis, P. E. Hadjidoukas parallelization of a real application case that concerns the protein folding problem. The experimental evaluation, cluster programming, numerical differentiation, global optimization, protein folding. 1. INTRODUCTION Many

Dimakopoulos, Vassilios

467

Long Proteins with Unique Optimal Foldings in the H-P Model ?  

E-Print Network [OSTI]

state of proteins is a global energy minimum, and (2) in most cases proteins fold to a unique state model designed to answer qualitative questions about the protein folding process. In this paper we; 1 Introduction Protein folding [14,22,30] is a central problem in molecular and computational

468

Predicting Protein Folds with Structural Repeats Using a Chain Graph Model  

E-Print Network [OSTI]

Predicting Protein Folds with Structural Repeats Using a Chain Graph Model Yan Liu yanliu, Carnegie Mellon University, Pittsburgh, PA 15213 USA Abstract Protein fold recognition is a key step to to accurately identify protein folds aris- ing from typical spatial arrangements of well-defined secondary

Xing, Eric P.

469

Face-centered cubic (FCC) lattice models for protein folding: energy function inference and biplane packing  

E-Print Network [OSTI]

Face-centered cubic (FCC) lattice models for protein folding: energy function inference and biplane simplified. The objective of PSP (also known as protein folding) is to select the molecule conformation which to infer general energy functions for the protein folding problem. While the general problem is intractable

Istrail, Sorin

470

Analysis of Methods for Predicting Protein Fold and Remote Homologue Recognition  

E-Print Network [OSTI]

Analysis of Methods for Predicting Protein Fold and Remote Homologue Recognition Prepared by Sanjay Stanford University #12;1. PROTEIN FOLD AND REMOTE HOMOLOGS 1.1 INTRODUCTION Life is a complex system-going efforts to learn biology, the protein folding has been one of those challenging areas in computational

471

Mechanical Properties of Bovine Rhodopsin and Bacteriorhodopsin: Possible Roles in Folding and Function  

E-Print Network [OSTI]

in rhodopsin but not in bacteriorhodopsin. This core may reflect differences in mechanisms of protein folding their adaptation to differing functions. Introduction Protein folding is one of the most challenging problems protein folding. For more than a decade, the atomic force microscope (AFM) has permitted the use of single

Palczewski, Krzysztof

472

Title: The automatic discovery of structural principles describing protein fold space  

E-Print Network [OSTI]

Title: The automatic discovery of structural principles describing protein fold space Adrian P author Short title Describing protein fold space #12;Summary The study of protein structure has largely arrangements and in the wider context of protein folding, function and evolution. Given the complicated nature

Muggleton, Stephen H.

473

Origin of Entropy Convergence in Hydrophobic Hydration and Protein Folding  

SciTech Connect (OSTI)

An information theory model of hydrophobic effects is used to construct a molecular explanation why hydrophobic solvation entropies of protein unfolding measured by high sensitivity calorimetry converge to zero at a common convergence temperature. The entropy convergence follows directly from the weak temperature dependence of occupancy fluctuations {l_angle}{delta}{ital n}{sup 2}{r_angle} for molecular-scale volumes in water. The macroscopic expression of the contrasting entropic behavior of water relative to common organic solvents is the {ital relative} temperature insensitivity of the water isothermal compressibility compared to hydrocarbon liquids. The information theory model used provides a quantitative description of small molecule hydration and, in addition, predicts that the value of the entropy at convergence is slightly {ital negative}. Interpretations of entropic contributions to protein folding should account for this result. {copyright} {ital 1996 The American Physical Society.}

Garde, S.; Hummer, G.; Garcia, A.E.; Paulaitis, M.E.; Pratt, L.R. [Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545 (United States)] [Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545 (United States); [Center for Molecular and Engineering Thermodynamics, Department of Chemical Engineering, University of Delaware, Newark, Delaware 19716 (United States); [Department of Chemical Engineering, Johns Hopkins University, Baltimore, Maryland 21218 (United States)

1996-12-01T23:59:59.000Z

474

Topological crossovers in the forced folding of self-avoiding matter  

E-Print Network [OSTI]

We study the scaling properties of forced folding of thin materials of different geometry. The scaling relations implying the topological crossovers from the folding of threedimensional plates to the folding of two-dimensional sheets, and further to the packing of one-dimensional strings, are derived for elastic and plastic manifolds. These topological crossovers in the folding of plastic manifolds were observed in experiments with predominantly plastic aluminum strips of different geometry. Elasto-plastic materials, such as paper sheets during the (fast) folding under increasing confinement force, are expected to obey the scaling force-diameter relation derived for elastic manifolds. However, in experiments with paper strips of different geometry, we observed the crossover from packing of one-dimensional strings to folding two dimensional sheets only, because the fractal dimension of the set of folded elasto-plastic sheets is the thickness dependent due to the strain relaxation after a confinement force is withdrawn.

Alexander S. Balankin; Daniel Morales Matamoros; Ernesto Pineda Leon; Antonio Horta Rangel; Miguel Angel Martinez Cruz; Didier Samayoa Ochoa

2009-07-25T23:59:59.000Z

475

Ultraviolet resonance Raman and fluorescence studies of folded and unfolded conformations of the membrane protein OmpA  

E-Print Network [OSTI]

Thermodynamics of Membrane Protein Folding: Lessons from theA Model for Membrane Protein Folding, H. S. Shafaat, K. M.goals of membrane protein folding studies is to ascertain

Sanchez, Katheryn Marie

2010-01-01T23:59:59.000Z

476

YidC protein, a molecular chaperone for LacY protein folding via the SecYEG protein machinery  

E-Print Network [OSTI]

GroEL-GroES- mediated protein folding. Chem. Rev. 106, 1917of chaperone-mediated protein folding in the cytosol. Nat.that impair membrane protein folding and generate a membrane

Zhu, L; Kaback, HR; Dalbey, RE

2013-01-01T23:59:59.000Z

477

Exploring the protein folding dynamics of beta3s with two-dimensional ultraviolet (2DUV) spectroscopy  

E-Print Network [OSTI]

Wang* Exploring the Protein Folding Dynamics of Beta3s withExploring the Protein Folding Dynamics of Beta3s with Two-echo signals to monitor the protein folding pro- cess of the

Lai, Z; Jiang, J; Mukamel, S; Wang, J

2014-01-01T23:59:59.000Z

478

The impact of main belt asteroids on infrared--submillimetre photometry and source counts  

E-Print Network [OSTI]

> Among the components of the infrared and submillimetre sky background, the closest layer is the thermal emission of dust particles and minor bodies in the Solar System. This contribution is especially important for current and future infrared and submillimetre space instruments --like those of Spitzer, Akari and Herschel -- and must be characterised by a reliable statistical model. > We describe the impact of the thermal emission of main belt asteroids on the 5...1000um photometry and source counts, for the current and future spaceborne and ground-based instruments, in general, as well as for specific dates and sky positions. > We used the statistical asteroid model (SAM) to calculate the positions of main belt asteroids down to a size of 1km, and calculated their infrared and submillimetre brightness using the standard thermal model. Fluctuation powers, confusion noise values and number counts were derived from the fluxes of individual asteroids. > We have constructed a large database of infrared and submillimetre fluxes for SAM asteroids with a temporal resolution of 5 days, covering the time span January 1, 2000 -- December 31, 2012. Asteroid fluctuation powers and number counts derived from this database can be obtained for a specific observation setup via our public web-interface. > Current space instruments working in the mid-infrared regime (Akari and Spitzer Space Telescopes) are affected by asteroid confusion noise in some specific areas of the sky, while the photometry of space infrared and submillimetre instruments in the near future (e.g. Herschel and Planck Space Observatories) will not be affected by asteroids. Faint main belt asteroids might also be responsible for most of the zodiacal emission fluctuations near the ecliptic.

Cs. Kiss; A. Pal; Th. G. Mueller; P. Abraham

2007-11-28T23:59:59.000Z

479

Contact order revisited: Influence of protein size on the folding rate  

SciTech Connect (OSTI)

Guided by the recent success of empirical model predicting the folding rates of small two-state folding proteins from the relative contact order (CO) of their native structures, by a theoretical model of protein folding that predicts that logarithm of the folding rate decreases with the protein chain length L as L2/3, and by the finding that the folding rates of multistate folding proteins strongly correlate with their sizes and have very bad correlation with CO, we reexamined the dependence of folding rate on CO and L in attempt to find a structural parameter that determines folding rates for the totality of proteins. We show that the Abs{sub CO} = CO x L, is able to predict rather accurately folding rates for both two-state and multistate folding proteins, as well as short peptides, and that this Abs{sub CO} scales with the protein chain length as L0.70 {+-} 0.07 for the totality of studied single-domain proteins and peptides.

Ivankov, Dmitry N.; Garbuzynskiy, Sergiy O.; Alm, Eric; Plaxco, Kevin W.; Baker, David; Finkelstein, Alexei V.

2003-05-28T23:59:59.000Z

480

New Horizons Science Photos from NASA's Pluto-Kuiper Belt Mission  

DOE Data Explorer [Office of Scientific and Technical Information (OSTI)]

DOE provided the power supply for NASA's New Horizons Mission, a mission to the Pluto and Charon, a double-planet system, and the Kuiper Belt. There are 61 science photos posted on the New Horizons website, along with mission photos, spacecraft images, launch photos, posters and renderings that are both scientific and artistic. Dates range from June of 2006 to February of 2008. The images can be searched by keywords, by date, or by subject topic. They can also be browsed as an entire list. Each image has a detailed description.

Note: This page contains sample records for the topic "appalachian fold belt" from the National Library of EnergyBeta (NLEBeta).
While these samples are representative of the content of NLEBeta,
they are not comprehensive nor are they the most current set.
We encourage you to perform a real-time search of NLEBeta
to obtain the most current and comprehensive results.


481

Emplacement of the Moxa Arch and interaction with the Western Overthrust Belt, Wyoming  

E-Print Network [OSTI]

of MASTER OF SCIENCE May 1986 Major Subject: Geology EMPLACEMENT OF THE MOXA ARCH AND INTERACTION WITH THE WESTERN OVERTHRUST BELT, WYOMING A Thesis by DAVID HARRY KRAIG Approved as to style and content by: David V. Wiltschko (Chairman of Committee... College B. S. The University of New Mexico Chairman of Advisory Committee: Dr. David V. Wiltschko The northern segment of the Moxa Arch is modeled as uplifted along a low-angle thrust (Moxa thrust, MT). The west-verging MT cuts up section from...

Kraig, David Harry

1986-01-01T23:59:59.000Z

482

Development and application of all-atom structure-based models for studying the role of geometry in biomolecular folding and function  

E-Print Network [OSTI]

in Protein Folding . . . . . . . . . . . . . . . . . . . . .P. G. (2004) Theory of protein folding. Curr. Opin. Struct.statistical mechanics of protein folding. Proc. Nat. Acad.

Noel, Jeffrey Kenneth

2012-01-01T23:59:59.000Z

483

Theory and practice of microlensing lightcurves around fold singularities  

E-Print Network [OSTI]

Among all galactic microlensing events, those involving a passage of the observed source star over the caustic created by a binary lens are particularly useful in providing information about stellar atmospheres, the dynamics of stellar populations in our own and neighbouring galaxies, and the statistical properties of stellar and sub-stellar binaries. This paper presents a comprehensive guide for modelling and interpreting the lightcurves obtained in events involving fold-caustic crossings. A new general, consistent, and optimal choice of parameters provides a deep understanding of the involved features, avoids numerical difficulties and minimizes correlations between model parameters. While the photometric data of a microlensing event around a caustic crossing itself do not provide constraints on the characteristics of the underlying binary lens and does not allow predictions of the behaviour of other regions of the lightcurve, vital constraints can be obtained in an efficient way if these are combined with a few simple characteristics of data outside the caustic crossings. A corresponding algorithm containing some improvements over an earlier approach which takes into account multi-site observations is presented and discussed in detail together with the arising parameter constraints paying special attention to the role of source and background fluxes.

M. Dominik

2004-06-23T23:59:59.000Z

484

Power law scaling of lateral deformations with universal Poissons index for randomly folded thin sheets  

E-Print Network [OSTI]

We study the lateral deformations of randomly folded elastoplastic and predominantly plastic thin sheets under the uniaxial and radial compressions. We found that the lateral deformations of cylinders folded from elastoplastic sheets of paper obey a power law behavior with the universal Poissons index nu = 0.17 pm 0.01, which does not depend neither the paper kind and sheet sizes, nor the folding confinement ratio. In contrast to this, the lateral deformations of randomly folded predominantly plastic aluminum foils display the linear dependence on the axial compression with the universal Poissons ratio nu_e = 0.33 pm 0.01. This difference is consistent with the difference in fractal topology of randomly folded elastoplastic and predominantly plastic sheets, which is found to belong to different universality classes. The general form of constitutive stress-deformation relations for randomly folded elastoplastic sheets is suggested.

Alexander S. Balankin; Didier Samayoa Ochoa; Ernesto Pineda Leon; Rolando Cortes Montes de Oca; Antonio Horta Rangel; Miguel Angel Martinez Cruz

2008-08-24T23:59:59.000Z

485

Transferable coarse-grained potential for $\\textit{de novo}$ protein folding and design  

E-Print Network [OSTI]

Protein folding and design are major biophysical problems, the solution of which would lead to important applications especially in medicine. Here a novel protein model capable of simultaneously provide quantitative protein design and folding is introduced. With computer simulations it is shown that, for a large set of real protein structures, the model produces designed sequences with similar physical properties to the corresponding natural occurring sequences. The designed sequences are not yet fully realistic and require further experimental testing. For an independent set of proteins, notoriously difficult to fold, the correct folding of both the designed and the natural sequences is also demonstrated. The folding properties are characterized by free energy calculations. which not only are consistent among natural and designed proteins, but we also show a remarkable precision when the folded structures are compared to the experimentally determined ones. Ultimately, this novel coarse-grained protein model ...

Coluzza, Ivan

2014-01-01T23:59:59.000Z

486

Thermodynamics and Kinetics of a Go Proteinlike Heteropolymer Model with Two-State Folding Characteristics  

E-Print Network [OSTI]

We present results of Monte Carlo computer simulations of a coarse-grained hydrophobic-polar Go-like heteropolymer model and discuss thermodynamic properties and kinetics of an exemplified heteropolymer, exhibiting two-state folding behavior. It turns out that general, characteristic folding features of realistic proteins with a single free-energy barrier can also be observed in this simplified model, where the folding transition is primarily driven by the hydrophobic force.

Anna Kallias; Michael Bachmann; Wolfhard Janke

2007-12-06T23:59:59.000Z

487

An 8-bit current mode ripple folding analog to digital converter  

E-Print Network [OSTI]

. 3. 4 Noise IV. RIPPLE FOLDING TECHNIQUE 1. Conceptual Description of Ripple Folding. . 2. Topologies to Implement Minimum-Maximum Detection. . . . . 2. 1 The Diode Bridge 2. 2 Bipolar Realization. . 2. 3 CMOS Realization 2. 4 Switched Current... single pole system. 23 Noise bandwidth. 24 Traditional folding A/D converter 25 (a) Conceptual ripple lolding A/D converter. . . . . . 21 23 23 . . . 30 . . . . . . 35 36 . . . . . 37 . . . 41 FIGURE Page 26 27 28 Diode bridge...

Dinc, Huseyin

2012-06-07T23:59:59.000Z

488

Energy barriers, cooperativity, and hidden intermediates in the folding of small proteins  

SciTech Connect (OSTI)

Current theoretical views of the folding process of small proteins (<{approx}100 amino acids) postulate that the landscape of potential mean force (PMF) for the formation of the native state has a funnel shape and that the free energy barrier to folding arises from the chain configurational entropy only. However, recent theoretical studies on the formation of hydrophobic clusters with explicit water suggest that a barrier should exist on the PMF of folding, consistent with the fact that protein folding generally involves a large positive activation enthalpy at room temperature. In addition, high-resolution structural studies of the hidden partially unfolded intermediates have revealed the existence of non-native interactions, suggesting that the correction of the non-native interactions during folding should also lead to barriers on PMF. To explore the effect of a PMF barrier on the folding behavior of proteins, we modified Zwanzig's model for protein folding with an uphill landscape of PMF for the formation of transition states. We found that the modified model for short peptide segments can satisfy the thermodynamic and kinetic criteria for an apparently two-state folding. Since the Levinthal paradox can be solved by a stepwise folding of short peptide segments, a landscape of PMF with a locally uphill search for the transition state and cooperative stabilization of folding intermediates/native state is able to explain the available experimental results for small proteins. We speculate that the existence of cooperative hidden folding intermediates in small proteins could be the consequence of the highly specific structures of the native state, which are selected by evolution to perform specific functions and fold in a biologically meaningful time scale.

Bai Yawen [Laboratory of Biochemistry, National Cancer Institute, NIH, Building 37, Room 6114E, Bethesda, MD 20892 (United States)]. E-mail: yawen@helix.nih.gov

2006-02-17T23:59:59.000Z

489

Investigation of Protein Folding by Using Combined Method of Molecular Dynamics and Monte Carlo Simulations.  

E-Print Network [OSTI]

??We used the combination of molecular dynamics and Monte Carlo method to investigate protein folding problems. The environments of proteins are very big, and often (more)

Liao, Jun-min

2006-01-01T23:59:59.000Z

490

Use of Urea Solutions to Study Backbone Hydration in Protein Folding.  

E-Print Network [OSTI]

?? The focus of this research was to understand the role of bulk water in protein-folding equilibria. Several thermodynamic properties of bulk water were measured (more)

Sekaran Parthasarathy, Harini

2013-01-01T23:59:59.000Z

491

Large Protein Folding and Dynamics Studied by Advanced Hydrogen Exchange Methods.  

E-Print Network [OSTI]

??Protein folding studies over the past 50 years have been largely focused on small proteins (< 200 residues) leading to a dearth of information about (more)

Walters, Benjamin Thomas

2013-01-01T23:59:59.000Z

492

Energy landscapes for protein folding, binding, and aggregation : simple funnels and beyond.  

E-Print Network [OSTI]

??The Funneled Energy Landscape Theory is currently the most widely accepted theory of protein folding. In this dissertation, the basic concepts of the Energy Landscape (more)

Cho, Samuel Sung-Il

2007-01-01T23:59:59.000Z

493

Structural Basis for the Cooperation of Hsp110 and Hsp70 Molecular Chaperones in Protein Folding.  

E-Print Network [OSTI]

??Protein folding is a crucial process for cell survival. Only natively structured proteins can perform their essential biological functions. Although all structure-relevant information is principally (more)

Polier, Sigrun

2009-01-01T23:59:59.000Z

494

Simplified models for simulating replica exchange simulations and recovering kinetics of protein folding.  

E-Print Network [OSTI]

??Protein folding is a fundamental problem in modern structural biology. The nature of the problem poses challenges to the understanding of the process via computer (more)

Zheng, Weihua

2009-01-01T23:59:59.000Z

495

Structural Characterization of Protein Folding Intermediates by Oxidative Labeling and Mass Spectrometry.  

E-Print Network [OSTI]

??A key challenge associated with protein folding studies is the characterization of short-lived intermediates that become populated en route to the native state. In this (more)

Stocks, Bradley B

2012-01-01T23:59:59.000Z

496

E-Print Network 3.0 - antagonistic folding-unfolding equilibrium...  

Broader source: All U.S. Department of Energy (DOE) Office Webpages (Extended Search)

University of Rochester Collection: Biology and Medicine 22 Simple Two-State Protein Folding Kinetics Requires Near-Levinthal Thermodynamic Cooperativity Summary: properties,...

497

Using Bit-Vector Decision Procedures for Analysis of Protein Folding Pathways  

E-Print Network [OSTI]

Abstract. We explore the use of bit-vector decision procedures for the analysis of protein folding pathways. We argue that the protein folding problem is not identical to the classical probabilistic model checking problem in verification. Motivated by the different nature of the protein folding problem, we present a translation of the protein folding pathways analysis problem into a bounded model checking framework with bit vector decision procedures. We also present initial results of our experiments using the UCLID bit-vector decision procedure. 1

Christopher James Langmead; Sumit Kumar Jha

498

Regional geological assessment of the Devonian-Mississippian shale sequence of the Appalachian, Illinois, and Michigan basins relative to potential storage/disposal of radioactive wastes  

SciTech Connect (OSTI)

The thick and regionally extensive sequence of shales and associated clastic sedimentary rocks of Late Devonian and Early Mississippian age has been considered among the nonsalt geologies for deep subsurface containment of high-level radioactive wastes. This report examines some of the regional and basin-specific characteristics of the black and associated nonblack shales of this sequence within the Appalachian, Illinois, and Michigan basins of the north-central and eastern United States. Principal areas where the thickness and depth of this shale sequence are sufficient to warrant further evaluation are identified, but no attempt is made to identify specific storage/disposal sites. Also identified are other areas with less promise for further study because of known potential conflicts such as geologic-hydrologic factors, competing subsurface priorities involving mineral resources and groundwater, or other parameters. Data have been compiled for each basin in an effort to indicate thickness, distribution, and depth relationships for the entire shale sequence as well as individual shale units in the sequence. Included as parts of this geologic assessment are isopach, depth information, structure contour, tectonic elements, and energy-resource maps covering the three basins. Summary evaluations are given for each basin as well as an overall general evaluation of the waste storage/disposal potential of the Devonian-Mississippian shale sequence,including recommendations for future studies to more fully characterize the shale sequence for that purpose. Based on data compiled in this cursory investigation, certain rock units have reasonable promise for radioactive waste storage/disposal and do warrant additional study.

Lomenick, T.F.; Gonzales, S.; Johnson, K.S.; Byerly, D.

1983-01-01T23:59:59.000Z

499

A Study of the Protein Folding Dynamic Abstract--In this paper, we propose two means to  

E-Print Network [OSTI]

A Study of the Protein Folding Dynamic Omar GACI Abstract--In this paper, we propose two means to study the protein folding dynamic. We rely on the HP model to study the protein folding problem in a con algorithms is validated experimentally. Keywords: boids, protein folding problem, interaction networks

Paris-Sud XI, Université de

500

Protein Folding Dynamics via Quantification of Kinematic Energy Landscape Sema Kachalo, Hsiao-Mei Lu, and Jie Liang*  

E-Print Network [OSTI]

Protein Folding Dynamics via Quantification of Kinematic Energy Landscape Se¨ma Kachalo, Hsiao of protein folding has been studied ex- tensively [1,2]. A remarkable observation is that protein folding that protein folding rates are largely determined by the topology of their native structure [3]. Theoretical

Dai, Yang