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Note: This page contains sample records for the topic "bind deleted domain" from the National Library of EnergyBeta (NLEBeta).
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1

Cellulose binding domain proteins  

DOE Patents [OSTI]

A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production thereof. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques.

Shoseyov, Oded (Karmey Yosef, IL); Shpiegl, Itai (Rehovot, IL); Goldstein, Marc (Davis, CA); Doi, Roy (Davis, CA)

1998-01-01T23:59:59.000Z

2

Cellulose binding domain proteins  

DOE Patents [OSTI]

A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques. 16 figs.

Shoseyov, O.; Shpiegl, I.; Goldstein, M.; Doi, R.

1998-11-17T23:59:59.000Z

3

Cellulose binding domain fusion proteins  

DOE Patents [OSTI]

A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production thereof. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques.

Shoseyov, Oded (Karmey Yosef, IL); Shpiegl, Itai (Rehovot, IL); Goldstein, Marc A. (Davis, CA); Doi, Roy H. (Davis, CA)

1998-01-01T23:59:59.000Z

4

Cellulose binding domain fusion proteins  

DOE Patents [OSTI]

A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques. 16 figs.

Shoseyov, O.; Yosef, K.; Shpiegl, I.; Goldstein, M.A.; Doi, R.H.

1998-02-17T23:59:59.000Z

5

Nucleic acids encoding a cellulose binding domain  

DOE Patents [OSTI]

A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production thereof. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques.

Shoseyov, Oded (Karmey Yosef, IL); Shpiegl, Itai (Rehovot, IL); Goldstein, Marc A. (Davis, CA); Doi, Roy H. (Davis, CA)

1996-01-01T23:59:59.000Z

6

Nucleic acids encoding a cellulose binding domain  

DOE Patents [OSTI]

A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques. 15 figs.

Shoseyov, O.; Shpiegl, I.; Goldstein, M.A.; Doi, R.H.

1996-03-05T23:59:59.000Z

7

Structural Basis for Metal Binding Specificity: the N-terminal Cadmium Binding Domain of the  

E-Print Network [OSTI]

In bacteria, P1-type ATPases are responsible for resistance to di- and monovalent toxic heavy metals by taking years and no common mechanism for resistance toward toxic heavy metals such as Cd(II), Zn(II), HgStructural Basis for Metal Binding Specificity: the N-terminal Cadmium Binding Domain of the P1

Scott, Robert A.

8

A Double-Deletion Method to Quantifying Incremental Binding Energies in Proteins from Experiment: Example of a Destabilizing Hydrogen  

E-Print Network [OSTI]

A Double-Deletion Method to Quantifying Incremental Binding Energies in Proteins from Experiment: Example of a Destabilizing Hydrogen Bonding Pair Luis A. Campos,*y Santiago Cuesta-Lo´pez,*z Jon Lo of a specific hydrogen bond in apoflavodoxin to protein stability is investigated by combining theory

Sancho, Javier

9

Methods of use of cellulose binding domain proteins  

DOE Patents [OSTI]

A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques. 16 figs.

Shoseyov, O.; Shpiegl, I.; Goldstein, M.A.; Doi, R.H.

1997-09-23T23:59:59.000Z

10

Methods of use of cellulose binding domain proteins  

DOE Patents [OSTI]

A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production thereof. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques.

Shoseyov, Oded (Karmey Yosef, IL); Shpiegl, Itai (Rehovot, IL); Goldstein, Marc A. (Davis, CA); Doi, Roy H. (Davis, CA)

1997-01-01T23:59:59.000Z

11

Methods of detection using a cellulose binding domain fusion product  

DOE Patents [OSTI]

A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production thereof. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques.

Shoseyov, Oded (Shimshon, IL); Shpiegl, Itai (North Gallilea, IL); Goldstein, Marc A. (Davis, CA); Doi, Roy H. (Davis, CA)

1999-01-01T23:59:59.000Z

12

Methods of detection using a cellulose binding domain fusion product  

DOE Patents [OSTI]

A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques. 34 figs.

Shoseyov, O.; Shpiegl, I.; Goldstein, M.A.; Doi, R.H.

1999-01-05T23:59:59.000Z

13

Molecular dissection of the roles of nucleotide binding and hydrolysis in dynein's AAA domains  

E-Print Network [OSTI]

Molecular dissection of the roles of nucleotide binding and hydrolysis in dynein's AAA domains (ATPase associated with various cellular activities) domains that are thought to bind nucleotide; the role of nucleotide binding and hydrolysis in each of these four AAA domains has constituted an important and unre

Vale, Ronald D.

14

Characterization of the ATP-Binding Domain of the Sarco(endo)plasmic Reticulum -ATPase: Probing Nucleotide Binding by Multidimensional NMR  

E-Print Network [OSTI]

Characterization of the ATP-Binding Domain of the Sarco(endo)plasmic Reticulum Ca2+ -ATPase cycle catalyzed by SERCA1a, we have studied the ATP-binding domain of SERCA1a in both nucleotide containing the nucleotide-binding domain of SERCA1a spanning residues Thr357-Leu600. ATP binding activity

Ikura, Mitsuhiko

15

E-Print Network 3.0 - atp binding domain Sample Search Results  

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

domain Search Powered by Explorit Topic List Advanced Search Sample search results for: atp binding domain Page: << < 1 2 3 4 5 > >> 1 ATP Utilization by Yeast Replication Factor C...

16

DNA binding specificity of the p73 DNA-binding domain  

E-Print Network [OSTI]

TD tetramerization domain TAD transactivation domain vi  transactivation domain (TAD) and the N-terminal truncatedp73 (?Np73) that lacks the TAD and it is therefore

Tse, Pui Wah

2011-01-01T23:59:59.000Z

17

CCAAT/enhancer binding protein {beta} deletion increases mitochondrial function and protects mice from LXR-induced hepatic steatosis  

SciTech Connect (OSTI)

Highlights: Black-Right-Pointing-Pointer LXR agonist activation increases liver TG accumulation by increasing lipogenesis. Black-Right-Pointing-Pointer C/EBP{beta}{sup -/-} mouse prevents LXR activation-mediated induction of hepatic lipogenesis. Black-Right-Pointing-Pointer C/EBP{beta} deletion increases mitochondrial transport chain function. Black-Right-Pointing-Pointer Beneficial effects of LXR activation on liver cholesterol metabolism did not change. Black-Right-Pointing-Pointer C/EBP{beta} inhibition might have important therapeutic potential. -- Abstract: Drugs designed specifically to activate liver X receptors (LXRs) have beneficial effects on lowering cholesterol metabolism and inflammation but unfortunately lead to severe hepatic steatosis. The transcription factor CCAAT/enhancer binding protein beta (C/EBP{beta}) is an important regulator of liver gene expression but little is known about its involvement in LXR-based steatosis and cholesterol metabolism. The present study investigated the role of C/EBP{beta} expression in LXR agonist (T0901317)-mediated alteration of hepatic triglyceride (TG) and lipogenesis in mice. C/EBP{beta} deletion in mice prevented LXR agonist-mediated induction of lipogenic gene expression in liver in conjunction with significant reduction of liver TG accumulation. Surprisingly, C/EBP{beta}{sup -/-} mice showed a major increase in liver mitochondrial electron chain function compared to WT mice. Furthermore, LXR activation in C/EBP{beta}{sup -/-} mice increased the expression of liver ATP-binding cassette transporter ABCG1, a gene implicated in cholesterol efflux and reducing blood levels of total and LDL-cholesterol. Together, these findings establish a central role for C/EBP{beta} in the LXR-mediated steatosis and mitochondrial function, without impairing the influence of LXR activation on lowering LDL and increasing HDL-cholesterol. Inactivation of C/EBP{beta} might therefore be an important therapeutic strategy to prevent LXR activation-mediated adverse effects on liver TG metabolism without disrupting its beneficial effects on cholesterol metabolism.

Rahman, Shaikh M., E-mail: rmizanoor@hotmail.com [Department of Pediatrics, School of Medicine, University of Colorado Denver, Aurora, CO 80045 (United States); Choudhury, Mahua; Janssen, Rachel C.; Baquero, Karalee C. [Department of Pediatrics, School of Medicine, University of Colorado Denver, Aurora, CO 80045 (United States)] [Department of Pediatrics, School of Medicine, University of Colorado Denver, Aurora, CO 80045 (United States); Miyazaki, Makoto [Division of Renal Diseases and Hypertension, School of Medicine, University of Colorado Denver, Aurora, CO 80045 (United States)] [Division of Renal Diseases and Hypertension, School of Medicine, University of Colorado Denver, Aurora, CO 80045 (United States); Friedman, Jacob E. [Department of Pediatrics, School of Medicine, University of Colorado Denver, Aurora, CO 80045 (United States) [Department of Pediatrics, School of Medicine, University of Colorado Denver, Aurora, CO 80045 (United States); Department of Biochemistry and Molecular Genetics, School of Medicine, University of Colorado Denver, Aurora, CO 80045 (United States)

2013-01-04T23:59:59.000Z

18

PEVK Domain of Titin: An Entropic Spring with Actin-Binding Properties  

E-Print Network [OSTI]

as an entropic spring with the properties of a random coil exhibiting mechanical conforma- tions of differentPEVK Domain of Titin: An Entropic Spring with Actin-Binding Properties Wolfgang A. Linke,*,1

Fernandez, Julio M.

19

A Novel Dimerization Interface of Cyclic Nucleotide Binding Domain, which is  

E-Print Network [OSTI]

1 A Novel Dimerization Interface of Cyclic Nucleotide Binding Domain, which is Disrupted Modeling 18, 9 (2012) 4053-4060" DOI : 10.1007/s00894-012-1404-5 #12;2 ABSTRACT Cyclic nucleotide binding and eukaryota. CNBD activation by cyclic nucleotide monophosphate (cNMP) is studied well in case of several

Paris-Sud XI, Université de

20

Crystal Structure of the Chromodomain Helicase DNA-binding Protein 1 (Chd1) DNA-binding Domain in Complex with DNA  

SciTech Connect (OSTI)

Chromatin remodelers are ATP-dependent machines that dynamically alter the chromatin packaging of eukaryotic genomes by assembling, sliding, and displacing nucleosomes. The Chd1 chromatin remodeler possesses a C-terminal DNA-binding domain that is required for efficient nucleosome sliding and believed to be essential for sensing the length of DNA flanking the nucleosome core. The structure of the Chd1 DNA-binding domain was recently shown to consist of a SANT and SLIDE domain, analogous to the DNA-binding domain of the ISWI family, yet the details of how Chd1 recognized DNA were not known. Here we present the crystal structure of the Saccharomyces cerevisiae Chd1 DNA-binding domain in complex with a DNA duplex. The bound DNA duplex is straight, consistent with the preference exhibited by the Chd1 DNA-binding domain for extranucleosomal DNA. Comparison of this structure with the recently solved ISW1a DNA-binding domain bound to DNA reveals that DNA lays across each protein at a distinct angle, yet contacts similar surfaces on the SANT and SLIDE domains. In contrast to the minor groove binding seen for Isw1 and predicted for Chd1, the SLIDE domain of the Chd1 DNA-binding domain contacts the DNA major groove. The majority of direct contacts with the phosphate backbone occur only on one DNA strand, suggesting that Chd1 may not strongly discriminate between major and minor grooves.

Sharma A.; Heroux A.; Jenkins K. R.; Bowman G. D.

2011-12-09T23:59:59.000Z

Note: This page contains sample records for the topic "bind deleted domain" 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

Kits and methods of detection using cellulose binding domain fusion proteins  

DOE Patents [OSTI]

A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production thereof. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques.

Shoseyov, Oded (Karmey Yosef, IL)

1998-01-01T23:59:59.000Z

22

Kits and methods of detection using cellulose binding domain fusion proteins  

DOE Patents [OSTI]

A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques. 16 figs.

Shoseyov, O.; Yosef, K.

1998-04-14T23:59:59.000Z

23

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

24

Analysis of the hormone-binding domain of steroid receptors using chimeras generated by homologous recombination  

SciTech Connect (OSTI)

The glucocorticoid receptor and the mineralocorticoid receptor are members of the steroid receptor family that exhibit ligand cross-reactivity. Specificity of steroid receptor action is investigated in the present work by the construction and characterization of chimeras between the glucocorticoid receptor and the mineralocorticoid receptor. We used an innovative approach to make novel steroid receptor proteins in vivo that in general, contrary to our expectations, show increased ligand specificity compared to the parental receptors. We describe a receptor that is specific for the potent synthetic glucocorticoid triamcinolone acetonide and does not bind aldosterone. A further set of chimeras has an increased ability to discriminate between ligands, responding potently to mineralocorticoids and only very weakly to synthetic glucocorticoids. A chimera with the fusion site in the hinge highlights the importance of the region between the DNA-binding and the hormone-binding domains since, unlike both the glucocorticoid and mineralocorticoid receptors, it only responds to mineralocorticoids. One chimera has reduced specificity in that it acts as a general corticoid receptor, responding to glucocorticoids and mineralocorticoids with similar potency and efficacy. Our data suggest that regions of the glucocorticoid and mineralocorticoid receptor hormone-binding domains are functionally non-reciprocal. We present transcriptional, hormone-binding, and structure-modeling evidence that suggests that receptor-specific interactions within and across domains mediate aspects of specificity in transcriptional responses to steroids.

Martinez, Elisabeth D. [Department of Biochemistry and Molecular Biology, Georgetown University School of Medicine, Washington, DC 20057 (United States); Pattabiraman, Nagarajan [Department of Biochemistry and Molecular Biology, Georgetown University School of Medicine, Washington, DC 20057 (United States); Department of Oncology, Georgetown University School of Medicine, Washington, DC 20057 (United States); Danielsen, Mark [Department of Biochemistry and Molecular Biology, Georgetown University School of Medicine, Washington, DC 20057 (United States)]. E-mail: dan@bc.georgetown.edu

2005-08-15T23:59:59.000Z

25

LINC Complexes Form by Binding of Three KASH Peptides to Domain Interfaces of Trimeric SUN Proteins  

SciTech Connect (OSTI)

Linker of nucleoskeleton and cytoskeleton (LINC) complexes span the nuclear envelope and are composed of KASH and SUN proteins residing in the outer and inner nuclear membrane, respectively. LINC formation relies on direct binding of KASH and SUN in the perinuclear space. Thereby, molecular tethers are formed that can transmit forces for chromosome movements, nuclear migration, and anchorage. We present crystal structures of the human SUN2-KASH1/2 complex, the core of the LINC complex. The SUN2 domain is rigidly attached to a trimeric coiled coil that prepositions it to bind three KASH peptides. The peptides bind in three deep and expansive grooves formed between adjacent SUN domains, effectively acting as molecular glue. In addition, a disulfide between conserved cysteines on SUN and KASH covalently links both proteins. The structure provides the basis of LINC complex formation and suggests a model for how LINC complexes might arrange into higher-order clusters to enhance force-coupling.

Sosa, Brian A.; Rothballer, Andrea; Kutay, Ulrike; Schwartz, Thomas U. (MIT); (ETH Zurich)

2012-08-31T23:59:59.000Z

26

Mechanism of Ubiquinol Oxidation by the bc1 Complex: Different Domains of the Quinol Binding Pocket and Their Role in the Mechanism and Binding of Inhibitors  

E-Print Network [OSTI]

electron-transfer systems, occurring ubiquitously in respiratory and photosynthetic chains of mitochondriaMechanism of Ubiquinol Oxidation by the bc1 Complex: Different Domains of the Quinol Binding Pocket and Their Role in the Mechanism and Binding of Inhibitors Antony R. Crofts,*, Blanca Barquera,§ Robert B. Gennis

Crofts, Antony R.

27

Stabilizing the cystic fibrosis transmembrane conductance regulator (CFTR) by nucleotide derivative binding to promote proper folding  

E-Print Network [OSTI]

Seventy percent of people who suffer from cystic fibrosis have a cystic fibrosis transmembrane conductance regulator gene on chromosome 7 that contains a three base-pair deletion of phenylalanine at position 508, in a nucleotide binding domain...

Smith, Ryan Craig

2013-02-22T23:59:59.000Z

28

Structure and interactions of the C-terminal metal binding domain of Archaeoglobus fulgidus CopA  

SciTech Connect (OSTI)

The Cu(+)-ATPase CopA from Archaeoglobus fulgidus belongs to the P(1B) family of the P-type ATPases. These integral membrane proteins couple the energy of ATP hydrolysis to heavy metal ion translocation across membranes. A defining feature of P(1B-1)-type ATPases is the presence of soluble metal binding domains at the N-terminus (N-MBDs). The N-MBDs exhibit a conserved ferredoxin-like fold, similar to that of soluble copper chaperones, and bind metal ions via a conserved CXXC motif. The N-MBDs enable Cu(+) regulation of turnover rates apparently through Cu-sensitive interactions with catalytic domains. A. fulgidus CopA is unusual in that it contains both an N-terminal MBD and a C-terminal MBD (C-MBD). The functional role of the unique C-MBD has not been established. Here, we report the crystal structure of the apo, oxidized C-MBD to 2.0 A resolution. In the structure, two C-MBD monomers form a domain-swapped dimer, which has not been observed previously for similar domains. In addition, the interaction of the C-MBD with the other cytoplasmic domains of CopA, the ATP binding domain (ATPBD) and actuator domain (A-domain), has been investigated. Interestingly, the C-MBD interacts specifically with both of these domains, independent of the presence of Cu(+) or nucleotides. These data reinforce the uniqueness of the C-MBD and suggest a distinct structural role for the C-MBD in CopA transport.

Agarwal, S.; Hong, D.; Desai, N.K.; H.Sazinsky, M.; Argüello, J.M.; Rosenzweig, A.C. (NWU)

2010-08-13T23:59:59.000Z

29

Mapping the Phospholipid-binding Surface and Translocation Determinants of the C2 Domain from Cytosolic Phospholipase A2*  

E-Print Network [OSTI]

in living cells. We have identified sets of exposed hydro- phobic residues in loops known as calcium C2 domain, we show that two of the calcium-binding loops, CBR1 and CBR3, penetrate in a calcium to translocate in a calcium-dependent manner from the cytosol to the nuclear envelope and endoplasmic retic- ulum

Williams, Roger L.

30

ATP Utilization by Yeast Replication Factor C III. THE ATP-BINDING DOMAINS OF Rfc2, Rfc3, AND Rfc4 ARE ESSENTIAL FOR DNA RECOGNITION AND  

E-Print Network [OSTI]

ATP Utilization by Yeast Replication Factor C III. THE ATP-BINDING DOMAINS OF Rfc2, Rfc3, AND Rfc4 lysine in the Walker A motif of the ATP- binding domain encoded by the yeast RFC1, RFC2, RFC3, and RFC4 loading activity. In addition to their defects in ATP hydrolysis, these complexes were defective for DNA

Burgers, Peter M.

31

Crystal structure of the Candida albicans Kar3 kinesin motor domain fused to maltose-binding protein  

SciTech Connect (OSTI)

Highlights: Black-Right-Pointing-Pointer The Candida albicans Kar3 motor domain structure was solved as a maltose-binding protein fusion. Black-Right-Pointing-Pointer The electrostatic surface and part of the ATPase pocket of the motor domain differs markedly from other kinesins. Black-Right-Pointing-Pointer The MBP-Kar3 interface highlights a new site for intramolecular or intermolecular interactions. -- Abstract: In the human fungal pathogen Candida albicans, the Kinesin-14 motor protein Kar3 (CaKar3) is critical for normal mitotic division, nuclear fusion during mating, and morphogenic transition from the commensal yeast form to the virulent hyphal form. As a first step towards detailed characterization of this motor of potential medical significance, we have crystallized and determined the X-ray structure of the motor domain of CaKar3 as a maltose-binding protein (MBP) fusion. The structure shows strong conservation of overall motor domain topology to other Kar3 kinesins, but with some prominent differences in one of the motifs that compose the nucleotide-binding pocket and the surface charge distribution. The MBP and Kar3 modules are arranged such that MBP interacts with the Kar3 motor domain core at the same site where the neck linker of conventional kinesins docks during the 'ATP state' of the mechanochemical cycle. This site differs from the Kar3 neck-core interface in the recent structure of the ScKar3Vik1 heterodimer. The position of MBP is also completely distinct from the Vik1 subunit in this complex. This may suggest that the site of MBP interaction on the CaKar3 motor domain provides an interface for the neck, or perhaps a partner subunit, at an intermediate state of its motile cycle that has not yet been observed for Kinesin-14 motors.

Delorme, Caroline; Joshi, Monika [Department of Biomedical and Molecular Sciences, Queen's University, Kingston, ON, Canada K7L 3N6 (Canada)] [Department of Biomedical and Molecular Sciences, Queen's University, Kingston, ON, Canada K7L 3N6 (Canada); Allingham, John S., E-mail: allinghj@queensu.ca [Department of Biomedical and Molecular Sciences, Queen's University, Kingston, ON, Canada K7L 3N6 (Canada)

2012-11-30T23:59:59.000Z

32

Phospholipase A2 Engineering. Deletion of the C-Terminus Segment Changes Substrate Specificity and Uncouples Calcium and Substrate Binding at the  

E-Print Network [OSTI]

channel, and the calcium binding loop are perturbed, but the global conformation is not changed and Uncouples Calcium and Substrate Binding at the Zwitterionic Interface, Baohua Huang,,§ Bao-Zhu Yu,| Joseph and the uncoupling between substrate and calcium binding are interesting and significant. One of the important

Tsai, Ming-Daw

33

Crystal Structure of 12-Lipoxygenase Catalytic-Domain-Inhibitor Complex Identifies a Substrate-Binding Channel for Catalysis  

SciTech Connect (OSTI)

Lipoxygenases are critical enzymes in the biosynthesis of families of bioactive lipids including compounds with important roles in the initiation and resolution of inflammation and in associated diseases such as diabetes, cardiovascular disease, and cancer. Crystals diffracting to high resolution (1.9 {angstrom}) were obtained for a complex between the catalytic domain of leukocyte 12-lipoxygenase and the isoform-specific inhibitor, 4-(2-oxapentadeca-4-yne)phenylpropanoic acid (OPP). In the three-dimensional structure of the complex, the inhibitor occupied a new U-shaped channel open at one end to the surface of the protein and extending past the redox-active iron site that is essential for catalysis. In models, the channel accommodated arachidonic acid, defining the binding site for the substrate of the catalyzed reaction. There was a void adjacent to the OPP binding site connecting to the surface of the enzyme and providing a plausible access channel for the other substrate, oxygen.

Xu, Shu; Mueser, Timothy C.; Marnett, Lawrence J.; Funk, Jr., Max O. (Toledo); (Vanderbilt)

2014-10-02T23:59:59.000Z

34

A Generalized Deletion Machine  

E-Print Network [OSTI]

In this work we prescribe a more generalized quantum-deleting machine (input state dependent). The fidelity of deletion is dependent on some machine parameters such that on alteration of machine parameters we get back to standard deleting machines. We also carried out a various comparative study of various kinds of quantum deleting machines. We also plotted graphs, making a comparative study of fidelity of deletion of the deletion machines, obtained as particular cases on changing the machine parameters of our machine.

Indranil Chakrabarty; Satyabrata Adhikari

2005-11-22T23:59:59.000Z

35

Comparison of the Structures and Peptide Binding Specificities of the BRCT Domains  

E-Print Network [OSTI]

Domains of MDC1 and BRCA1 Stephen J. Campbell,1 Ross A. Edwards,1 and J.N. Mark Glover1,* 1Department of Biochemistry, University of Alberta, Edmonton, AB T6G 2H7, Canada *Correspondence: mark.glover@ualberta.ca DOI (Clapperton et al., 2004; Glover et al., 2004; Shiozaki et al., 2004; Williams et al., 2004) (Figure 1B

Glover, Mark

36

Mass spectrometric characterization of sequence-specific complexes of DNA and transcription factor PU.1 DNA binding domain  

SciTech Connect (OSTI)

Electrospray ionization mass spectrometry (ESI-MS) has been used to study the noncovalent interaction of the 13.5-kDa DNA binding domain of PU.1 (PU.1-DBD) with specific double-stranded DNA (dsDNA) target molecules. Mixtures of PU.1-DBD protein and wildtype target DNA sequence yielded ESI-MS spectra showing only protein-dsDNA complex ions of 1:1 stoichiometry and free dsDNA. When PU.1-DBD protein, wild type target DNA, and a mutant target DNA lacking the consensus sequence were mixed, only the 1:1 complex with the wild-type DNA was observed, consistent with gel electrophoresis mobility shift assay results, demonstrating the observation of sequence-specific protein-dsDNA complexes using ESI-MS. 22 refs., 5 figs., 1 tab.

Cheng, Xueheng; Harms, A.C.; Bruce, J.E. [Pacific Northwest National Lab., Richland, WA (United States)] [and others] [Pacific Northwest National Lab., Richland, WA (United States); and others

1996-07-15T23:59:59.000Z

37

A Single-Domain Llama Antibody Potently Inhibits the Enzymatic Activity of Botulinum Neurotoxin by Binding to the Non-Catalytic [alpha]-Exosite Binding Region  

SciTech Connect (OSTI)

Ingestion or inhalation of botulinum neurotoxin (BoNT) results in botulism, a severe and frequently fatal disease. Current treatments rely on antitoxins, which, while effective, cannot reverse symptoms once BoNT has entered the neuron. For treatments that can reverse intoxication, interest has focused on developing inhibitors of the enzymatic BoNT light chain (BoNT Lc). Such inhibitors typically mimic substrate and bind in or around the substrate cleavage pocket. To explore the full range of binding sites for serotype A light chain (BoNT/A Lc) inhibitors, we created a library of non-immune llama single-domain VHH (camelid heavy-chain variable region derived from heavy-chain-only antibody) antibodies displayed on the surface of the yeast Saccharomyces cerevisiae. Library selection on BoNT/A Lc yielded 15 yeast-displayed VHH with equilibrium dissociation constants (K{sub d}) from 230 to 0.03 nM measured by flow cytometry. Eight of 15 VHH inhibited the cleavage of substrate SNAP25 (synaptosome-associated protein of 25,000 Da) by BoNT/A Lc. The most potent VHH (Aa1) had a solution K{sub d} for BoNT/A Lc of 1.47 x 10{sup -10} M and an IC{sub 50} (50% inhibitory concentration) of 4.7 x 10{sup -10} M and was resistant to heat denaturation and reducing conditions. To understand the mechanism by which Aa1 inhibited catalysis, we solved the X-ray crystal structure of the BoNT/A Lc-Aa1 VHH complex at 2.6 {angstrom} resolution. The structure reveals that the Aa1 VHH binds in the {alpha}-exosite of the BoNT/A Lc, far from the active site for catalysis. The study validates the utility of non-immune llama VHH libraries as a source of enzyme inhibitors and identifies the BoNT/A Lc {alpha}-exosite as a target for inhibitor development.

Dong, Jianbo; Thompson, Aaron A.; Fan, Yongfeng; Lou, Jianlong; Conrad, Fraser; Ho, Mengfei; Pires-Alves, Melissa; Wilson, Brenda A.; Stevens, Raymond C.; Marks, James D. (UIUC); (Scripps); (UCSF)

2010-08-13T23:59:59.000Z

38

Identification of High Affinity Polo-like Kinase 1 (Plk1) Polo-box Domain Binding Peptides Using Oxime-Based Diversification  

E-Print Network [OSTI]

In an effort to develop improved binding antagonists of the polo-like kinase 1 (Plk1) polo-box domain (PBD), we optimized interactions of the known high affinity 5-mer peptide PLHSpT using oxime-based post solid-phase ...

Liu, Fa

39

Structural dynamics and ssDNA binding activity of the three N-terminal domains of the large subunit of Replication Protein A from small angle X-ray scattering  

SciTech Connect (OSTI)

Replication Protein A (RPA) is the primary eukaryotic ssDNA binding protein utilized in diverse DNA transactions in the cell. RPA is a heterotrimeric protein with seven globular domains connected by flexible linkers, which enable substantial inter-domain motion that is essential to its function. Small angle X-ray scattering (SAXS) experiments on two multi-domain constructs from the N-terminus of the large subunit (RPA70) were used to examine the structural dynamics of these domains and their response to the binding of ssDNA. The SAXS data combined with molecular dynamics simulations reveal substantial interdomain flexibility for both RPA70AB (the tandem high affinity ssDNA binding domains A and B connected by a 10-residue linker) and RPA70NAB (RPA70AB extended by a 70-residue linker to the RPA70N protein interaction domain). Binding of ssDNA to RPA70NAB reduces the interdomain flexibility between the A and B domains, but has no effect on RPA70N. These studies provide the first direct measurements of changes in orientation of these three RPA domains upon binding ssDNA. The results support a model in which RPA70N remains structurally independent of RPA70AB in the DNA bound state and therefore freely available to serve as a protein recruitment module.

Pretto, Dalyir I.; Tsutakawa, Susan; Brosey, Chris A.; Castillo, Amalchi; Chagot, Marie-Eve; Smith, Jarrod A.; Tainer, John A.; Chazin, Walter J.

2010-03-11T23:59:59.000Z

40

The PD-1/PD-L1 complex resembles the antigen-binding Fv domains of antibodies and T cell receptors  

SciTech Connect (OSTI)

Signaling through the programmed death 1 (PD-1) inhibitory receptor upon binding its ligand, PD-L1, suppresses immune responses against autoantigens and tumors and plays an important role in the maintenance of peripheral immune tolerance. Release from PD-1 inhibitory signaling revives 'exhausted' virus-specific T cells in chronic viral infections. Here we present the crystal structure of murine PD-1 in complex with human PD-L1. PD-1 and PD-L1 interact through the conserved front and side of their Ig variable (IgV) domains, as do the IgV domains of antibodies and T cell receptors. This places the loops at the ends of the IgV domains on the same side of the PD-1/PD-L1 complex, forming a surface that is similar to the antigen-binding surface of antibodies and T cell receptors. Mapping conserved residues allowed the identification of residues that are important in forming the PD-1/PD-L1 interface. Based on the structure, we show that some reported loss-of-binding mutations involve the PD-1/PD-L1 interaction but that others compromise protein folding. The PD-1/PD-L1 interaction described here may be blocked by antibodies or by designed small-molecule drugs to lower inhibitory signaling that results in a stronger immune response. The immune receptor-like loops offer a new surface for further study and potentially the design of molecules that would affect PD-1/PD-L1 complex formation and thereby modulate the immune response.

Lin, David Yin-wei; Tanaka, Yoshimasa; Iwasaki, Masashi; Gittis, Apostolos G.; Su, Hua-Poo; Mikami, Bunzo; Okazaki, Taku; Honjo, Tasuku; Minato, Nagahiro; Garboczi, David N. (NIH); (Kyoto)

2008-07-29T23:59:59.000Z

Note: This page contains sample records for the topic "bind deleted domain" 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

Crystallographic Analysis of Murine Constitutive Androstane Receptor Ligand-Binding Domain Complexed with 5[alpha]-androst-16-en-3[alpha]-ol  

SciTech Connect (OSTI)

The constitutive androstane receptor (CAR) is a member of the nuclear receptor superfamily. In contrast to classical nuclear receptors, which possess small-molecule ligand-inducible activity, CAR exhibits constitutive transcriptional activity in the apparent absence of ligand. CAR is among the most important transcription factors; it coordinately regulates the expression of microsomal cytochrome P450 genes and other drug-metabolizing enzymes. The murine CAR ligand-binding domain (LBD) was coexpressed with the steroid receptor coactivator protein (SRC-1) receptor-interacting domain (RID) in Escherichia coli. The mCAR LBD subunit was purified away from SRC-1 by affinity, anion-exchange and size-exclusion chromatography, crystallized with androstenol and the structure of the complex determined by molecular replacement.

Vincent, J.; Shan, L.; Fan, M.; Brunzelle, J.S.; Forman, B.M.; Fernandez, E.J. (Tennessee-K); (NWU); (CHNMC)

2010-03-08T23:59:59.000Z

42

A Distal Arginine in Oxygen-Sensing Heme-PAS Domains Is Essential to Ligand Binding, Signal Transduction, and Structure  

E-Print Network [OSTI]

loop (the FG loop) with the helix of heme attachment was weakened. Binding of carbon monoxide was nevertheless preserved. Carbon monoxide and nitric oxide regulation, although weak in BjFixL, were abolished basic helix-loop-helix (bHLH) transcription factor and two different groups of microbial enzymes (3, 4

Scott, William

43

Identification of new functions for BRCT domains  

E-Print Network [OSTI]

Our lab identified the tandem BRCT domains of PTIP function as a DNA damage responsive phospho binding domain that recognizes proteins phosphorylated by ATM and ATR after DNA damage. The PTIP tandem BRCT domains are ...

Mohammad, Duaa H

2008-01-01T23:59:59.000Z

44

Crystal structure of Thermotoga maritima TM0439: implications for the mechanism of bacterial GntR transcription regulators with Zn2+-binding FCD domains  

E-Print Network [OSTI]

binding site. Using atomic absorption spectroscopy and TrpElmer AAnalyst 400 atomic absorption spectrometer (AAS) withthe metal, we employed atomic absorption spectroscopy on the

Zheng, Meiying

2009-01-01T23:59:59.000Z

45

Cloning and characterization of an alternatively spliced gene in proximal Xq28 deleted in two patients with intersexual genitalia and myotubular myopathy  

SciTech Connect (OSTI)

We have identified a novel human gene that is entirely deleted in two boys with abnormal genital development and myotubular myopathy (MTM1). The gene, F18, is located in proximal Xq28, approximately 80 kb centromeric to the recently isolated MTM1 gene. Northern analysis of mRNA showed a ubiquitous pattern and suggested high levels of expression in skeletal muscle, brain, and heart. A transcript of 4.6 kb was detected in a range of tissues, and additional alternate forms of 3.8 and 2.6 kb were present in placenta and pancreas, respectively. The gene extends over 100 kb and is composed of at least seven exons, of which two are non-coding. Sequence analysis of a 4.6-kb cDNA contig revealed two overlapping open reading frames (ORFs) that encode putative proteins of 701 and 424 amino acids, respectively. Two alternative spliced transcripts affecting the large open reading frame were identified that, together with the Northern blot results, suggest that distinct proteins are derived from the gene. No significant homology to other known proteins was detected, but segments of the first ORF encode polyglutamine tracts and proline-rich domains, which are frequently observed in DNA-binding proteins. The F18 gene is a strong candidate for being implicated in the intersexual genitalia present in the two MTM1-deleted patients. The gene also serves as a candidate for other disorders that map to proximal Xq28. 15 refs., 3 figs., 1 tab.

Laporte, J.; Hu, Ling-Jia; Kretz, C. [Institut de Genetique et de Biologie Moleculaire et Cellulaire, Strasbourg (France)] [and others] [Institut de Genetique et de Biologie Moleculaire et Cellulaire, Strasbourg (France); and others

1997-05-01T23:59:59.000Z

46

Synthetic heparin-binding growth factor analogs  

DOE Patents [OSTI]

The invention provides synthetic heparin-binding growth factor analogs having at least one peptide chain that binds a heparin-binding growth factor receptor, covalently bound to a hydrophobic linker, which is in turn covalently bound to a non-signaling peptide that includes a heparin-binding domain. The synthetic heparin-binding growth factor analogs are useful as soluble biologics or as surface coatings for medical devices.

Pena, Louis A.; Zamora, Paul; Lin, Xinhua; Glass, John D.

2007-01-23T23:59:59.000Z

47

Probabilistic cloning and deleting of quantum states Yuan Feng, Shengyu Zhang, and Mingsheng Ying*  

E-Print Network [OSTI]

, deleting unknown quantum states was also found to be impossible, where ``deleting'' means ``uncopy- ing

Zhang, Shengyu

48

Concrete Domains   

E-Print Network [OSTI]

This paper introduces the theory of a particular kind of computation domains called concrete domains. The purpose of this theory is to find a satisfactory framework for the notions of coroutine computation and sequentiality ...

Kahn, Gilles; Plotkin, Gordon

1993-01-01T23:59:59.000Z

49

An environment-mediated quantum deleter  

E-Print Network [OSTI]

Environment-induced decoherence presents a great challenge to realizing a quantum computer. We point out the somewhat surprising fact that decoherence can be useful, indeed necessary, for practical quantum computation, in particular, for the effective erasure of quantum memory in order to initialize the state of the quantum computer. The essential point behind the deleter is that the environment, by means of a dissipative interaction, furnishes a contractive map towards a pure state. We present a specific example of an amplitude damping channel provided by a two-level system's interaction with its environment in the weak Born-Markov approximation. This is contrasted with a purely dephasing, non-dissipative channel provided by a two-level system's interaction with its environment by means of a quantum nondemolition interaction. We point out that currently used state preparation techniques, for example using optical pumping, essentially perform as quantum deleters.

R. Srikanth; Subhashish Banerjee

2007-04-24T23:59:59.000Z

50

Synthetic heparin-binding factor analogs  

DOE Patents [OSTI]

The invention provides synthetic heparin-binding growth factor analogs having at least one peptide chain, and preferably two peptide chains branched from a dipeptide branch moiety composed of two trifunctional amino acid residues, which peptide chain or chains bind a heparin-binding growth factor receptor and are covalently bound to a non-signaling peptide that includes a heparin-binding domain, preferably by a linker, which may be a hydrophobic linker. The synthetic heparin-binding growth factor analogs are useful as pharmaceutical agents, soluble biologics or as surface coatings for medical devices.

Pena, Louis A. (Poquott, NY); Zamora, Paul O. (Gaithersburg, MD); Lin, Xinhua (Plainview, NY); Glass, John D. (Shoreham, NY)

2010-04-20T23:59:59.000Z

51

Method for introducing unidirectional nested deletions  

DOE Patents [OSTI]

Disclosed is a method for the introduction of unidirectional deletions in a cloned DNA segment. More specifically, the method comprises providing a recombinant DNA construct comprising a DNA segment of interest inserted in a cloning vector, the cloning vector having an f1 endonuclease recognition sequence adjacent to the insertion site of the DNA segment of interest. The recombinant DNA construct is then contacted with the protein pII encoded by gene II of phage f1 thereby generating a single-stranded nick. The nicked DNA is then contacted with E. coli Exonuclease III thereby expanding the single-stranded nick into a single-stranded gap. The single-stranded gapped DNA is then contacted with a single-strand-specific endonuclease thereby producing a linearized DNA molecule containing a double-stranded deletion corresponding in size to the single-stranded gap. The DNA treated in this manner is then incubated with DNA ligase under conditions appropriate for ligation. Also disclosed is a method for producing single-stranded DNA probes. In this embodiment, single-stranded gapped DNA, produced as described above, is contacted with a DNA polymerase in the presence of labeled nucleotides to fill in the gap. This DNA is then linearized by digestion with a restriction enzyme which cuts outside the DNA segment of interest. The product of this digestion is then denatured to produce a labeled single-stranded nucleic acid probe.

Dunn, John J. (Bellport, NY); Quesada, Mark A. (Middle Island, NY); Randesi, Matthew (Upton, NY)

1999-07-27T23:59:59.000Z

52

Method for introducing unidirectional nested deletions  

DOE Patents [OSTI]

Disclosed is a method for the introduction of unidirectional deletions in a cloned DNA segment. More specifically, the method comprises providing a recombinant DNA construct comprising a DNA segment of interest inserted in a cloning vector. The cloning vector has an f1 endonuclease recognition sequence adjacent to the insertion site of the DNA segment of interest. The recombinant DNA construct is then contacted with the protein pII encoded by gene II of phage f1 thereby generating a single-stranded nick. The nicked DNA is then contacted with E. coli Exonuclease III thereby expanding the single-stranded nick into a single-stranded gap. The single-stranded gapped DNA is then contacted with a single-strand-specific endonuclease thereby producing a linearized DNA molecule containing a double-stranded deletion corresponding in size to the single-stranded gap. The DNA treated in this manner is then incubated with DNA ligase under conditions appropriate for ligation. Also disclosed is a method for producing single-stranded DNA probes. In this embodiment, single-stranded gapped DNA, produced as described above, is contacted with a DNA polymerase in the presence of labeled nucleotides to fill in the gap. This DNA is then linearized by digestion with a restriction enzyme which cuts outside the DNA segment of interest. The product of this digestion is then denatured to produce a labeled single-stranded nucleic acid probe. 1 fig.

Dunn, J.J.; Quesada, M.A.; Randesi, M.

1999-07-27T23:59:59.000Z

53

Polypyrimidine Track-binding Protein Binding Downstream of Caspase-2 Alternative Exon 9 Represses Its Inclusion*  

E-Print Network [OSTI]

Polypyrimidine Track-binding Protein Binding Downstream of Caspase-2 Alternative Exon 9 Represses (In100) located in the intron downstream of alternative exon 9. The upstream portion of this element downstream from the decoy 3 acceptor site. This downstream domain harbors several polypyrimidine track

Wu, Jane Y.

54

Eminent Domain Law (Iowa)  

Broader source: Energy.gov [DOE]

These regulations confer the power of eminent domain and describe procedures for exercising eminent domain in Iowa.

55

DMBC: Domain Names & Web Hosting Domain Names  

E-Print Network [OSTI]

DMBC: Domain Names & Web Hosting Domain Names Top Level Domains · .com · .net · .org · .edu · .gov.9% of the web-viewing audience is used to typing in. Chances are, a visitor will type in ".com" even if you tell and simple · Try to avoid dashes or underscores in the domain name unless there is no other option Web

Stowell, Michael

56

Multi-omic data integration links Deleted in Breast Cancer 1...  

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

omic data integration links Deleted in Breast Cancer 1 (DBC1) Degradation to Chromatin Remodeling in Inflammatory Response Multi-omic data integration links Deleted in Breast...

57

Dual chain synthetic heparin-binding growth factor analogs  

DOE Patents [OSTI]

The invention provides synthetic heparin-binding growth factor analogs having two peptide chains each branched from a branch moiety, such as trifunctional amino acid residues, the branch moieties separated by a first linker of from 3 to about 20 backbone atoms, which peptide chains bind a heparin-binding growth factor receptor and are covalently bound to a non-signaling peptide that includes a heparin-binding domain, preferably by a second linker, which may be a hydrophobic second linker. The synthetic heparin-binding growth factor analogs are useful as pharmaceutical agents, soluble biologics or as surface coatings for medical devices.

Zamora, Paul O. (Gaithersburg, MD); Pena, Louis A. (Poquott, NY); Lin, Xinhua (Plainview, NY)

2012-04-24T23:59:59.000Z

58

Dual chain synthetic heparin-binding growth factor analogs  

DOE Patents [OSTI]

The invention provides synthetic heparin-binding growth factor analogs having two peptide chains each branched from a branch moiety, such as trifunctional amino acid residues, the branch moieties separated by a first linker of from 3 to about 20 backbone atoms, which peptide chains bind a heparin-binding growth factor receptor and are covalently bound to a non-signaling peptide that includes a heparin-binding domain, preferably by a second linker, which may be a hydrophobic second linker. The synthetic heparin-binding growth factor analogs are useful as pharmaceutical agents, soluble biologics or as surface coatings for medical devices.

Zamora, Paul O. (Gaithersburg, MD); Pena, Louis A. (Poquott, NY); Lin, Xinhua (Plainview, NY)

2009-10-06T23:59:59.000Z

59

Calsensin: A Novel Calcium-binding Protein Expressed in a Subset of Peripheral Leech Neurons Fasciculating in a Single Axon Tract  

E-Print Network [OSTI]

helix-loop-helix domains. The calcium-binding domains are likely to be functional in vivo since a fusionCalsensin: A Novel Calcium-binding Protein Expressed in a Subset of Peripheral Leech Neurons. We have used this antibody to clone a novel EF-hand calcium-binding protein, calsensin, by screening

Johansen, Jorgen

60

Sixth CREST Conference: 'Ctrl, Alt, Delete: Re-booting the State via  

E-Print Network [OSTI]

Sixth CREST Conference: 'Ctrl, Alt, Delete: Re-booting the State via E-Government in Europe, Delete: Re-booting the State via E-Government in Europe' Convenors: Dr Liki Koutrakou, UEA and Dr Paul

Feigon, Brooke

Note: This page contains sample records for the topic "bind deleted domain" 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

Global Systems-Level Analysis of Hfq and SmpB Deletion Mutants...  

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

Systems-Level Analysis of Hfq and SmpB Deletion Mutants in Salmonella: Implications for Virulence and Global Protein Global Systems-Level Analysis of Hfq and SmpB Deletion Mutants...

62

Evaluation of selected binding domains for the analysis of ubiquitinated  

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 MayAtmospheric Optical Depth7-1D: Vegetation ProposedUsing ZirconiaPolicy and Assistance100 tonusing ARM data cirrus

63

Structural analysis of the receptor binding domain of botulinum neurotoxin  

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 Administrationcontroller systemsBiSiteNeutronStrategicOur Mission Our Missionserotype D. | EMSL

64

Eminent Domain Rights (Florida)  

Broader source: Energy.gov [DOE]

Developers of certain facilities, including dams to be used for hydropower, natural gas companies, wastewater systems, and coal pipelines, may be eligible to exercise eminent domain powers in...

65

Structural basis for the evolutionary inactivation of Ca[superscript 2+] binding to synaptotagmin 4  

SciTech Connect (OSTI)

The neuronal protein synaptotagmin 1 functions as a Ca{sup 2+} sensor in exocytosis via two Ca{sup 2+}-binding C{sub 2} domains. The very similar synaptotagmin 4, which includes all the predicted Ca{sup 2+}-binding residues in the C{sub 2}B domain but not in the C{sub 2}A domain, is also thought to function as a neuronal Ca{sup 2+} sensor. Here we show that, unexpectedly, both C{sub 2} domains of fly synaptotagmin 4 exhibit Ca{sup 2+}-dependent phospholipid binding, whereas neither C{sub 2} domain of rat synaptotagmin 4 binds Ca{sup 2+} or phospholipids efficiently. Crystallography reveals that changes in the orientations of critical Ca{sup 2+} ligands, and perhaps their flexibility, render the rat synaptotagmin 4 C{sub 2}B domain unable to form full Ca{sup 2+}-binding sites. These results indicate that synaptotagmin 4 is a Ca{sup 2+} sensor in the fly but not in the rat, that the Ca{sup 2+}-binding properties of C{sub 2} domains cannot be reliably predicted from sequence analyses, and that proteins clearly identified as orthologs may nevertheless have markedly different functional properties.

Dai, Han; Shin, Ok-Ho; Machius, Mischa; Tomchick, Diana R.; Südhof, Thomas C.; Rizo, Josep (U. of Texas-SMED)

2010-11-16T23:59:59.000Z

66

Discovery and Characterization of a Cell-Permeable, Small-Molecule c-Abl Kinase Activator that Binds to the Myristoyl Binding Site  

SciTech Connect (OSTI)

c-Abl kinase activity is regulated by a unique mechanism involving the formation of an autoinhibited conformation in which the N-terminal myristoyl group binds intramolecularly to the myristoyl binding site on the kinase domain and induces the bending of the {alpha}I helix that creates a docking surface for the SH2 domain. Here, we report a small-molecule c-Abl activator, DPH, that displays potent enzymatic and cellular activity in stimulating c-Abl activation. Structural analyses indicate that DPH binds to the myristoyl binding site and prevents the formation of the bent conformation of the {alpha}I helix through steric hindrance, a mode of action distinct from the previously identified allosteric c-Abl inhibitor, GNF-2, that also binds to the myristoyl binding site. DPH represents the first cell-permeable, small-molecule tool compound for c-Abl activation.

Yang, Jingsong; Campobasso, Nino; Biju, Mangatt P.; Fisher, Kelly; Pan, Xiao-Qing; Cottom, Josh; Galbraith, Sarah; Ho, Thau; Zhang, Hong; Hong, Xuan; Ward, Paris; Hofmann, Glenn; Siegfried, Brett; Zappacosta, Francesca; Washio, Yoshiaki; Cao, Ping; Qu, Junya; Bertrand, Sophie; Wang, Da-Yuan; Head, Martha S.; Li, Hu; Moores, Sheri; Lai, Zhihong; Johanson, Kyung; Burton, George; Erickson-Miller, Connie; Simpson, Graham; Tummino, Peter; Copeland, Robert A.; Oliff, Allen (GSKPA)

2014-10-02T23:59:59.000Z

67

Help:Sysop deleting and undeleting | Open Energy Information  

Open Energy Info (EERE)

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 Home5b9fcbce19 No revision hasInformation Earth's Heat Jump to:Photon Place:NetHealth DivisionHelioMotion ChartSysop deleting

68

The effect of two deletion schemes upon the comprehension and reading rate of five levels of telegraphic prose  

E-Print Network [OSTI]

between the two deletion schemes that would involve a relative increase in comprehension, reading rate, and efficiency for the subject generated scheme with 1ncreasing percentages of deletion. (5) The index of agreement among subjects on the rank... Reduced Version of the Passage Based on 50% Deletion (S5) Randomly Reduced Version of the Passage Based on IOX Deletion (Rl) Randomly Reduced Version of the Passage Based on 20% Deletion (R2) Randomly Reduced Version of the Passage Based on 30K...

Pantalion, Charles Adrian

1972-01-01T23:59:59.000Z

69

UNCORRECTED Three-dimensional structure topology of the calreticulin P-domain based  

E-Print Network [OSTI]

a single hairpin fold formed by the entire polypeptide chain. The loop at the bottom of the hairpin as a quality control system to ensure their structural integrity [1,2]. The calcium-binding molecular chaperone of the major calcium- binding proteins of the ER. Much interest has been focused on the proline-rich domain (P

Riek, Roland

70

Melanin-binding radiopharmaceuticals  

SciTech Connect (OSTI)

The scope of this paper is limited to an analysis of the factors that are important to the relationship of radiopharmaceuticals to melanin. While the authors do not attempt to deal with differences between melanin-binding vs. melanoma-binding, a notable variance is assumed. (PSB)

Packer, S; Fairchild, R G; Watts, K P; Greenberg, D; Hannon, S J

1980-01-01T23:59:59.000Z

71

Supplemental Data Directed Evolution of ATP Binding Proteins  

E-Print Network [OSTI]

Supplemental Data Directed Evolution of ATP Binding Proteins from a Zinc Finger Domain Using m TG 3'). Denaturing Ni-NTA was performed on the ATP-column elution for round 2, and then FLAG with the resin, but instead passed directly over the immobilized ATP. The selection was performed at room

Heller, Eric

72

Domain analysis for estrogen receptor/Sp1-mediated transactivation and detection of estrogen receptor/Sp1 protein interactions in living cells  

E-Print Network [OSTI]

-induced activation of hER?/Sp1 was lost using hER? mutants deleted in zinc finger 1 (amino acids (aa) 185-205), zinc finger 2 (aa 218-245), and the hinge/helix 1 (aa 265-330) domains. In contrast with antiestrogens, E2-dependent activation of hER?/Sp1 required the C...

Kim, KyoungHyun

2005-11-01T23:59:59.000Z

73

Structures of Human Pumilio with Noncognate RNAs Reveal Molecular Mechanisms for Binding Promiscuity  

SciTech Connect (OSTI)

Pumilio is a founder member of the evolutionarily conserved Puf family of RNA-binding proteins that control a number of physiological processes in eukaryotes. A structure of human Pumilio (hPum) Puf domain bound to a Drosophila regulatory sequence showed that each Puf repeat recognizes a single nucleotide. Puf domains in general bind promiscuously to a large set of degenerate sequences, but the structural basis for this promiscuity has been unclear. Here, we describe the structures of hPum Puf domain complexed to two noncognate RNAs, CycBreverse and Puf5. In each complex, one of the nucleotides is ejected from the binding surface, in effect, acting as a 'spacer.' The complexes also reveal the plasticity of several Puf repeats, which recognize noncanonical nucleotides. Together, these complexes provide a molecular basis for recognition of degenerate binding sites, which significantly increases the number of mRNAs targeted for regulation by Puf proteins in vivo.

Gupta,Y.; Nair, D.; Wharton, R.; Aggarwal, A.

2008-01-01T23:59:59.000Z

74

The fork head transcription factor Hcm1p participates in the regulation of SPC110, which encodes the calmodulin-binding protein in the  

E-Print Network [OSTI]

The fork head transcription factor Hcm1p participates in the regulation of SPC110, which encodes and abolish the ability of Hcm1p to act as a suppressor of calmodulin mutants. The promoter of SPC110 contains a match to the consensus binding site. Deletion of HCM1 does not affect the basal level of SPC110

Davis, Trisha N.

75

PAPER www.rsc.org/obc | Organic & Biomolecular Chemistry RNA binding and thiolytic stability of a quinoline-containing  

E-Print Network [OSTI]

as the intercalation domain. A quinoline-containing HTP is shown to bind selectively to duplex RNA binding sites influences the affinity of these compounds for RNA targets. Our original HTP design used 9- anilinoacridines a new HTP design that uses quinoline for intercalation. A high yielding synthesis to a new quinoline

Beal, Peter A.

76

Chemistry & Biology 13, 139147, February 2006 2006 Elsevier Ltd All rights reserved DOI 10.1016/j.chembiol.2005.10.015 Directed Evolution of ATP Binding Proteins  

E-Print Network [OSTI]

.chembiol.2005.10.015 Directed Evolution of ATP Binding Proteins from a Zinc Finger Domain by Using mRNA Display recognize adenosine triphosphate (ATP), dem- onstrating a significant alteration of the function of this protein domain from DNA binding to ATP recogni- tion. Many novel independent sequences were recov- ered

Heller, Eric

77

Discriminating binding mechanisms of an intrinsically disordered protein via a multi-state coarse-grained model  

SciTech Connect (OSTI)

Many proteins undergo a conformational transition upon binding to their cognate binding partner, with intrinsically disordered proteins (IDPs) providing an extreme example in which a folding transition occurs. However, it is often not clear whether this occurs via an “induced fit” or “conformational selection” mechanism, or via some intermediate scenario. In the first case, transient encounters with the binding partner favour transitions to the bound structure before the two proteins dissociate, while in the second the bound structure must be selected from a subset of unbound structures which are in the correct state for binding, because transient encounters of the incorrect conformation with the binding partner are most likely to result in dissociation. A particularly interesting situation involves those intrinsically disordered proteins which can bind to different binding partners in different conformations. We have devised a multi-state coarse-grained simulation model which is able to capture the binding of IDPs in alternate conformations, and by applying it to the binding of nuclear coactivator binding domain (NCBD) to either ACTR or IRF-3 we are able to determine the binding mechanism. By all measures, the binding of NCBD to either binding partner appears to occur via an induced fit mechanism. Nonetheless, we also show how a scenario closer to conformational selection could arise by choosing an alternative non-binding structure for NCBD.

Knott, Michael [Department of Chemistry, Cambridge University, Lensfield Road, Cambridge CB2 1EW (United Kingdom)] [Department of Chemistry, Cambridge University, Lensfield Road, Cambridge CB2 1EW (United Kingdom); Best, Robert B., E-mail: robertbe@helix.nih.gov [Department of Chemistry, Cambridge University, Lensfield Road, Cambridge CB2 1EW (United Kingdom); Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland 20892-0520 (United States)

2014-05-07T23:59:59.000Z

78

Calcium-dependent Membrane Penetration Is a Hallmark of the C2 Domain of Cytosolic Phospholipase A2 Whereas the C2A Domain  

E-Print Network [OSTI]

-stranded anti-parallel -sandwich. The most notable structural differ- ences occur in three loops at the calciumCalcium-dependent Membrane Penetration Is a Hallmark of the C2 Domain of Cytosolic Phospholipase A2 of their structures and calcium binding. Here we demonstrate that the protein-lipid interaction is dramatically

Williams, Roger L.

79

Type I oculocutaneous albinism (OCA1) associated with a large deletion of the tyrosinase (TYR) gene  

SciTech Connect (OSTI)

OCA1 is an autosomal recessive disorder in which the biosynthesis of melanin is reduced or absent in skin, hair, and eyes, due to deficient enzymatic activity of tyrosinase. TYR consists of 5 exons spanning over 65 kb at 11q14-q21. Analyses of TYR in >400 unrelated patients with OCA1 have identified more than 50 different point mutations; however, no large deletions have been detected. Here we report a large deletion of TYR in a Caucasian boy with OCA1B. Simultaneous SSCP/heteroduplex screening and DNA sequence analysis indicated that the patient was apparently homozygous for a previously described TYR mutation, adjacent to the 3` splice site of IVS2 (-7, t{r_arrow}a). To distinguish between possible gene deletion vs. maternal uniparental isodisomy, we characterized several chromosome 11 polymorphisms. Maternal uniparental isodisomy was excluded by the patient`s heterozygosity for alleles at D11S35 (11q21-122) and HBG2 (11p15.5). In addition, the patient failed to inherit paternal alleles at an MboI RFLP in exon 1 of TYR and at a TaqI RFLP in the promoter region of the gene. To detect a possible submicroscopic deletion, we performed quantitative Southern blot hybridization using a full length TYR cDNA. Compared with controls, both the patient and his father appeared deleted for two or three TYR-derived PstI fragments; the two TYRL-derived fragments appeared normal. These data indicate that the patient and his father have a partial TYR deletion, including at least exons 1, 2, and IVS2. Based on the organization of the gene, this deletion is at least 50 kb in size. The patient is thus hemizygous for the maternally-inherited mutation in IVS2, accounting for his OCA1B phenotype.

Spritz, R.A.; Wick, P.A.; Holmes, S.A.; Schnur, R.E. [Univ. of Wisconsin, Madison, WI (United States)]|[Children`s Hospital of Philadelphia, PA (United States)

1994-09-01T23:59:59.000Z

80

Internal strain regulates the nucleotide binding site of the kinesin leading head  

E-Print Network [OSTI]

In the presence of ATP, kinesin proceeds along the protofilament of microtubule by alternated binding of two motor domains on the tubulin binding sites. Since the processivity of kinesin is much higher than other motor proteins, it has been speculated that there exists a mechanism for allosteric regulation between the two monomers. Recent experiments suggest that ATP binding to the leading head domain in kinesin is regulated by the rearward strain built on the neck-linker. We test this hypothesis by explicitly modeling a $C_{\\alpha}$-based kinesin structure whose both motor domains are bound on the tubulin binding sites. The equilibrium structures of kinesin on the microtubule show disordered and ordered neck-linker configurations for the leading and the trailing head, respectively. The comparison of the structures between the two heads shows that several native contacts present at the nucleotide binding site in the leading head are less intact than those in the binding site of the rear head. The network of n...

Hyeon, Changbong; 10.1073/pnas.0610939104

2009-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "bind deleted domain" 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

Production of glycoprotein-deleted rabies viruses for monosynaptic tracing and high-level gene expression in neurons  

E-Print Network [OSTI]

Recombinant rabies viruses rendered replication-deficient by the deletion of their envelope glycoprotein gene are useful tools for neuroscientists, permitting (1) extraordinarily high transgene expression levels within ...

Wickersham, Ian R.

82

Mechanism of Binding and Internalization of ICAM-1-derived Cyclic Peptides by LFA-1 on the Surface of T-cells: A Potential Method for Targeted Drug Delivery  

E-Print Network [OSTI]

Purpose Peptides derived from the Domain 1 of the adhesion molecule ICAM-1(1-21) are being developed as targeting ligands for LFA-1 receptors expressed on activated T-cells. This work aims to elucidate the binding and ...

Anderson, Meagan E.; Siahaan, Teruna J.

2003-10-01T23:59:59.000Z

83

Quarkonium Binding and Entropic Force  

E-Print Network [OSTI]

A Q-Qbar bound state represents a balance between repulsive kinetic and attractive potential energy. In a hot quark-gluon plasma, the interaction potential experiences medium effects. Color screening modifies the attractive binding force between the quarks, while the increase of entropy with Q-Qbar separation gives rise to a growing repulsion. We study the role of these phenomena for in-medium Q-Qbar binding and dissociation. It is found that the relevant potential for Q-Qbar binding is the free energy F; with increasing Q-Qbar separation, further binding through the internal energy U is compensated by repulsive entropic effects.

Satz, Helmut

2015-01-01T23:59:59.000Z

84

Cofactor Binding Evokes Latent Differences in DNA Binding Specificity  

E-Print Network [OSTI]

of Electrical Engineering, Columbia University, 500 West 120th Street, New York, NY 10027, USA 6Molecular nature of gene regulation. Unlike individual transcription factors, complexes of interacting factors bind cooperatively to genomic regions that contain a favorable configuration of binding sites (Johnson, 1995

Rohs, Remo

85

Molecular Mechanism of MLL PHD3 and RNA Recognition by the Cyp33 RRM Domain  

E-Print Network [OSTI]

33 has been found to associate with the third plant homeodomain (PHD3) finger of the mixed lineage titration calorimetry. NMR chemical shift perturbation (CSP) analysis and dynamics data reveal of the interaction. The RNA-binding pocket of the Cyp33 RRM domain, mapped on the basis of NMR CSP and mutagenesis

Ismagilov, Rustem F.

86

Protein domain organisation: adding order  

E-Print Network [OSTI]

4 81811 membrane_organization_and_biogenesis 4 81811 vesicle-mediated_transport 4 81811 intracellular_protein_transport 4 54117 immune_response 3 54117 negative_regulation_of_cell_proliferation 3 54117 signal_transducer_activity 3 50715 ligase... -type_endopeptidase_activity 4 69055 binding 3 52788 identical_protein_binding 4 54585 nucleoside-triphosphatase_activity 3 54585 ATPase_activity 3 54585 protein_transport 3 54585 caspase_activation 3 54585 unfolded_protein_response 3 54585 magnesium_ion_binding 3 54585 protein...

Kummerfeld, Sarah K; Teichmann, Sarah A

2009-01-29T23:59:59.000Z

87

Collaborative Networks for Biodiversity Domain Organizations  

E-Print Network [OSTI]

, conservation groups, etc., referred to in this paper as BOs (Biodiversity-domain OrganizationsCollaborative Networks for Biodiversity Domain Organizations Ekaterina Ermilova, Hamideh, operating in the domains of biology, ecology, and biodiversity, strongly need to cooperate

Boyer, Edmond

88

Deleting species from model food webs Christopher Quince, Paul G. Higgs and Alan J. McKane  

E-Print Network [OSTI]

causing extinction of further species from the food web. To investigate these effects we used one species was deleted. On average, only 2.1% of the remaining species went extinct as a result of extinction. The probability of extinction of prey of the deleted species was also significantly higher than

McKane, Alan

89

Early Deletion of Fillers In Processing Conversational Speech Matthew Lease and Mark Johnson  

E-Print Network [OSTI]

Early Deletion of Fillers In Processing Conversational Speech Matthew Lease and Mark Johnson Brown to parsing has been shown to improve its accuracy (Charniak and Johnson, 2001). We ex- plore whether- pairs or evaluating our ability to do so (Charniak and Johnson, 2001). Moreover, this work showed

Lease, Matthew

90

The Frequency of DYT1 (GAG Deletion) Mutation in Primary Dystonia Patients from Iran  

E-Print Network [OSTI]

The Frequency of DYT1 (GAG Deletion) Mutation in Primary Dystonia Patients from Iran Mohammad Hamid. Molecular Medicine Division, Biotechnology Research Center, Pasteur Institute of Iran, Tehran, Iran 2. Medical Genetics Department, Faculty of Medical Sciences, Tarbiat Modares University, Tehran, Iran 3

Boyer, Edmond

91

Serendipitous alkylation of a Plk1 ligand uncovers a new binding channel  

E-Print Network [OSTI]

We obtained unanticipated synthetic byproducts from alkylation of the ?[superscript 1] nitrogen (N3) of the histidine imidazole ring of the polo-like kinase-1 (Plk1) polo-box domain (PBD)-binding peptide PLHSpT. For the ...

Lim, Dan

92

Structural Basis for p300 Taz2-p53 TAD1 Binding and Modulation by Phosphorylation  

E-Print Network [OSTI]

Structure Article Structural Basis for p300 Taz2-p53 TAD1 Binding and Modulation by Phosphorylation to interact with p53 through its N-terminal transactivation domain (TAD) (Avantaggiati et al., 1997; Grossman et al., 1998). The p53 TAD can be divided into two subdomains, TAD1 (composed of residues 1

93

Selective Binding by the RNA Binding Domain of PKR Revealed by Affinity Richard J. Spanggord and Peter A. Beal*  

E-Print Network [OSTI]

. Spanggord and Peter A. Beal* Department of Chemistry, UniVersity of Utah, Salt Lake City, Utah 84112 Recei

Beal, Peter A.

94

Domain walls riding the wave.  

SciTech Connect (OSTI)

Recent years have witnessed a rapid proliferation of electronic gadgets around the world. These devices are used for both communication and entertainment, and it is a fact that they account for a growing portion of household energy consumption and overall world consumption of electricity. Increasing the energy efficiency of these devices could have a far greater and immediate impact than a gradual switch to renewable energy sources. The advances in the area of spintronics are therefore very important, as gadgets are mostly comprised of memory and logic elements. Recent developments in controlled manipulation of magnetic domains in ferromagnet nanostructures have opened opportunities for novel device architectures. This new class of memories and logic gates could soon power millions of consumer electronic devices. The attractiveness of using domain-wall motion in electronics is due to its inherent reliability (no mechanical moving parts), scalability (3D scalable architectures such as in racetrack memory), and nonvolatility (retains information in the absence of power). The remaining obstacles in widespread use of 'racetrack-type' elements are the speed and the energy dissipation during the manipulation of domain walls. In their recent contribution to Physical Review Letters, Oleg Tretiakov, Yang Liu, and Artem Abanov from Texas A&M University in College Station, provide a theoretical description of domain-wall motion in nanoscale ferromagnets due to the spin-polarized currents. They find exact conditions for time-dependent resonant domain-wall movement, which could speed up the motion of domain walls while minimizing Ohmic losses. Movement of domain walls in ferromagnetic nanowires can be achieved by application of external magnetic fields or by passing a spin-polarized current through the nanowire itself. On the other hand, the readout of the domain state is done by measuring the resistance of the wire. Therefore, passing current through the ferromagnetic wire is the preferred method, as it combines manipulation and readout of the domain-wall state. The electrons that take part in the process of readout and manipulation of the domain-wall structure in the nanowire do so through the so-called spin transfer torque: When spin-polarized electrons in the ferromagnet nanowire pass through the domain wall they experience a nonuniform magnetization, and they try to align their spins with the local magnetic moments. The force that the electrons experience has a reaction force counterpart that 'pushes' the local magnetic moments, resulting in movement of the domain wall in the direction of the electron flow through the spin-transfer torque. The forces between the electrons and the local magnetic moments in the ferromagnet also create additional electrical resistance for the electrons passing through the domain wall. By measuring resistance across a segment of the nanowire, one determines if a domain wall is present; i.e., one can read the stored information. The interaction of the spin-polarized electrons with the domain wall in the ferromagnetic nanowire is not very efficient. Even for materials achieving high polarization of the free electrons, it is very difficult to move the magnetic domain wall. Several factors contribute to this problem, with imperfections of the ferromagnetic nanowire that cause domain-wall pinning being the dominant one. Permalloy nanowires, one of the best candidates for domain-wall-based memory and logic devices, require current densities of the order of 10{sup 8} A/cm{sup 2} in order to move a domain wall from a pinning well. Considering that this current has to pass through a relatively long wire, it is not very difficult to imagine that most of the energy will go to Joule heating. The efficiency of the process - the ratio of the energy converted to domain-wall motion to the total energy consumed - is comparable to that of an incandescent light bulb converting electricity to light. A step towards more efficient domain-wall-based memory devices is the advance of using alternating currents or curren

Karapetrov, G.; Novosad, V.; Materials Science Division

2010-11-01T23:59:59.000Z

95

Domain Walls, Triples and Acceleration  

E-Print Network [OSTI]

We present a construction of domain walls in string theory. The domain walls can bridge both Minkowski and AdS string vacua. A key ingredient in the construction are novel classical Yang-Mills configurations, including instantons, which interpolate between toroidal Yang-Mills vacua. Our construction provides a concrete framework for the study of inflating metrics in string theory. In some cases, the accelerating space-time comes with a holographic description. The general form of the holographic dual is a field theory with parameters that vary over space-time.

Travis Maxfield; Savdeep Sethi

2014-04-09T23:59:59.000Z

96

The N-terminus of TDP-43 promotes its oligomerization and enhances DNA binding affinity  

SciTech Connect (OSTI)

Highlights: Black-Right-Pointing-Pointer The N-terminus of TDP-43 contains an independently folded structural domain (NTD). Black-Right-Pointing-Pointer The structural domains of TDP-43 are arranged in a beads-on-a-string fashion. Black-Right-Pointing-Pointer The NTD promotes TDP-43 oligomerization in a concentration-dependent manner. Black-Right-Pointing-Pointer The NTD may assist nucleic acid-binding activity of TDP-43. -- Abstract: TDP-43 is a DNA/RNA-binding protein associated with different neurodegenerative diseases such as amyotrophic lateral sclerosis (ALS) and frontotemporal lobar degeneration (FTLD-U). Here, the structural and physical properties of the N-terminus on TDP-43 have been carefully characterized through a combination of nuclear magnetic resonance (NMR), circular dichroism (CD) and fluorescence anisotropy studies. We demonstrate for the first time the importance of the N-terminus in promoting TDP-43 oligomerization and enhancing its DNA-binding affinity. An unidentified structural domain in the N-terminus is also disclosed. Our findings provide insights into the N-terminal domain function of TDP-43.

Chang, Chung-ke [Institute of Biomedical Sciences, Academia Sinica, Taipei 115, Taiwan (China)] [Institute of Biomedical Sciences, Academia Sinica, Taipei 115, Taiwan (China); Wu, Tzong-Huah [Institute of Chemistry, Academia Sinica, Taipei 115, Taiwan (China) [Institute of Chemistry, Academia Sinica, Taipei 115, Taiwan (China); Chemical Biology and Molecular Biophysics Program, Taiwan International Graduate Program, Institute of Biochemistry, Academia Sinica, Taipei 115, Taiwan (China); Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu 300, Taiwan (China); Wu, Chu-Ya [Institute of Chemistry, Academia Sinica, Taipei 115, Taiwan (China) [Institute of Chemistry, Academia Sinica, Taipei 115, Taiwan (China); Graduate Institute of Engineering, National Taiwan University of Science and Technology, Taipei 106, Taiwan (China); Chiang, Ming-hui; Toh, Elsie Khai-Woon [Institute of Biomedical Sciences, Academia Sinica, Taipei 115, Taiwan (China)] [Institute of Biomedical Sciences, Academia Sinica, Taipei 115, Taiwan (China); Hsu, Yin-Chih; Lin, Ku-Feng [Institute of Chemistry, Academia Sinica, Taipei 115, Taiwan (China)] [Institute of Chemistry, Academia Sinica, Taipei 115, Taiwan (China); Liao, Yu-heng [Institute of Biomedical Sciences, Academia Sinica, Taipei 115, Taiwan (China)] [Institute of Biomedical Sciences, Academia Sinica, Taipei 115, Taiwan (China); Huang, Tai-huang, E-mail: bmthh@gate.sinica.edu.tw [Institute of Biomedical Sciences, Academia Sinica, Taipei 115, Taiwan (China) [Institute of Biomedical Sciences, Academia Sinica, Taipei 115, Taiwan (China); Department of Physics, National Taiwan Normal University, Taipei 106, Taiwan (China); Huang, Joseph Jen-Tse, E-mail: jthuang@chem.sinica.edu.tw [Institute of Chemistry, Academia Sinica, Taipei 115, Taiwan (China)

2012-08-24T23:59:59.000Z

97

Allostery Is an Intrinsic Property of the Protease Domain of DegS Implications for Enzyme Function and Evolution  

SciTech Connect (OSTI)

DegS is a periplasmic Escherichia coli protease, which functions as a trimer to catalyze the initial rate-limiting step in a proteolytic cascade that ultimately activates transcription of stress response genes in the cytoplasm. Each DegS subunit consists of a protease domain and a PDZ domain. During protein folding stress, DegS is allosterically activated by peptides exposed in misfolded outer membrane porins, which bind to the PDZ domain and stabilize the active protease. It is not known whether allostery is conferred by the PDZ domains or is an intrinsic feature of the trimeric protease domain. Here, we demonstrate that free DegS{sup {Delta}PDZ} equilibrates between active and inactive trimers with the latter species predominating. Substrate binding stabilizes active DegS{sup {Delta}PDZ} in a positively cooperative fashion. Mutations can also stabilize active DegS{sup {Delta}PDZ} and produce an enzyme that displays hyperbolic kinetics and degrades substrate with a maximal velocity within error of that for fully activated, intact DegS. Crystal structures of multiple DegS{sup {Delta}PDZ} variants, in functional and non-functional conformations, support a two-state model in which allosteric switching is mediated by changes in specific elements of tertiary structure in the context of an invariant trimeric base. Overall, our results indicate that protein substrates must bind sufficiently tightly and specifically to the functional conformation of DegS{sup {Delta}PDZ} to assist their own degradation. Thus, substrate binding alone may have regulated the activities of ancestral DegS trimers with subsequent fusion of the protease domain to a PDZ domain, resulting in ligand-mediated regulation.

Sohn, Jungsan; Grant, Robert A.; Sauer, Robert T. (MIT)

2010-12-02T23:59:59.000Z

98

Skyrmions with low binding energies  

E-Print Network [OSTI]

Nuclear binding energies are investigated in two variants of the Skyrme model: the first replaces the usual Skyrme term with a term that is sixth order in derivatives, and the second includes a potential that is quartic in the pion fields. Solitons in the first model are shown to deviate significantly from ans\\"atze previously assumed in the literature. The binding energies obtained in both models are lower than those obtained from the standard Skyrme model, and those obtained in the second model are close to the experimental values.

Gillard, Mike; Speight, Martin

2015-01-01T23:59:59.000Z

99

GABA{sub A} receptor open-state conformation determines non-competitive antagonist binding  

SciTech Connect (OSTI)

The {gamma}-aminobutyric acid (GABA) type A receptor (GABA{sub A}R) is one of the most important targets for insecticide action. The human recombinant {beta}3 homomer is the best available model for this binding site and 4-n-[{sup 3}H]propyl-4'-ethynylbicycloorthobenzoate ([{sup 3}H]EBOB) is the preferred non-competitive antagonist (NCA) radioligand. The uniquely high sensitivity of the {beta}3 homomer relative to the much-less-active but structurally very-similar {beta}1 homomer provides an ideal comparison to elucidate structural and functional features important for NCA binding. The {beta}1 and {beta}3 subunits were compared using chimeragenesis and mutagenesis and various combinations with the {alpha}1 subunit and modulators. Chimera {beta}3/{beta}1 with the {beta}3 subunit extracellular domain and the {beta}1 subunit transmembrane helices retained the high [{sup 3}H]EBOB binding level of the {beta}3 homomer while chimera {beta}1/{beta}3 with the {beta}1 subunit extracellular domain and the {beta}3 subunit transmembrane helices had low binding activity similar to the {beta}1 homomer. GABA at 3 {mu}M stimulated heteromers {alpha}1{beta}1 and {alpha}1{beta}3 binding levels more than 2-fold by increasing the open probability of the channel. Addition of the {alpha}1 subunit rescued the inactive {beta}1/{beta}3 chimera close to wildtype {alpha}1{beta}1 activity. EBOB binding was significantly altered by mutations {beta}1S15'N and {beta}3N15'S compared with wildtype {beta}1 and {beta}3, respectively. However, the binding activity of {alpha}1{beta}1S15'N was insensitive to GABA and {alpha}1{beta}3N15'S was stimulated much less than wildtype {alpha}1{beta}3 by GABA. The inhibitory effect of etomidate on NCA binding was reduced more than 5-fold by the mutation {beta}3N15'S. Therefore, the NCA binding site is tightly regulated by the open-state conformation that largely determines GABA{sub A} receptor sensitivity. - Graphical Abstract: Display Omitted Research Highlights: > The {beta}1 and {beta}3 subunits were compared by chimeragenesis, mutagenesis and modulators. > Low {beta}1 NCA binding was rescued by replacing its transmembrane helices with those of {beta}3. > GABA at 3 {mu}M stimulated heteromers {alpha}1{beta}1 and {alpha}1{beta}3 binding levels more than 2-fold. > Mutation at 15' position in TM2 reduced GABA stimulation of NCA binding. > The open-state conformation largely determines GABAA receptor sensitivity to NCAs.

Chen Ligong [Environmental Chemistry and Toxicology Laboratory, Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720 (United States); Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158 (United States); Xue Ling [Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720 (United States); Giacomini, Kathleen M. [Department of Bioengineering and Therapeutic Sciences, University of California, San Francisco, CA 94158 (United States); Casida, John E., E-mail: ectl@berkeley.edu [Environmental Chemistry and Toxicology Laboratory, Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720 (United States)

2011-02-01T23:59:59.000Z

100

Magnetic domain walls driven by interfacial phenomena  

E-Print Network [OSTI]

A domain wall in a ferromagnetic material is a boundary between differently magnetized regions, and its motion provides a convenient scheme to control the magnetization state of the material. Domain walls can be confined ...

Emori, Satoru

2014-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "bind deleted domain" 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

Language Modeling for limited-data domains  

E-Print Network [OSTI]

With the increasing focus of speech recognition and natural language processing applications on domains with limited amount of in-domain training data, enhanced system performance often relies on approaches involving model ...

Hsu, Bo-June (Bo-June Paul)

2009-01-01T23:59:59.000Z

102

Frequency domain design of interval controller  

E-Print Network [OSTI]

significant role in the analysis and design of interval systems. Its external properties are also discussed. The image set approach & frequency domain criteria can be used to calculate the IP stability margin. The frequency domain criteria are used...

Park, Wunyong

1993-01-01T23:59:59.000Z

103

Performance Assessment Report Domain CHP System  

E-Print Network [OSTI]

Performance Assessment Report for the Domain CHP System November 2005 By Burns & McDonnell Engineering #12;Domain CHP System Performance Assessment Report for the Packaged Cooling, Heating and Power

Oak Ridge National Laboratory

104

DOMAIN DECOMPOSITION FOR A MIXED FINITE ELEMENT ...  

E-Print Network [OSTI]

... porous media, where highly discontinuous conductivity coefficients are also ...... [14] B. Smith, P. Bjřrstad, and W. Gropp, Domain Decomposition, Cambridge

SIAM (#1) 1035 2001 Apr 10 12:32:38

2003-03-12T23:59:59.000Z

105

Magnetic domains were not found in tetrataenite.  

E-Print Network [OSTI]

collaboration with electrical engineers to produce the proper magnetic tape to view domains in. Observing and Industrial Engineering, University of Massachusetts, Amherst, MA 01003 Future Work While the magnetism· Magnetic domains were not found in tetrataenite. · Figure 4 shows magnetic domains found

Mountziaris, T. J.

106

Labelling Heuristics for CSP Application Domains  

E-Print Network [OSTI]

Labelling Heuristics for CSP Application Domains Zeynep K#16;z#16;ltan Computer Science Division an application domain as a family of CSP models, so as to exhibit the generic constraint store for all models store and the domain propagation during search is analysed, so as to infer | before modelling any CSP

Rossi, Francesca

107

Concrete Domains and Nominals United Carlos Areces  

E-Print Network [OSTI]

Concrete Domains and Nominals United Carlos Areces University of Amsterdam The Netherlands carlos(D), the extension of ALC with concrete domains, is known to be PSpace-complete, in this article we show on the concrete domain D used). The proof is by a reduction of a NExpTime-complete variant of the domino problem

Lutz, Carsten

108

Crystal and Solution Structures of the Helicase-Binding Domain of Escherichia coli Primase  

E-Print Network [OSTI]

Otting and Nicholas E. Dixon SUPPLEMENTAL DATA Overproduction of DnaG(1­433), p49 Plasmid pPL195 (1 primer 10 was as described (2). The 2000-bp dnaG+ BamHI fragment was isolated from pPL195 and inserted-length DnaG primase, directed by plasmid pPL195 (1). BL21(DE3)recA/pPL195 cells were grown at 30 °C in LB

Otting, Gottfried

109

E-Print Network 3.0 - affinity heparin-binding domain Sample...  

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

for Biotechnology and Interdisciplinary Studies & Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute Collection: Biotechnology ; Chemistry 2 Many...

110

Mechanism of membrane binding of the C2 domains of conventional protein kinase C isoforms  

E-Print Network [OSTI]

Kinase Assay for PKC?-WT, PKC?-T250A, and PKC? -T250D -CaCl2+CaCl2 Activity (nmol/minP) Transfected WT Transfected T250A

Scott, Angela Michelle

2006-01-01T23:59:59.000Z

111

Identification of the Ubiquinone-binding Domain in the Disulfide Catalyst Disulfide Bond Protein B*  

E-Print Network [OSTI]

of quinones. To explore the mechanism of this newly described enzymatic activity, we decided to study motif of DsbB is oxidized in the presence of a functional respiratory chain. This provides the firstA-DsbB system with purified electron transfer compo- nents in vitro, Bader et al. (7) identifies ubiquinone

Bardwell, James

112

Topoisomerase II? Binding Domains of Adenomatous Polyposis Coli Influence Cell Cycle Progression and Aneuploidy  

E-Print Network [OSTI]

for their role in the negative regulation of canonical Wnt signaling. However, functions of APC in other important cellular processes, such as cell cycle control or aneuploidy, are only beginning to be studied. Our previous investigation implicated the 15-amino...

Wang, Yang; Coffey, Robert J.; Osheroff, Neil; Neufeld, Kristi L.

2010-04-02T23:59:59.000Z

113

Crystal structure of the receptor binding domain of the botulinum C-D  

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 MayAtmospheric Optical Depth7-1D: Vegetation Proposed Newcatalyst phases on &gamma;-Al2O3.WinterCrystal Structurewith nitrogen

114

Solution Structure of the cGMP Binding GAF Domain fromPhosphodiesterase 5:  

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 Administrationcontroller systemsBiSite CulturalDepartment2) 1/8AdvancedProphagefuriosus.Family.

115

Structure of Human Toll-like Receptor 3 (TLR3) Ligand-binding Domain  

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 Administrationcontroller systemsBiSiteNeutronStrategicOur MissionStructureSynthetaseGDNFHuman

116

LINC Complexes Form by Binding of Three KASH Peptides to Domain Interfaces of Trimeric SUN Proteins  

E-Print Network [OSTI]

Linker of nucleoskeleton and cytoskeleton (LINC) complexes span the nuclear envelope and are composed of KASH and SUN proteins residing in the outer and inner nuclear membrane, respectively. LINC formation relies on direct ...

Sosa, Brian A.

117

proteinsSTRUCTURE O FUNCTION O BIOINFORMATICS Thermodynamics of calmodulin binding to  

E-Print Network [OSTI]

and skeletal muscle ryanodine receptor ion channels Gerhard Meissner,* Daniel A. Pasek, Naohiro Yamaguchi . A no- table property of the RyRs is that they interact with both the Ca21 -free (apoCaM) and Ca21 to the intact receptors indi- cates that the RyRs have a single, high-affinity binding domain for apoCaM and Ca

Dokholyan, Nikolay V.

118

Characterizations of exchangeable partitions and random discrete distributions by deletion properties  

E-Print Network [OSTI]

We prove a long-standing conjecture which characterises the Ewens-Pitman two-parameter family of exchangeable random partitions, plus a short list of limit and exceptional cases, by the following property: for each $n = 2,3, >...$, if one of $n$ individuals is chosen uniformly at random, independently of the random partition $\\pi_n$ of these individuals into various types, and all individuals of the same type as the chosen individual are deleted, then for each $r > 0$, given that $r$ individuals remain, these individuals are partitioned according to $\\pi_r'$ for some sequence of random partitions $(\\pi_r')$ that does not depend on $n$ or $r$. An analogous result characterizes the associated Poisson-Dirichlet family of random discrete distributions by an independence property related to random deletion of a frequency chosen by a size-biased pick. We also survey the regenerative properties of members of the two-parameter family, and settle a question regarding the explicit arrangement of intervals with lengths ...

Gnedin, Alexander; Pitman, Jim

2009-01-01T23:59:59.000Z

119

Mutant ATP-binding RNA Aptamers Reveal the Structural Basis for Ligand Binding  

E-Print Network [OSTI]

Mutant ATP-binding RNA Aptamers Reveal the Structural Basis for Ligand Binding Thorsten Dieckmann1, Massachusetts General Hospital, Boston, MA 02114 USA The solution structure of the ATP-binding RNA aptamer has. The binding properties of ATP binder mutants and modi®ed ligand molecules are explored using NMR spectroscopy

Heller, Eric

120

The Insulator Binding Protein CTCF Positions 20 Nucleosomes around Its Binding Sites across the Human  

E-Print Network [OSTI]

The Insulator Binding Protein CTCF Positions 20 Nucleosomes around Its Binding Sites across occupied by the insulator binding protein CTCF across the human genome. These nucleosomes are highly of CTCF function. Citation: Fu Y, Sinha M, Peterson CL, Weng Z (2008) The Insulator Binding Protein CTCF

Weng, Zhiping

Note: This page contains sample records for the topic "bind deleted domain" 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

Structures of Adnectin/Protein Complexes Reveal an Expanded Binding Footprint  

SciTech Connect (OSTI)

Adnectins are targeted biologics derived from the tenth type III domain of human fibronectin ({sup 10}Fn3), a member of the immunoglobulin superfamily. Target-specific binders are selected from libraries generated by diversifying the three {sup 10}Fn3 loops that are analogous to the complementarity determining regions of antibodies. The crystal structures of two Adnectins were determined, each in complex with its therapeutic target, EGFR or IL-23. Both Adnectins bind different epitopes than those bound by known monoclonal antibodies. Molecular modeling suggests that some of these epitopes might not be accessible to antibodies because of the size and concave shape of the antibody combining site. In addition to interactions from the Adnectin diversified loops, residues from the N terminus and/or the {beta} strands interact with the target proteins in both complexes. Alanine-scanning mutagenesis confirmed the calculated binding energies of these {beta} strand interactions, indicating that these nonloop residues can expand the available binding footprint.

Ramamurthy, Vidhyashankar; Krystek, Jr., Stanley R.; Bush, Alexander; Wei, Anzhi; Emanuel, Stuart L.; Gupta, Ruchira Das; Janjua, Ahsen; Cheng, Lin; Murdock, Melissa; Abramczyk, Bozena; Cohen, Daniel; Lin, Zheng; Morin, Paul; Davis, Jonathan H.; Dabritz, Michael; McLaughlin, Douglas C.; Russo, Katie A.; Chao, Ginger; Wright, Martin C.; Jenny, Victoria A.; Engle, Linda J.; Furfine, Eric; Sheriff, Steven (BMS)

2014-10-02T23:59:59.000Z

122

Dissipation, noise and DCC domain formation  

E-Print Network [OSTI]

We investigate the effect of friction on domain formation in disoriented chiral condensate. We solve the equation of motion of the linear sigma model, in the Hartree approximation, including a friction and a white noise term. For quenched initial condition, we find that even in presence of noise and dissipation domain like structure emerges after a few fermi of evolution. Domain size as large as 5 fm can be formed.

A. K. Chaudhuri

1999-08-17T23:59:59.000Z

123

Localized domain patterns in complex polymers  

E-Print Network [OSTI]

Localized domain patterns in complex polymers abstract. Block copolymers are macromolecules that can form variety of microstructures as a result of incomplete

124

NATIONAL PLAN TO ACHIEVE MARITIME DOMAIN AWARENESS  

E-Print Network [OSTI]

infrastructure following attack or similar disruption. · Maritime Transportation System Security Plan responds regarding the maritime domain. · Maritime Commerce Security Plan establishes a comprehensive plan to secure

Acton, Scott

125

Petroleum Pipeline Eminent Domain Permit Procedures (Georgia)  

Broader source: Energy.gov [DOE]

The Petroleum Pipeline Eminent Domain Permit Procedures serve to protect Georgia's natural and environmental resources by requiring permits be issued by the Director of the Environmental Protection...

126

A Structural Model for Binding of the Serine-Rich Repeat Adhesin GspB to Host Carbohydrate Receptors  

SciTech Connect (OSTI)

GspB is a serine-rich repeat (SRR) adhesin of Streptococcus gordonii that mediates binding of this organism to human platelets via its interaction with sialyl-T antigen on the receptor GPIb{alpha}. This interaction appears to be a major virulence determinant in the pathogenesis of infective endocarditis. To address the mechanism by which GspB recognizes its carbohydrate ligand, we determined the high-resolution x-ray crystal structure of the GspB binding region (GspB{sub BR}), both alone and in complex with a disaccharide precursor to sialyl-T antigen. Analysis of the GspB{sub BR} structure revealed that it is comprised of three independently folded subdomains or modules: (1) an Ig-fold resembling a CnaA domain from prokaryotic pathogens; (2) a second Ig-fold resembling the binding region of mammalian Siglecs; (3) a subdomain of unique fold. The disaccharide was found to bind in a pocket within the Siglec subdomain, but at a site distinct from that observed in mammalian Siglecs. Confirming the biological relevance of this binding pocket, we produced three isogenic variants of S. gordonii, each containing a single point mutation of a residue lining this binding pocket. These variants have reduced binding to carbohydrates of GPIb{alpha}. Further examination of purified GspB{sub BR}-R484E showed reduced binding to sialyl-T antigen while S. gordonii harboring this mutation did not efficiently bind platelets and showed a significant reduction in virulence, as measured by an animal model of endocarditis. Analysis of other SRR proteins revealed that the predicted binding regions of these adhesins also had a modular organization, with those known to bind carbohydrate receptors having modules homologous to the Siglec and Unique subdomains of GspBBR. This suggests that the binding specificity of the SRR family of adhesins is determined by the type and organization of discrete modules within the binding domains, which may affect the tropism of organisms for different tissues.

Pyburn, Tasia M.; Bensing, Barbara A.; Xiong, Yan Q.; Melancon, Bruce J.; Tomasiak, Thomas M.; Ward, Nicholas J.; Yankovskaya, Victoria; Oliver, Kevin M.; Cecchini, Gary; Sulikowski, Gary A.; Tyska, Matthew J.; Sullam, Paul M.; Iverson, T.M. (VA); (UCLA); (Vanderbilt); (UCSF)

2014-10-02T23:59:59.000Z

127

Structures and solution properties of two novel periplasmic sensor domains with c-type heme from chemotaxis proteins of Geobacter sulfurreducens : implications for signal transduction.  

SciTech Connect (OSTI)

Periplasmic sensor domains from two methyl-accepting chemotaxis proteins from Geobacter sulfurreducens (encoded by genes GSU0935 and GSU0582) were expressed in Escherichia coli. The sensor domains were isolated, purified, characterized in solution, and their crystal structures were determined. In the crystal, both sensor domains form swapped dimers and show a PAS-type fold. The swapped segment consists of two helices of about 45 residues at the N terminus with the hemes located between the two monomers. In the case of the GSU0582 sensor, the dimer contains a crystallographic 2-fold symmetry and the heme is coordinated by an axial His and a water molecule. In the case of the GSU0935 sensor, the crystals contain a non-crystallographic dimer, and surprisingly, the coordination of the heme in each monomer is different; monomer A heme has His-Met ligation and monomer B heme has His-water ligation as found in the GSU0582 sensor. The structures of these sensor domains are the first structures of PAS domains containing covalently bound heme. Optical absorption, electron paramagnetic resonance and NMR spectroscopy have revealed that the heme groups of both sensor domains are high-spin and low-spin in the oxidized and reduced forms, respectively, and that the spin-state interconversion involves a heme axial ligand replacement. Both sensor domains bind NO in their ferric and ferrous forms but bind CO only in the reduced form. The binding of both NO and CO occurs via an axial ligand exchange process, and is fully reversible. The reduction potentials of the sensor domains differ by 95 mV (-156 mV and -251 mV for sensors GSU0582 and GSU0935, respectively). The swapped dimerization of these sensor domains and redox-linked ligand switch might be related to the mechanism of signal transduction by these chemotaxis proteins.

Pokkuluri, P. R.; Pessanha, M.; Londer, Y. Y.; Wood, S. J.; Duke, N. E. C.; Wilton, R.; Catarino, T.; Salgueiro, C. A.; Schiffer, M.; Biosciences Division; Univ.Nova de Lisboa; Insti. de Tecnologia Quimica e Biologica

2008-04-11T23:59:59.000Z

128

DefectDomain Wall Interactions in Trigonal  

E-Print Network [OSTI]

Defect­Domain Wall Interactions in Trigonal Ferroelectrics Venkatraman Gopalan,1 Volkmar Dierolf,2 walls in the trigonal ferroelectrics lithium niobate and lithium tantalate. It is shown that extrinsic questions re- garding intrinsic widths, defect­domain wall interactions, and static versus dynamic wall

Gopalan, Venkatraman

129

A Theoretical Framework for Chimera Domain Decomposition  

E-Print Network [OSTI]

A Theoretical Framework for Chimera Domain Decomposition S. L. Keeling Sverdrup Technology, Inc. Steger, UC Davis, May 2-4, 1997. 1 Introduction. The Chimera scheme is a domain decomposition method- ometry is divided into simply shaped regions. Unlike other approaches [5], the Chimera method simplifies

Keeling, Stephen L.

130

The Abstract Domain of Segmented Ranking Functions  

E-Print Network [OSTI]

function by abstract in- terpretation. We build our work on their proposed general framework, and we designThe Abstract Domain of Segmented Ranking Functions Caterina Urban ´Ecole Normale Sup´erieure - CNRS - INRIA, Paris, France urban@di.ens.fr Abstract. We present a parameterized abstract domain for proving

Paris-Sud XI, Université de

131

Reasoning with Concrete Domains Carsten Lutz  

E-Print Network [OSTI]

Reasoning with Concrete Domains Carsten Lutz RWTH Aachen, LuFg Theoretical Computer Science. Concrete domains allow the integration of description logic reasoning with reasoning about concrete objects for building real­world applications, is widely accepted. How­ ever, the complexity of reasoning with concrete

Lutz, Carsten

132

Optical coherence domain reflectometry guidewire  

DOE Patents [OSTI]

A guidewire with optical sensing capabilities is based on a multiplexed optical coherence domain reflectometer (OCDR), which allows it to sense location, thickness, and structure of the arterial walls or other intra-cavity regions as it travels through the body during minimally invasive medical procedures. This information will be used both to direct the guidewire through the body by detecting vascular junctions and to evaluate the nearby tissue. The guidewire contains multiple optical fibers which couple light from the proximal to distal end. Light from the fibers at the distal end of the guidewire is directed onto interior cavity walls via small diameter optics such as gradient index lenses and mirrored corner cubes. Both forward viewing and side viewing fibers can be included. The light reflected or scattered from the cavity walls is then collected by the fibers, which are multiplexed at the proximal end to the sample arm of an optical low coherence reflectometer. The guidewire can also be used in nonmedical applications.

Colston, Billy W. (Livermore, CA); Everett, Matthew (Pleasanton, CA); Da Silva, Luiz B. (Danville, CA); Matthews, Dennis (Moss Beach, CA)

2001-01-01T23:59:59.000Z

133

Function of the ATR N-terminal domain revealed by an ATM/ATR chimera  

SciTech Connect (OSTI)

The ATM and ATR kinases function at the apex of checkpoint signaling pathways. These kinases share significant sequence similarity, phosphorylate many of the same substrates, and have overlapping roles in initiating cell cycle checkpoints. However, they sense DNA damage through distinct mechanisms. ATR primarily senses single stranded DNA (ssDNA) through its interaction with ATRIP, and ATM senses double strand breaks through its interaction with Nbs1. We determined that the N-terminus of ATR contains a domain that binds ATRIP. Attaching this domain to ATM allowed the fusion protein (ATM*) to bind ATRIP and associate with RPA-coated ssDNA. ATM* also gained the ability to localize efficiently to stalled replication forks as well as double strand breaks. Despite having normal kinase activity when tested in vitro and being phosphorylated on S1981 in vivo, ATM* is defective in checkpoint signaling and does not complement cellular deficiencies in either ATM or ATR. These data indicate that the N-terminus of ATR is sufficient to bind ATRIP and to promote localization to sites of replication stress.

Chen Xinping [Department of Biochemistry, Vanderbilt University, 613 Light Hall, 23rd, Pierce Avenue, Nashville, TN 37232 (United States); Zhao Runxiang [Department of Biochemistry, Vanderbilt University, 613 Light Hall, 23rd, Pierce Avenue, Nashville, TN 37232 (United States); Glick, Gloria G. [Department of Biochemistry, Vanderbilt University, 613 Light Hall, 23rd, Pierce Avenue, Nashville, TN 37232 (United States); Cortez, David [Department of Biochemistry, Vanderbilt University, 613 Light Hall, 23rd, Pierce Avenue, Nashville, TN 37232 (United States)]. E-mail: david.cortez@vanderbilt.edu

2007-05-01T23:59:59.000Z

134

Detecting Networks Employing Algorithmically Generated Domain Names  

E-Print Network [OSTI]

and hence has no com- mon IP address or a common domain name. Let ip = I be the total number of IP-addresses that are present after the F1 stage. and let d = D be total number of domain names that are present after the F1 stage. The vertices of graph G... for the second level domain name of xyz.com. At times a few of the IP addresses would end up in this component class because of a shortage in the 27 analysis period, given enough time ideally all the IP addresses (hosting server) of a single business unit...

Ashwath Kumar Krishna Reddy

2011-10-21T23:59:59.000Z

135

Biological activities of binding site specific monoclonal antibodies to prolactin receptors of rabbit mammary gland  

SciTech Connect (OSTI)

The biological activity of three monoclonal antibodies (mAbs) against the rabbit mammary prolactin (PRL) receptor (M110, A82, and A917) were investigated using explants of rabbit mammary gland. The three mAbs which were all able to inhibit the binding of SVI-ovine prolactin to its receptor had different biological activities. Two mAbs (M110 and A82) were able to prevent the stimulating effect of PRL on casein synthesis when the molar ratio between the mAb and PRL was 100. One mAb (A917) was able to mimic the action of PRL on both casein and DNA ((TH)thymidine incorporation) synthesis, whereas the other two mAbs were without any stimulatory effect. For this stimulatory effect to be observed, bivalency of the antibody was essential, since monovalent fragments, which were able to inhibit PRL binding, had no agonistic activity. The ability of the mAbs to induce a down-regulation of receptors was also studied. These studies suggest that the binding domain of the receptor might be relatively complex, since only a part of this domain recognized by the antibody with PRL-like activity was able to induce hormonal action. Alternatively, only those antibodies able to microaggregate the receptors may possess PRL-like activity.

Djiane, J.; Dusanter-Fourt, I.; Katoh, M.; Kelly, P.A.

1985-09-25T23:59:59.000Z

136

Learning Energy Demand Domain Knowledge via Feature Transformation  

E-Print Network [OSTI]

Learning Energy Demand Domain Knowledge via Feature Transformation Sanzad Siddique Department -- Domain knowledge is an essential factor for forecasting energy demand. This paper introduces a method knowledge substantially improves energy demand forecasting accuracy. However, domain knowledge may differ

Povinelli, Richard J.

137

Antiferromagnetic domain size and exchange bias  

E-Print Network [OSTI]

Using neutron diffraction, we measured the sizes of antiferromagnetic domains in three ferromagnet/antiferromagnet bilayer samples as a function of the magnitude and sign of exchange bias, temperature, and antiferromagnet composition. Neutron...

Fitzsimmons, M. R.; Lederman, D.; Cheon, M.; Shi, H.; Olamit, J.; Roshchin, Igor V.; Schuller, Ivan K.

2008-01-01T23:59:59.000Z

138

Magnetically multiplexed heating of single domain nanoparticles  

E-Print Network [OSTI]

Selective hysteretic heating of multiple collocated types of single domain magnetic nanoparticles (SDMNPs) by alternating magnetic fields (AMFs) may offer a useful tool for biomedical applications. The possibility of ...

Romero, G.

139

Slow Dynamics of Orbital Domains in Manganite  

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

Slow Dynamics of Orbital Domains in Manganite Print At the ALS, an international team of researchers has used low-energy coherent x rays to extract new knowledge about the...

140

The human ACC2 CT-domain C-terminus is required for full functionality and has a novel twist  

SciTech Connect (OSTI)

Inhibition of acetyl-CoA carboxylase (ACC) may prevent lipid-induced insulin resistance and type 2 diabetes, making the enzyme an attractive pharmaceutical target. Although the enzyme is highly conserved amongst animals, only the yeast enzyme structure is available for rational drug design. The use of biophysical assays has permitted the identification of a specific C-terminal truncation of the 826-residue human ACC2 carboxyl transferase (CT) domain that is both functionally competent to bind inhibitors and crystallizes in their presence. This C-terminal truncation led to the determination of the human ACC2 CT domain-CP-640186 complex crystal structure, which revealed distinctions from the yeast-enzyme complex. The human ACC2 CT-domain C-terminus is comprised of three intertwined -helices that extend outwards from the enzyme on the opposite side to the ligand-binding site. Differences in the observed inhibitor conformation between the yeast and human structures are caused by differing residues in the binding pocket.

Madauss, Kevin P.; Burkhart, William A.; Consler, Thomas G.; Cowan, David J.; Gottschalk, William K.; Miller, Aaron B; Short, Steven A.; Tran, Thuy B.; Williams, Shawn P.; (GSKNC); (Duke); (UNC)

2009-06-15T23:59:59.000Z

Note: This page contains sample records for the topic "bind deleted domain" 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

Human Sco1 and Sco2 Function as Copper-binding Proteins* Received for publication, June 22, 2005, and in revised form, July 29, 2005 Published, JBC Papers in Press, August 9, 2005, DOI 10.1074/jbc.M506801200  

E-Print Network [OSTI]

Human Sco1 and Sco2 Function as Copper-binding Proteins* Received for publication, June 22, 2005 on copper ion binding. Expression of soluble domains of human Sco1 and Sco2 either in bacteria or the yeast cytoplasm resulted in the recovery of copper-containing proteins. The metallation of human Sco1, but not Sco

Shoubridge, Eric

142

Building Noetherian and non-Noetherian integral domains using ...  

E-Print Network [OSTI]

valuation domain birationally dominating R, .... discrete valuation domain (DVR) and it is well-known that the completion of R .... two methods for the construction.

2013-06-30T23:59:59.000Z

143

Biophysical characterization of p53 regulatory domain and MDM2  

E-Print Network [OSTI]

Sw Sedimentation Coefficient TAD Transactivation Domain TEMwith a short peptide of p53 TAD was solved (Kussie et al. ,transactivation domain (TAD) is phosphorylated by several

Cheung, Nikki Hoi Ling

2010-01-01T23:59:59.000Z

144

Interstitial deletion of 8q21{yields}22 associated with minor anomalies, congenital heart defect, and Dandy-Walker variant  

SciTech Connect (OSTI)

We describe an infant with a deletion of 8q21{yields}22 who had distinct clinical manifestations including minor facial anomalies, a congenital heart defect, a Dandy-Walker variant, and mild to moderate developmental delay. Her facial characteristics included small, wide-spaced eyes, asymmetric bilateral epicanthal folds, a broad nasal bridge, a {open_quotes}carp-shaped{close_quotes} mouth, micrognathia, and prominent, apparently low-set ears. Three other reports describe children with larger proximal deletions of 8q that include 8q21 and q22. These four children all have similar facial appearance. Of the others reported, one had a congenital heart defect and one had craniosynostosis. This case, in addition to the previously noted three cases, helps in delineating a recognizable syndrome. 12 refs., 3 figs., 1 tab.

Donahue, M.L. [Medical Univ. of South Carolina, Charleston, SC (United States); Ryan, R.M. [Univ. of Rochester, NY (United States)

1995-03-13T23:59:59.000Z

145

Deletion of exon 3 of the insulin receptor gene in a kindred with a familial form of insulin resistance  

SciTech Connect (OSTI)

Molecular scanning techniques, such as denaturing gradient gel electrophoresis (DGGE), greatly facilitate screening candidate genes for mutations. The authors have used DGGE to screen for mutations in the insulin receptor gene in a family in which four of five daughters were affected by type A insulin resistance in association with acanthosis nigricans and hyperandrogenism. DGGE did not detect mutations in any of the 22 exons of the insulin receptor gene. Nevertheless, Southern blot analysis suggested that there was a deletion of exon 3 in the other paternal allele of the insulin receptor gene. Analysis of the father`s cDNA confirmed that exon 3 was deleted from mRNA molecules derived from one of his two alleles of the insulin receptor gene. Furthermore, the father was found to be hemizygous for a polymorphic sequence (GAC{sup Asp} at codon 234) in exon 3 that was not inherited by any of the five daughters. Instead, all five daughters inherited the paternal allele with the deletion mutation. They did not detect mutations in the mother`s insulin receptor gene. Furthermore, the clinical syndrome did not segregate with either of the mother`s two alleles of the insulin receptor gene. Although the youngest daughter inherited the mutant allele from her father, she was not clinically affected. The explanation for the incomplete penetrance is not known. These results emphasize the importance of specifically searching for deletion mutations when screening candidate genes for mutations. Furthermore, the existence of apparently asymptomatic carriers of mutations in the insulin receptor gene, such as the father in the present study, suggests that the prevalence of mutations in the insulin receptor gene may be higher than would be predicted on the basis of the observed prevalence of patients with extreme insulin resistance. 34 refs., 6 figs., 1 tab.

Wertheimer, E.; Barbetti, F.; Accili, D.; Taylor, S.I. [National Institutes of Health, Bethesda, MD (United States)] [National Institutes of Health, Bethesda, MD (United States); Litvin, Y.; Ebstein, R.P.; Bennet, E.R.

1994-05-01T23:59:59.000Z

146

Effects of Deletions of High Molecular Weight Glutenin Subunit Alleles on Dough Properties and Wheat Flour Tortilla Quality  

E-Print Network [OSTI]

, Lloyd W. Rooney Dirk B. Hays Intercollegiate Faculty Chair, Alejandro Castillo August 2012 Major Subject: Food Science and Technology iii ABSTRACT Effects of Deletions of High Molecular Weight Glutenin Subunit Alleles on Dough... and opportunities he provided me. I am thankful to my committee members Dr. Lloyd Rooney for his encouragements and Dr. Dirk Hays providing directions. I acknowledge to Dr. Amir Ibrahim for his support and help with statistical analysis and interpretation. I...

Tuncil, Yunus

2012-10-19T23:59:59.000Z

147

Evolutionary relationships of ATP-Binding Cassette (ABC) uptake porters  

E-Print Network [OSTI]

Evolutionary relationships of ATP-Binding Cassette (ABC)MH Jr: Membrane porters of ATP-binding cassette transportand exporters in the evolution of ATP-binding cassette (ABC)

Zheng, Wei Hao; Västermark, Ĺke; Shlykov, Maksim A; Reddy, Vamsee; Sun, Eric I; Saier, Milton H

2013-01-01T23:59:59.000Z

148

Unexpected effects of gene deletion on mercury interactions with the methylation-deficient mutant hgcAB  

SciTech Connect (OSTI)

The hgcA and hgcB gene pair is essential for mercury (Hg) methylation by certain anaerobic bacteria,1 but little is known about how deletion of hgcAB affects cell surface interactions and intracellular uptake of Hg. Here, we compare hgcAB mutants with the wild-type (WT) strains of both Geobacter sulfurreducens PCA and Desulfovibrio desulfuricans ND132 and observe differences in Hg redox transformations, adsorption, and uptake in laboratory incubation studies. In both strains, deletion of hgcAB increased the reduction of Hg(II) but decreased the oxidation of Hg(0) under anaerobic conditions. The measured cellular thiol content in hgcAB mutants was lower than the WT, accounting for decreased adsorption and uptake of Hg. Despite the lack of methylation activity, Hg uptake by the hgcAB continued, albeit at a slower rate than the WT. These findings demonstrate that deletion of the hgcAB gene not only eliminates Hg methylation but also alters cell physiology, resulting in changes to Hg redox reactions, sorption, and uptake by cells.

Lin, Hui [ORNL] [ORNL; Hurt, Jr., Richard Ashley [ORNL; Johs, Alexander [ORNL] [ORNL; Parks, Jerry M [ORNL] [ORNL; Morrell-Falvey, Jennifer L [ORNL] [ORNL; Liang, Liyuan [ORNL] [ORNL; Elias, Dwayne A [ORNL] [ORNL; Gu, Baohua [ORNL] [ORNL

2014-01-01T23:59:59.000Z

149

Final Report for the Account Creation/Deletion Reenginering Task for the Scientific Computing Department  

SciTech Connect (OSTI)

In October 2000, the personnel responsible for administration of the corporate computers managed by the Scientific Computing Department assembled to reengineer the process of creating and deleting users' computer accounts. Using the Carnegie Mellon Software Engineering Institute (SEI) Capability Maturity Model (CMM) for quality improvement process, the team performed the reengineering by way of process modeling, defining and measuring the maturity of the processes, per SEI and CMM practices. The computers residing in the classified environment are bound by security requirements of the Secure Classified Network (SCN) Security Plan. These security requirements delimited the scope of the project, specifically mandating validation of all user accounts on the central corporate computer systems. System administrators, in addition to their assigned responsibilities, were spending valuable hours performing the additional tacit responsibility of tracking user accountability for user-generated data. For example, in cases where the data originator was no longer an employee, the administrators were forced to spend considerable time and effort determining the appropriate management personnel to assume ownership or disposition of the former owner's data files. In order to prevent this sort of problem from occurring and to have a defined procedure in the event of an anomaly, the computer account management procedure was thoroughly reengineered, as detailed in this document. An automated procedure is now in place that is initiated and supplied data by central corporate processes certifying the integrity, timeliness and authentication of account holders and their management. Automated scripts identify when an account is about to expire, to preempt the problem of data becoming ''orphaned'' without a responsible ''owner'' on the system. The automated account-management procedure currently operates on and provides a standard process for all of the computers maintained by the Scientific Computing Department.

JENNINGS, BARBARA J.; MCALLISTER, PAULA L.

2002-04-01T23:59:59.000Z

150

Atomic structure of nitrate-binding protein crucial for photosynthetic...  

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

structure of nitrate-binding protein crucial for photosynthetic productivity. Atomic structure of nitrate-binding protein crucial for photosynthetic productivity. Abstract:...

151

affinity binding studies: Topics by E-print Network  

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

for Ligand Binding Affinity Prediction Chemistry Websites Summary: of the binding free energy between a ligand and a protein is an important component in the virtual...

152

Crystallographic controls on uranyl binding at the quartz/water...  

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

controls on uranyl binding at the quartzwater interface. Abstract: Molecular dynamics methods were used to simulate UO2(OH)20 binding to pairs of oxo sites on three...

153

Sequestering Uranium from Seawater: Binding Strength and Modes...  

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

Sequestering Uranium from Seawater: Binding Strength and Modes of Uranyl Complexes with Glutarimidedioxime Sequestering Uranium from Seawater: Binding Strength and Modes of Uranyl...

154

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...

155

Bridging the gap between protein-tyrosine phosphorylation networks, metabolism and physiology in liver-specific PTP1b deletion mice  

E-Print Network [OSTI]

Metabolic syndrome describes a complex set of obesity-related disorders that enhance diabetes, cardiovascular, and mortality risk. Studies of liver-specific protein-tyrosine phosphatase lb (PTPlb) deletion mice (L-PTPlb-/-) ...

Miraldi, Emily R. (Emily Rae)

2012-01-01T23:59:59.000Z

156

Hardware device binding and mutual authentication  

DOE Patents [OSTI]

Detection and deterrence of device tampering and subversion by substitution may be achieved by including a cryptographic unit within a computing device for binding multiple hardware devices and mutually authenticating the devices. The cryptographic unit includes a physically unclonable function ("PUF") circuit disposed in or on the hardware device, which generates a binding PUF value. The cryptographic unit uses the binding PUF value during an enrollment phase and subsequent authentication phases. During a subsequent authentication phase, the cryptographic unit uses the binding PUF values of the multiple hardware devices to generate a challenge to send to the other device, and to verify a challenge received from the other device to mutually authenticate the hardware devices.

Hamlet, Jason R; Pierson, Lyndon G

2014-03-04T23:59:59.000Z

157

Activation of p115-RhoGEF Requires Direct Association of G[alpha subscript 13] and the Dbl Homology Domain  

SciTech Connect (OSTI)

RGS-containing RhoGEFs (RGS-RhoGEFs) represent a direct link between the G{sub 12} class of heterotrimeric G proteins and the monomeric GTPases. In addition to the canonical Dbl homology (DH) and pleckstrin homology domains that carry out the guanine nucleotide exchange factor (GEF) activity toward RhoA, these RhoGEFs also possess RGS homology (RH) domains that interact with activated {alpha} subunits of G{sub 12} and G{sub 13}. Although the GEF activity of p115-RhoGEF (p115), an RGS-RhoGEF, can be stimulated by G{alpha}{sub 13}, the exact mechanism of the stimulation has remained unclear. Using combined studies with small angle x-ray scattering, biochemistry, and mutagenesis, we identify an additional binding site for activated G{alpha}{sub 13} in the DH domain of p115. Small angle x-ray scattering reveals that the helical domain of G{alpha}{sub 13} docks onto the DH domain, opposite to the surface of DH that binds RhoA. Mutation of a single tryptophan residue in the {alpha}3b helix of DH reduces binding to activated G{alpha}{sub 13} and ablates the stimulation of p115 by G{alpha}{sub 13}. Complementary mutations at the predicted DH-binding site in the {alpha}B-{alpha}C loop of the helical domain of G{alpha}{sub 13} also affect stimulation of p115 by G{alpha}{sub 13}. Although the GAP activity of p115 is not required for stimulation by G{alpha}{sub 13}, two hydrophobic motifs in RH outside of the consensus RGS box are critical for this process. Therefore, the binding of G{alpha}{sub 13} to the RH domain facilitates direct association of G{alpha}{sub 13} to the DH domain to regulate its exchange activity. This study provides new insight into the mechanism of regulation of the RGS-RhoGEF and broadens our understanding of G protein signaling.

Chen, Zhe; Guo, Liang; Hadas, Jana; Gutowski, Stephen; Sprang, Stephen R.; Sternweis, Paul C. (IIT); (UTSMC); (Montana)

2012-09-05T23:59:59.000Z

158

PRL-1 Protein Promotes ERK1/2 and RhoA Protein Activation through a Non-canonical Interaction with the Src Homology 3 Domain of p115 Rho GTPase-activating Protein  

SciTech Connect (OSTI)

Phosphatases of the regenerating liver (PRL) play oncogenic roles in cancer development and metastasis. Although previous studies indicate that PRL-1 promotes cell growth and migration by activating both the ERK1/2 and RhoA pathways, the mechanism by which it activates these signaling events remains unclear. We have identified a PRL-1-binding peptide (Peptide 1) that shares high sequence identity with a conserved motif in the Src homology 3 (SH3) domain of p115 Rho GTPase-activating protein (GAP). p115 RhoGAP directly binds PRL-1 in vitro and in cells via its SH3 domain. Structural analyses of the PRL-1 {center_dot} Peptide 1 complex revealed a novel protein-protein interaction whereby a sequence motif within the PxxP ligand-binding site of the p115 RhoGAP SH3 domain occupies a folded groove within PRL-1. This prevents the canonical interaction between the SH3 domain of p115 RhoGAP and MEKK1 and results in activation of ERK1/2. Furthermore, PRL-1 binding activates RhoA signaling by inhibiting the catalytic activity of p115 RhoGAP. The results demonstrate that PRL-1 binding to p115 RhoGAP provides a coordinated mechanism underlying ERK1/2 and RhoA activation.

Bai, Yunpeng; Luo, Yong; Liu, Sijiu; Zhang, Lujuan; Shen, Kui; Dong, Yuanshu; Walls, Chad D.; Quilliam, Lawrence A.; Wells, Clark D.; Cao, Youjia; Zhang, Zhong-Yin (Indiana-Med); (NIU); (Nankai)

2012-03-15T23:59:59.000Z

159

Scott Domain Representability of a Class of Generalized Ordered Spaces  

E-Print Network [OSTI]

-space constructed on a locally compact LOTS, is Scott-domain representable, i.e., is homeomorphic to the space-domain representable (i.e., being homeomorphic to the subspace of maximal elements of a Scott-domain with the ScottScott Domain Representability of a Class of Generalized Ordered Spaces Kevin W. Duke and David

Lutzer, David J.

160

Formal Domain Modeling: From Specification to Atif Mashkoor  

E-Print Network [OSTI]

Formal Domain Modeling: From Specification to Validation Atif Mashkoor LORIA ­ DEDALE Team ­ Nancy with re- finement based approach at domain level. We also introduce a stepwise validation process and their inter-relationships, along with their important static and dynamic properties of the domain. The domain

Paris-Sud XI, Université de

Note: This page contains sample records for the topic "bind deleted domain" 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

RNA binding protein and binding site useful for expression of recombinant molecules  

DOE Patents [OSTI]

The present invention relates to a gene expression system in eukaryotic and prokaryotic cells, preferably plant cells and intact plants. In particular, the invention relates to an expression system having a RB47 binding site upstream of a translation initiation site for regulation of translation mediated by binding of RB47 protein, a member of the poly(A) binding protein family. Regulation is further effected by RB60, a protein disulfide isomerase. The expression system is capable of functioning in the nuclear/cytoplasm of cells and in the chloroplast of plants. Translation regulation of a desired molecule is enhanced approximately 100 fold over that obtained without RB47 binding site activation.

Mayfield, Stephen P.

2006-10-17T23:59:59.000Z

162

RNA binding protein and binding site useful for expression of recombinant molecules  

DOE Patents [OSTI]

The present invention relates to a gene expression system in eukaryotic and prokaryotic cells, preferably plant cells and intact plants. In particular, the invention relates to an expression system having a RB47 binding site upstream of a translation initiation site for regulation of translation mediated by binding of RB47 protein, a member of the poly(A) binding protein family. Regulation is further effected by RB60, a protein disulfide isomerase. The expression system is capable of functioning in the nuclear/cytoplasm of cells and in the chloroplast of plants. Translation regulation of a desired molecule is enhanced approximately 100 fold over that obtained without RB47 binding site activation.

Mayfield, Stephen (Cardiff, CA)

2000-01-01T23:59:59.000Z

163

Thermodynamics of free Domain Wall fermions  

E-Print Network [OSTI]

Studying various thermodynamic quantities for the free domain wall fermions for both finite and infinite fifth dimensional extent N_5, we find that the lattice corrections are minimum for $N_T\\geq10$ for both energy density and susceptibility, for its irrelevant parameter M in the range 1.45-1.50. The correction terms are, however, quite large for small lattice sizes of $N_T\\leq8$. We propose modifications of the domain wall operator, as well as the overlap operator, to reduce the finite cut-off effects to within 10% of the continuum results of the thermodynamic quantities for the currently used N_T=6-8 lattices. Incorporating chemical potential, we show that \\mu^2 divergences are absent for a large class of such domain wall fermion actions although the chiral symmetry is broken for $\\mu\

R. V. Gavai; Sayantan Sharma

2008-11-19T23:59:59.000Z

164

Standing gravitational waves from domain walls  

SciTech Connect (OSTI)

We construct a plane symmetric, standing gravitational wave for a domain wall plus a massless scalar field. The scalar field can be associated with a fluid which has the properties of 'stiff' matter, i.e., matter in which the speed of sound equals the speed of light. Although domain walls are observationally ruled out in the present era, the solution has interesting features which might shed light on the character of exact nonlinear wave solutions to Einstein's equations. Additionally this solution may act as a template for higher dimensional 'brane-world' model standing waves.

Gogberashvili, Merab [Andronikashvili Institute of Physics, 6 Tamarashvili Street, Tbilisi 0177 (Georgia); Javakhishvili Tbilisi State University, 3 Chavchavadze Avenue, Tbilisi 0128 (Georgia); California State University, Fresno, Physics Department, Fresno, California 93740-8031 (United States); Myrzakul, Shynaray [Department of General and Theoretical Physics, Gumilev Eurasian National University, Astana, 010008 (Kazakhstan); California State University, Fresno, Physics Department, Fresno, California 93740-8031 (United States); Singleton, Douglas [California State University, Fresno, Physics Department, Fresno, California 93740-8031 (United States); Institute of Gravitation and Cosmology, Peoples' Friendship University of Russia, Moscow 117198 (Russian Federation)

2009-07-15T23:59:59.000Z

165

Pulsational instability domain of Delta Scuti variables  

E-Print Network [OSTI]

An updated theoretical instability domain of the Delta Scuti star models in the Hertzsprung-Russell diagram, in the log g - log Teff diagram and in diagrams for dereddened uvby-beta photometric indices is presented. The sensitivity of both the position of the evolutionary tracks and the Blue Edge of the instability domain to changes in the chemical composition parameters (X, Z) and to changes in the convection theory parameters (mixing-length in the stellar envelope, the extent of the overshooting from the convective core) is discussed.

A. A. Pamyatnykh

2000-05-12T23:59:59.000Z

166

The Value of the EU Public Domain  

E-Print Network [OSTI]

is as natural and necessary part of our research efforts as the study of copyright.1 1 Mead Fellow in Economics, Emmanuel College, University of Cambridge 2 Erasmus University Rotterdam and Austrian Society for Cultural Economics and Policy Studies 3 Adjunct... proximate but already public domain works. 30We can add and remove mass because the set of in-print public domain and in copyright books do not necessarily match. 31If one considers this over-generous it is worth considering that the various different Harry...

Pollock, Rufus; Stepan, Paul; Välimäki, Mikko

167

Competency Patient Care Sub Domain Procedures  

E-Print Network [OSTI]

Competency Patient Care Sub Domain Procedures Learning Objective Understands informed consent and performs uncomplicated procedures on patients or in simulation Milestones Year I Year II Year III Year IV Mid End Mid End Mid End Mid End · Defines elements of informed consent for procedures · Explains

Leistikow, Bruce N.

168

Domain wall partition functions and KP  

E-Print Network [OSTI]

We observe that the partition function of the six vertex model on a finite square lattice with domain wall boundary conditions is (a restriction of) a KP tau function and express it as an expectation value of charged free fermions (up to an overall normalization).

O Foda; M Wheeler; M Zuparic

2009-01-15T23:59:59.000Z

169

The NMDA Receptor NR1 C1 Region Bound to Calmodulin: Structural Insights into Functional Differences between Homologous Domains  

SciTech Connect (OSTI)

Calmodulin (CaM) regulates tetrameric N-methyl-D-aspartate receptors (NMDARs) by binding tightly to the C0 and C1 regions of its NR1 subunit. A crystal structure (2HQW; 1.96 {angstrom}) of calcium-saturated CaM bound to NR1C1 (peptide spanning 875-898) showed that NR1 S890, whose phosphorylation regulates membrane localization, was solvent protected, whereas the endoplasmic reticulum retention motif was solvent exposed. NR1 F880 filled the CaM C-domain pocket, whereas T886 was closest to the N-domain pocket. This 1-7 pattern was most similar to that in the CaM-MARCKS complex. Comparison of CaM-ligand wrap-around conformations identified a core tetrad of CaM C-domain residues (FLMM{sub C}) that contacted all ligands consistently. An identical tetrad of N-domain residues (FLMM{sub N}) made variable sets of contacts with ligands. This CaM-NR1C1 structure provides a foundation for designing mutants to test the role of CaM in NR1 trafficking as well as insights into how the homologous CaM domains have different roles in molecular recognition.

Ataman, Zeynep Akyol; Gakhar, Lokesh; Sorensen, Brenda R.; Hell, Johannes W.; Shea, Madeline A. (Iowa)

2008-09-17T23:59:59.000Z

170

between ORC binding and nucleosome turnover, suggesting that turnover facilitates ORC binding.  

E-Print Network [OSTI]

between ORC binding and nucleosome turnover, suggesting that turnover facilitates ORC binding little if any de- pendence on ORC abundance (Fig. 3, H to P). Our findings support the hypothesis- titative correspondence of ORC to CATCH-IT data than to other chromatin measurements implies that the ORC

Pauly, Daniel

171

Structural basis of substrate discrimination and integrin binding by autotaxin  

SciTech Connect (OSTI)

Autotaxin (ATX, also known as ectonucleotide pyrophosphatase/phosphodiesterase-2, ENPP2) is a secreted lysophospholipase D that generates the lipid mediator lysophosphatidic acid (LPA), a mitogen and chemoattractant for many cell types. ATX-LPA signaling is involved in various pathologies including tumor progression and inflammation. However, the molecular basis of substrate recognition and catalysis by ATX and the mechanism by which it interacts with target cells are unclear. Here, we present the crystal structure of ATX, alone and in complex with a small-molecule inhibitor. We have identified a hydrophobic lipid-binding pocket and mapped key residues for catalysis and selection between nucleotide and phospholipid substrates. We have shown that ATX interacts with cell-surface integrins through its N-terminal somatomedin B-like domains, using an atypical mechanism. Our results define determinants of substrate discrimination by the ENPP family, suggest how ATX promotes localized LPA signaling and suggest new approaches for targeting ATX with small-molecule therapeutic agents.

Hausmann, Jens; Kamtekar, Satwik; Christodoulou, Evangelos; Day, Jacqueline E.; Wu, Tao; Fulkerson, Zachary; Albers, Harald M.H.G.; van Meeteren, Laurens A.; Houben, Anna J.S.; van Zeijl, Leonie; Jansen, Silvia; Andries, Maria; Hall, Troii; Pegg, Lyle E.; Benson, Timothy E.; Kasiem, Mobien; Harlos, Karl; Vander Kooi, Craig W.; Smyth, Susan S.; Ovaa, Huib; Bollen, Mathieu; Morris, Andrew J.; Moolenaar, Wouter H.; Perrakis, Anastassis (Pfizer); (Leuven); (Oxford); (NCI-Netherlands); (Kentucky)

2013-09-25T23:59:59.000Z

172

Crystal structure of the anti-viral APOBEC3G catalytic domain and functional implications  

SciTech Connect (OSTI)

The APOBEC family members are involved in diverse biological functions. APOBEC3G restricts the replication of human immunodeficiency virus (HIV), hepatitis B virus and retroelements by cytidine deamination on single-stranded DNA or by RNA binding. Here we report the high-resolution crystal structure of the carboxy-terminal deaminase domain of APOBEC3G (APOBEC3G-CD2) purified from Escherichia coli. The APOBEC3G-CD2 structure has a five-stranded {beta}-sheet core that is common to all known deaminase structures and closely resembles the structure of another APOBEC protein, APOBEC2. A comparison of APOBEC3G-CD2 with other deaminase structures shows a structural conservation of the active-site loops that are directly involved in substrate binding. In the X-ray structure, these APOBEC3G active-site loops form a continuous 'substrate groove' around the active centre. The orientation of this putative substrate groove differs markedly (by 90 degrees) from the groove predicted by the NMR structure. We have introduced mutations around the groove, and have identified residues involved in substrate specificity, single-stranded DNA binding and deaminase activity. These results provide a basis for understanding the underlying mechanisms of substrate specificity for the APOBEC family.

Holden, Lauren G.; Prochnow, Courtney; Chang, Y. Paul; Bransteitter, Ronda; Chelico, Linda; Sen, Udayaditya; Stevens, Raymond C.; Goodman, Myron F.; Chen, Xiaojiang S. (USC); (Scripps)

2009-04-07T23:59:59.000Z

173

Predicting binding free energies in solution  

E-Print Network [OSTI]

Recent predictions of absolute binding free energies of host-guest complexes in aqueous solution using electronic structure theory have been encouraging for some systems, while other systems remain problematic for others. In paper I summarize some of the many factors that could easily contribute 1-3 kcal/mol errors at 298 K: three-body dispersion effects, molecular symmetry, anharmonicity, spurious imaginary frequencies, insufficient conformational sampling, wrong or changing ionization states, errors in the solvation free energy of ions, and explicit solvent (and ion) effects that are not well-represented by continuum models. While the paper is primarily a synthesis of previously published work there are two new results: the adaptation of Legendre transformed free energies to electronic structure theory and a use of water clusters that maximizes error cancellation in binding free energies computed using explicit solvent molecules. While I focus on binding free energies in aqueous solution the approach also a...

Jensen, Jan H

2015-01-01T23:59:59.000Z

174

Crystal Structures of the Staphylococcal Toxin SSL5 in Complex With Sialyl-Lewis X Reveal a Conserved Binding Site That Shares Common Features With Viral And Bacterial Sialic Acid-Binding Proteins  

SciTech Connect (OSTI)

Staphylococcus aureus is a significant human pathogen. Among its large repertoire of secreted toxins is a group of staphylococcal superantigen-like proteins (SSLs). These are homologous to superantigens but do not have the same activity. SSL5 is shown here to bind to human granulocytes and to the cell surface receptors for human IgA (Fc alphaRI) and P-selectin [P-selectin glycoprotein ligand-1 (PSGL-1)] in a sialic acid (Sia)-dependent manner. Co-crystallization of SSL5 with the tetrasaccharide sialyl Lewis X (sLe(X)), a key determinant of PSGL-1 binding to P-selectin, led to crystal structures of the SSL5-sLe(X) complex at resolutions of 1.65 and 2.75 A for crystals at two pH values. In both structures, sLe(X) bound to a specific site on the surface of the C-terminal domain of SSL5 in a conformation identical with that bound by P-selectin. Conservation of the key carbohydrate binding residues indicates that this ability to bind human glycans is shared by a substantial subgroup of the SSLs, including SSL2, SSL3, SSL4, SSL5, SSL6, and SSL11. This indicates that the ability to target human glycans is an important property of this group of toxins. Structural comparisons also showed that the Sia binding site in SSL5 contains a substructure that is shared by other Sia binding proteins from bacteria as well as viruses and represents a common binding motif.

Baker, H.M.; Basu, I.; Chung, M.C.; Caradoc-Davies, T.; Fraser, J.D.; Baker, E.N.

2009-06-02T23:59:59.000Z

175

Conformation Changes N-terminal Involvement and cGMP Signal Relay in the Phosphodiesterase-5 GAF Domain  

SciTech Connect (OSTI)

The activity of phosphodiesterase-5 (PDE5) is specific for cGMP and is regulated by cGMP binding to GAF-A in its regulatory domain. To better understand the regulatory mechanism, x-ray crystallographic and biochemical studies were performed on constructs of human PDE5A1 containing the N-terminal phosphorylation segment, GAF-A, and GAF-B. Superposition of this unliganded GAF-A with the previously reported NMR structure of cGMP-bound PDE5 revealed dramatic conformational differences and suggested that helix H4 and strand B3 probably serve as two lids to gate the cGMP-binding pocket in GAF-A. The structure also identified an interfacial region among GAF-A, GAF-B, and the N-terminal loop, which may serve as a relay of the cGMP signal from GAF-A to GAF-B. N-terminal loop 98-147 was physically associated with GAF-B domains of the dimer. Biochemical analyses showed an inhibitory effect of this loop on cGMP binding and its involvement in the cGMP-induced conformation changes.

H Wang; H Robinson; H Ke

2011-12-31T23:59:59.000Z

176

Budding of domains in mixed bilayer membranes  

E-Print Network [OSTI]

We propose a model that accounts for budding behavior of domains in lipid bilayers, where each of the bilayer leaflets has a coupling between its local curvature and local lipid composition. The compositional asymmetry between the two monolayers leads to an overall spontaneous curvature. The membrane free-energy contains three contributions: bending energy, line tension, and a Landau free-energy for a lateral phase separation. Within a mean-field treatment, we obtain various phase diagrams which contain fully-budded, dimpled and flat states. In particular, for some range of membrane parameters, the phase diagrams exhibit a tricritical behavior as well as three-phase coexistence region. The global phase diagrams can be divided into three types and are analyzed in terms of the curvature-composition coupling parameter and domain size.

Jean Wolff; Shigeyuki Komura; David Andelman

2015-01-10T23:59:59.000Z

177

Fluctuation induced interactions between domains in membranes  

E-Print Network [OSTI]

We study a model lipid bilayer composed of a mixture of two incompatible lipid types which have a natural tendency to segregate in the absence of membrane fluctuations. The membrane is mechanically characterized by a local bending rigidity $\\kappa(\\phi)$ which varies with the average local lipid composition $\\phi$. We show, in the case where $\\kappa$ varies weakly with $\\phi$, that the effective interaction between lipids of the same type can either be everywhere attractive or can have a repulsive component at intermediate distances greater than the typical lipid size. When this interaction has a repulsive component, it can prevent macro-phase separation and lead to separation in mesophases with a finite domain size. This effect could be relevant to certain experimental and numerical observations of mesoscopic domains in such systems.

D. S. Dean; M. Manghi

2006-09-06T23:59:59.000Z

178

Budding of domains in mixed bilayer membranes  

E-Print Network [OSTI]

We propose a model that accounts for budding behavior of domains in lipid bilayers, where each of the bilayer leaflets has a coupling between its local curvature and local lipid composition. The compositional asymmetry between the two monolayers leads to an overall spontaneous curvature. The membrane free-energy contains three contributions: bending energy, line tension, and a Landau free-energy for a lateral phase separation. Within a mean-field treatment, we obtain various phase diagrams which contain fully-budded, dimpled and flat states. In particular, for some range of membrane parameters, the phase diagrams exhibit a tricritical behavior as well as three-phase coexistence region. The global phase diagrams can be divided into three types and are analyzed in terms of the curvature-composition coupling parameter and domain size.

Jean Wolff; Shigeyuki Komura; David Andelman

2014-10-14T23:59:59.000Z

179

Conserved currents for Mobius Domain Wall Fermions  

E-Print Network [OSTI]

We derive the exactly conserved vector, and almost conserved axial currents for rational approximations to the overlap operator with a general Mobius kernel. The approach maintains manifest Hermiticity, and allows matrix elements of the currents to be constructed at no extra cost after solution of the usual 5d system of equations, similar to the original approach of Furman and Shamir for domain wall Fermions.

P. A. Boyle

2014-11-20T23:59:59.000Z

180

Interaction of the S100A6 mutant (C3S) with the V domain of the receptor for advanced glycation end products (RAGE)  

SciTech Connect (OSTI)

Highlights: •The halo human S100A6 (C3S) NMR chemical shifts were assigned. •The interactions between S100A6m and RAGE V domain was investigated by ITC. •The residues involved in the S100A6m–RAGE V domain binding were mapped by {sup 1}H–{sup 15}N HSQC titration. •S100A6–RAGE V domain tetrameric complex model was generated from NMR studies. •The S100A6–RAGE V domain interface regions were elucidated based on HADDOCK model. -- Abstract: S100A6 is involved in several vital biological functions, such as calcium sensing and cell proliferation. It is a homodimeric protein that belongs to the S100 protein family. The receptor for advanced glycation end products (RAGE) has been shown to play a role in the progression of various disease conditions, such as diabetes and immune/inflammatory disorders. Information regarding the association of RAGE with S100 proteins at a molecular level is useful to understand the diversity of the RAGE signaling pathways. In this report, biomolecular NMR techniques were utilized for the resonance assignment of the C3S mutation in human S100A6 and characterizing its interaction with the RAGE V domain. Further binding affinity between S100A6m and the RAGE V domain was determined by isothermal titration calorimetric studies. HADDOCK was used to generate a heterotetramer model of the S100A6m–RAGE V domain complex. This model provides an important insights into the S100–RAGE cellular signaling pathway.

Mohan, Sepuru K., E-mail: mohansepuri@gmail.com; Gupta, Arun A., E-mail: ninja14gupta@gmail.com; Yu, Chin, E-mail: cyu.nthu@gmail.com

2013-05-03T23:59:59.000Z

Note: This page contains sample records for the topic "bind deleted domain" 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

Smart Grid Conceptual Actors/Data Flow Diagram- Cross Domain...  

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

Smart Grid Conceptual ActorsData Flow Diagram- Cross Domain Network Focued- Open SGSG-Network TF Smart Grid Conceptual ActorsData Flow Diagram- Cross Domain Network Focued- Open...

182

Electrical signature of magnetic domain-wall dynamics  

E-Print Network [OSTI]

Current-induced domain-wall dynamics is studied in a thin ferromagnetic nanowire. The domain-wall dynamics is described by simple equations with four parameters. We propose a procedure to unambiguously determine these parameters by all...

Liu, Y.; Tretiakov, O. A.; Abanov, Artem.

2011-01-01T23:59:59.000Z

183

The Task Agent Resource Function application in UAV domain  

E-Print Network [OSTI]

The Task Agent Resource Function application in UAV domain Tan Viet Anh Truong Ecole National is to present an application of TARF (Task Agent Resource Function) in UAV domain. This TARF is used to optimize of a generic mission planner for cross domain such as UAV, maritime, automotive and manned aerial vehicle (MAV

Paris-Sud XI, Université de

184

Grammar-Based Testing using Realistic Domains in PHP  

E-Print Network [OSTI]

Grammar-Based Testing using Realistic Domains in PHP Ivan Enderlin, Fr´ed´eric Dadeau, Alain-based testing in PHP. It relies on the notion of realistic domains, that make it possible to assign domains to data, by means of contract assertions written inside the source code of a PHP application. Then a test

Paris-Sud XI, Université de

185

WELL-CENTERED OVERRINGS OF AN INTEGRAL DOMAIN  

E-Print Network [OSTI]

WELL-CENTERED OVERRINGS OF AN INTEGRAL DOMAIN William Heinzer Department of Mathematics, Purdue of A if and only if B is flat and well-centered over A. If the integral closure of A is a Krull domain in Theorem 3.6 that every finitely generated well-centered over- ring of an integrally closed domain is flat

Heinzer, William

186

The Description Logic ALCN HR+ Extended with Concrete Domains  

E-Print Network [OSTI]

The Description Logic ALCN HR+ Extended with Concrete Domains: A Practically Motivated Approach, role hierarchies, transitively closed roles, generalized concept inclusions, and concrete domains. As in other languages based on concrete domains (e.g. ALC(D)) a so-called ex- istential predicate restriction

Moeller, Ralf

187

Adapting Optimization Techniques to Description Logics with Concrete Domains  

E-Print Network [OSTI]

Adapting Optimization Techniques to Description Logics with Concrete Domains Anni-Yasmin Turhan backtracking and model merging can be adapted to description logics with concrete domains. We propose al) a new requirement for concrete domains in order to enable dependency directed backtracking for all clash

Haarslev, Volker

188

The Description Logic ALCNHR + Extended with Concrete Domains  

E-Print Network [OSTI]

The Description Logic ALCNHR + Extended with Concrete Domains: A Practically Motivated Approach restrictions, role hierarchies, transitively closed roles, generalized concept inclusions, and concrete domains. As in other languages based on concrete domains (e.g. ALC(D)) a so­called ex­ istential predicate restriction

Haarslev, Volker

189

Adapting Optimization Techniques to Description Logics with Concrete Domains  

E-Print Network [OSTI]

Adapting Optimization Techniques to Description Logics with Concrete Domains Anni­Yasmin Turhan backtracking and model merging can be adapted to description logics with concrete domains. We propose al) a new requirement for concrete domains in order to enable dependency directed backtracking for all clash

Haarslev, Volker

190

The Ligand Binding Domain of GCNF Is Not Required for Repression of Pluripotency Genes in Mouse Fetal Ovarian Germ Cells  

E-Print Network [OSTI]

In mice, successful development and reproduction require that all cells, including germ cells, transition from a pluripotent to a differentiated state. This transition is associated with silencing of the pluripotency genes ...

Okumura, Leah M.

191

An atomic resolution view of ICAM recognition in a complex between the binding domains of ICAM-3  

E-Print Network [OSTI]

Medical School, Boston, MA 02115; and Dana­Farber Cancer Institute, Department of Pediatrics. The mark- edly different off-rates of ICAM-1, -2, and -3 appear to be deter- mined by the hydrophobicity cell adhesion and lowering the activation threshold. In the absence of ICAM- 1 L 2 interaction, 100

Springer, Timothy A.

192

U-101: Mozilla Firefox / Thunderbird / SeaMonkey XBL Binding...  

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

101: Mozilla Firefox Thunderbird SeaMonkey XBL Binding Use-After-Free Vulnerability U-101: Mozilla Firefox Thunderbird SeaMonkey XBL Binding Use-After-Free Vulnerability...

193

acid binding proteins: Topics by E-print Network  

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

The adipocyte fatty acid-binding protein aP2 regulates systemic glucose (more) Shum, Bennett Oh Vic 2007-01-01 2 Fatty acid-binding protein in bovine skeletal muscle Texas A&M...

194

acid dopac binds: Topics by E-print Network  

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

The adipocyte fatty acid-binding protein aP2 regulates systemic glucose (more) Shum, Bennett Oh Vic 2007-01-01 2 Fatty acid-binding protein in bovine skeletal muscle Texas A&M...

195

Cross-domain Paraphrasing For Improving Language Modelling Using Out-of-domain Data  

E-Print Network [OSTI]

Cross-domain Paraphrasing For Improving Language Modelling Using Out-of-domain Data X. Liu, M. J. F. Gales & P. C. Woodland Cambridge University Engineering Dept, Trumpington St., Cambridge, CB2 1PZ U.K. Email: {xl207,mjfg... paraphrase word sequence and weighted by its posterior probability. For a particular n-gram predicting word w i follow- ing history h i , the associated statistics C(h i , w i ) are C(h i , w i ) = ? W ? P (W ? |W)C W ? (h i , w i ) (2) where C W ? (h i , w i...

Liu, X.; Gales, M. J. F.; Woodland, P. C.

2014-01-01T23:59:59.000Z

196

Prediction of the binding affinities of peptides to class II MHC using a ...  

E-Print Network [OSTI]

We introduce a new model for predicting binding affinities of peptides to ... peptide residues so that the total binding energy is a sum of the binding energies of.

andrew

2010-01-18T23:59:59.000Z

197

Membrane porters of ATP-binding cassette transport systems are polyphyletic  

E-Print Network [OSTI]

in Membrane porters of ATP-binding cassette transportin Membrane porters of ATP-binding cassette transportin Membrane porters of ATP-binding cassette transport

Wang, Bin

2010-01-01T23:59:59.000Z

198

Lattice gas simulations of replicating domains  

SciTech Connect (OSTI)

We use the lattice gas cellular automation (LGCA) developed to simulate a process of pattern-formation recently observed in reaction-diffusion systems. We study the reaction mechanism, which is an extension of the Selkov model for glycolytic oscillations. We are able to reproduce the self-replicating domains observed in this work. We use the LGCA simulation to estimate the smallest length-scale on which this process can occur under conditions encountered in the cell. These estimates are similar to those obtained for Turing patterns in the same setting.

Dawson, S.P.; Hasslacher, B.; Pearson, J.E.

1993-12-31T23:59:59.000Z

199

Dental optical coherence domain reflectometry explorer  

DOE Patents [OSTI]

A hand-held, fiber optic based dental device with optical coherence domain reflectometry (OCDR) sensing capabilities provides a profile of optical scattering as a function of depth in the tissue at the point where the tip of the dental explorer touches the tissue. This system provides information on the internal structure of the dental tissue, which is then used to detect caries and periodontal disease. A series of profiles of optical scattering or tissue microstructure are generated by moving the explorer across the tooth or other tissue. The profiles are combined to form a cross-sectional, or optical coherence tomography (OCT), image.

Everett, Matthew J. (Livermore, CA); Colston, Jr., Billy W. (Livermore, CA); Sathyam, Ujwal S. (Livermore, CA); Da Silva, Luiz B. (Pleasanton, CA)

2001-01-01T23:59:59.000Z

200

Tight Binding Hamiltonians and Quantum Turing Machines  

E-Print Network [OSTI]

This paper extends work done to date on quantum computation by associating potentials with different types of computation steps. Quantum Turing machine Hamiltonians, generalized to include potentials, correspond to sums over tight binding Hamiltonians each with a different potential distribution. Which distribution applies is determined by the initial state. An example, which enumerates the integers in succession as binary strings, is analyzed. It is seen that for some initial states the potential distributions have quasicrystalline properties and are similar to a substitution sequence.

Paul Benioff

1996-10-17T23:59:59.000Z

Note: This page contains sample records for the topic "bind deleted domain" 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

PATTERNS & PHENOTYPES ATP-Binding Cassette (ABC) Transporter  

E-Print Network [OSTI]

a PATTERNS & PHENOTYPES ATP-Binding Cassette (ABC) Transporter Expression and Localization in Sea Urchin Development Lauren E. Shipp and Amro Hamdoun* Background: ATP-binding cassette (ABC) transporters of polarized cells. Accepted 26 March 2012 INTRODUCTION ATP-binding cassette (ABC) trans- porters

202

Experimental study of exiton binding energy in semiconducting carbon nanotubes  

E-Print Network [OSTI]

Experimental study of exiton binding energy in semiconducting carbon nanotubes Nicolas Izard,1, 2 to the exciton binding energy of nanotubes. Electroabsorption is a powerfull technique which directly probe dimensional nanotube leads to strong electron-hole localiza- tion, with binding energy as high as 0.5 e

Maruyama, Shigeo

203

Deletions of SKY1 or PTK2 in the Saccharomyces cerevisiae trk1Dtrk2D mutant cells exert dual effect on ion homeostasis  

E-Print Network [OSTI]

that regulate ion transport across the plasma membrane of Saccharomyces cerevisiae. We show here that deletion to spermine and salt ions. A model that integrates these results to explain the mechanism of ion transport on ion homeostasis Omri Erez and Chaim Kahana* Department of Molecular Genetics, Weizmann Institute

Kahana, Chaim

204

Both common variations and rare non-synonymous substitutions and small insertion/deletions in CLU are associated with increased Alzheimer risk  

E-Print Network [OSTI]

insertion/deletions. A meta-analysis, combining the datasets of the 3 cohorts with published CLU sequencing data, confirmed that rare coding variations in the CLU ?-chain were significantly enriched in AD patients (ORMH = 1.96 [95% CI = 1.18-3.25]; p = 0...

Bettens, Karolien; Brouwers, Nathalie; Engelborghs, Sebastiaan; Lambert, Jean-Charles; Rogaeva, Ekaterina; Vandenberghe, Rik; Le Bastard, Nathalie; Pasquier, Florence; Vermeulen, Steven; Van Dongen, Jasper; Mattheijssens, Maria; Peeters, Karin; Mayeux, Richard; St George-Hyslop, Peter; Amouyel, Philippe; De Deyn, Peter P; Sleegers, Kristel; Van Broeckhoven, Christine

2012-01-16T23:59:59.000Z

205

ANDERSON-TEIXEIRA FINAL PROOF.DOCX (DO NOT DELETE) 3/7/2011 9:29 AM DO BIOFUELS LIFE CYCLE  

E-Print Network [OSTI]

ANDERSON-TEIXEIRA FINAL PROOF.DOCX (DO NOT DELETE) 3/7/2011 9:29 AM 589 DO BIOFUELS LIFE CYCLE ANALYSES ACCURATELY QUANTIFY THE CLIMATE IMPACTS OF BIOFUELS-RELATED LAND USE CHANGE? Kristina J. Anderson in determining the sustainability of biofuels. To ensure that legal standards are effective in limiting climate

DeLucia, Evan H.

206

Tight Binding Hamiltonians and Quantum Turing Machines  

SciTech Connect (OSTI)

This paper extends work done to date on quantum computation by association of potentials with different types of steps. Quantum Turing machine Hamiltonians, generalized to include potentials, correspond to sums over tight binding Hamiltonians each with a different potential distribution. Which distribution applies is determined by the initial state. An example, which enumerates the integers in succession as binary strings, is analyzed. It is seen that for some initial states, the potential distributions have quasicrystalline properties and are similar to a substitution sequence. {copyright} {ital 1997} {ital The American Physical Society}

Benioff, P. [Physics Division, Argonne National Laboratory, Argonne, Illinois 60439 (United States)] [Physics Division, Argonne National Laboratory, Argonne, Illinois 60439 (United States)

1997-01-01T23:59:59.000Z

207

Gene encoding herbicide safener binding protein  

DOE Patents [OSTI]

The cDNA encoding safener binding protein (SafBP), also referred to as SBP1, is set forth in FIG. 5 and SEQ ID No. 1. The deduced amino acid sequence is provided in FIG. 5 and SEQ ID No. 2. Methods of making and using SBP1 and SafBP to alter a plant's sensitivity to certain herbicides or a plant's responsiveness to certain safeners are also provided, as well as expression vectors, transgenic plants or other organisms transfected with said vectors and seeds from said plants.

Walton, Jonathan D. (East Lansing, MI); Scott-Craig, John S. (East Lansing, MI)

1999-01-01T23:59:59.000Z

208

Time-Domain Electromagnetics At Neal Hot Springs Geothermal Area...  

Open Energy Info (EERE)

Activity: Time-Domain Electromagnetics At Neal Hot Springs Geothermal Area (Colorado School of Mines and Imperial College London, 2011) Exploration Activity Details Location Neal...

209

Abstract Domains of Affine Relations MATT ELDER, University of Wisconsin  

E-Print Network [OSTI]

modulo 2w, for some machine-integer width w). We show that the abstract domains of M¨uller-Olm/Seidl (MOS

Reps, Thomas W.

210

Statistical and Domain Analytics Applied to PV Module Lifetime...  

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

Degradation Science Statistical and Domain Analytics Applied to PV Module Lifetime and Degradation Science Presented at the PV Module Reliability Workshop, February 26 - 27...

211

Enhancement of disoriented chiral condensate domains with friction  

E-Print Network [OSTI]

We investigate the effect of friction on domain formation in disoriented chiral condensate. Including a friction term, we solve the equation of motion of the linear sigma model fields, in the Hartree approximation. With boost-invariance and cylinderical symmetry, irrespective of friction, on average, we donot find any indication of domain like formation with quenched initial condition. However, with or without friction, some events can be found with large instabilities, indicating possible DCC domain formation in those events. With friction time scale during which instabilities grows increases. Correspondingly, with friction, it is possible to obtain large sized domains in some particular events.

A. K. Chaudhuri

1999-04-08T23:59:59.000Z

212

National Geothermal Data System (NGDS) Geothermal Data Domain...  

Open Energy Info (EERE)

Data System (NGDS) Geothermal Data Domain: Assessment of Geothermal Community Data Needs Abstract To satisfy the critical need for geothermal data to advance geothermal energy as...

213

Revisiting the domain model for lithium intercalated graphite  

SciTech Connect (OSTI)

In this Letter, we study the stability of the domain model for lithium intercalated graphite in stages III and II by means of Density Functional Theory and Kinetic Lattice Monte Carlo simulations. We find that the domain model is either thermodynamically or kinetically stable when compared to the standard model in stages III and II. The existence of domains in the intercalation sequence is well supported by recent high resolution transmission electron microscope observations in lithiated graphite. Moreover, we predict that such domain staging sequences leads to a wide range of diffusivity as reported in experiments.

Krishnan, Sridevi; Brenet, Gilles; Caliste, Damien; Genovese, Luigi; Deutsch, Thierry; Pochet, Pascal, E-mail: pascal.pochet@cea.fr [Laboratoire de Simulation Atomistique (L-Sim), SP2M, UMR-E CEA/UJF-Grenoble 1, INAC, Grenoble F-38054 (France)] [Laboratoire de Simulation Atomistique (L-Sim), SP2M, UMR-E CEA/UJF-Grenoble 1, INAC, Grenoble F-38054 (France); Machado-Charry, Eduardo [Laboratoire de Simulation Atomistique (L-Sim), SP2M, UMR-E CEA/UJF-Grenoble 1, INAC, Grenoble F-38054 (France) [Laboratoire de Simulation Atomistique (L-Sim), SP2M, UMR-E CEA/UJF-Grenoble 1, INAC, Grenoble F-38054 (France); Nanosciences Fondation, 23 rue des martyrs, 38000 Grenoble (France)

2013-12-16T23:59:59.000Z

214

apolipoprotein domain derived: Topics by E-print Network  

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

of humans and computers, domain spe- cific APIs contain a considerable amount Ratiu, Daniel 265 www.mdpi.comjournalijms Proteolytic Cleavage of Apolipoprotein E4 as the...

215

HIV evolution in early infection: selection pressures, patterns of insertion and deletion, and the impact of apobec  

SciTech Connect (OSTI)

The pattern of viral diversification in newly infected individuals provides information about the host environment and immune responses typically experienced by the newly transmitted virus. For example, sites that tend to evolve rapidly across multiple early-infection patients could be involved in enabling escape from common early immune responses, represent adaptation for rapid growth in a newly infected host, or reversion from less fit forms of the virus that were selected for immune escape in previous hosts. Here we investigated the diversification of HIV -I env coding sequences in 81 very early B SUbtype infections previously shown to have resulted from transmission or expansion of single viruses (n=78) or two closely related viruses (n=3). In these cases the sequence of the infecting virus can be estimated accurately, enabling inference of both the direction of substitutions as well as distinction between insertion and deletion events. By integrating information across multiple acutely infected hosts, we find evidence of adaptive evolution of HIV-1 envand identified a subset of codon sites that diversified more rapidly than can be explained by a model of neutral evolution. Of 24 such rapidly diversifying sites, 14 were either (i) clustered and embedded in CTL epitopes that were verified experimentally or predicted based on the individual's HLA or (ii) in a nucleotide context indicative of APOBEC mediated G-to-A substitutions, despite having excluded heavily hypermutated sequences prior to the analysis. In several cases, a rapidly evolving site was both embedded in an APOBEC motif and in a CTL epitope, suggesting that APOBEC may facilitate early immune escape. Ten rapidly diversifying sites could not be explained by CTL escape or APOBEC hypermutation, including the most frequently mutated site, in the fusion peptide of gp4l. We also examined the distribution, extent, and sequence context of insertions and deletions and provide evidence that the length variation seen in hypervariable loop regions of the envelope glycoprotein is a consequence of selection and not mutational hotspots. These results provide a detailed view of the process of diversification of HIV-1 following transmission.

Korber, Bette [Los Alamos National Laboratory; Bhattacharya, Tanmoy [Los Alamos National Laboratory; Giorgi, Elena [Los Alamos National Laboratory; Gaschen, B [Los Alamos National Laboratory; Daniels, M [Los Alamos National Laboratory

2009-01-01T23:59:59.000Z

216

A Rare Earth-DOTA-Binding Antibody: Probe Properties and Binding Affinity across the Lanthanide Series  

E-Print Network [OSTI]

of applications in chemistry, environmental science, and medicine because they can bind target molecules with high and Eu, and the nuclear properties of Lu and the group IIIB element Y. The chelating ligand DOTA (Figure of the lanthanide ion, the stability of the protein-ligand complex changes in a regular fashion. The effect

Fisher, Andrew J.

217

Hardware device to physical structure binding and authentication  

DOE Patents [OSTI]

Detection and deterrence of device tampering and subversion may be achieved by including a cryptographic fingerprint unit within a hardware device for authenticating a binding of the hardware device and a physical structure. The cryptographic fingerprint unit includes an internal physically unclonable function ("PUF") circuit disposed in or on the hardware device, which generate an internal PUF value. Binding logic is coupled to receive the internal PUF value, as well as an external PUF value associated with the physical structure, and generates a binding PUF value, which represents the binding of the hardware device and the physical structure. The cryptographic fingerprint unit also includes a cryptographic unit that uses the binding PUF value to allow a challenger to authenticate the binding.

Hamlet, Jason R.; Stein, David J.; Bauer, Todd M.

2013-08-20T23:59:59.000Z

218

Structure and Mutagenesis of the Parainfluenza Virus 5 Hemagglutinin-Neuraminidase Stalk Domain Reveals a Four-Helix Bundle and the Role of the Stalk in Fusion Promotion  

SciTech Connect (OSTI)

Paramyxovirus entry into cells requires the fusion protein (F) and a receptor binding protein (hemagglutinin-neuraminidase [HN], H, or G). The multifunctional HN protein of some paramyxoviruses, besides functioning as the receptor (sialic acid) binding protein (hemagglutinin activity) and the receptor-destroying protein (neuraminidase activity), enhances F activity, presumably by lowering the activation energy required for F to mediate fusion of viral and cellular membranes. Before or upon receptor binding by the HN globular head, F is believed to interact with the HN stalk. Unfortunately, until recently none of the receptor binding protein crystal structures have shown electron density for the stalk domain. Parainfluenza virus 5 (PIV5) HN exists as a noncovalent dimer-of-dimers on the surface of cells, linked by a single disulfide bond in the stalk. Here we present the crystal structure of the PIV5-HN stalk domain at a resolution of 2.65 {angstrom}, revealing a four-helix bundle (4HB) with an upper (N-terminal) straight region and a lower (C-terminal) supercoiled part. The hydrophobic core residues are a mix of an 11-mer repeat and a 3- to 4-heptad repeat. To functionally characterize the role of the HN stalk in F interactions and fusion, we designed mutants along the PIV5-HN stalk that are N-glycosylated to physically disrupt F-HN interactions. By extensive study of receptor binding, neuraminidase activity, oligomerization, and fusion-promoting functions of the mutant proteins, we found a correlation between the position of the N-glycosylation mutants on the stalk structure and their neuraminidase activities as well as their abilities to promote fusion.

Bose, Sayantan; Welch, Brett D.; Kors, Christopher A.; Yuan, Ping; Jardetzky, Theodore S.; Lamb, Robert A. (NWU); (Stanford-MED)

2014-10-02T23:59:59.000Z

219

Complexity of Dependencies in Bounded Domains, Armstrong Codes, and Generalizations  

E-Print Network [OSTI]

Complexity of Dependencies in Bounded Domains, Armstrong Codes, and Generalizations Yeow Meng Chee University, Singapore email: {ymchee, huizhang, xiandezhang}@ntu.edu.sg Abstract--The study of Armstrong systems, where attributes have bounded domains. A (q, k, n)-Armstrong code is a q-ary code of length n

Chee, Yeow Meng

220

Induction, Domains, Calculi: Strachey's Contributions to ProgrammingLanguage  

E-Print Network [OSTI]

Induction, Domains, Calculi: Strachey's Contributions to Programming­Language Engineering David A's contributions---inductive defini­ tion of semantics, semantic­domain definitions, and calculi for semantic description---are presented, and their consequences on languages research are described. Strachey's impact

Schmidt, David A.

Note: This page contains sample records for the topic "bind deleted domain" 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

Stripe Domain-Structures in a Thin Ferromagnetic Film  

E-Print Network [OSTI]

We present a theory of the stripe domain structure in a thin ferromagnetic film with single-ion easy-axis magnetic anisotropy and long-range dipole interactions, for a wide range of temperatures and applied magnetic field. The domains exist...

KASHUBA, AB; Pokrovsky, Valery L.

1993-01-01T23:59:59.000Z

222

Overcoming Dataset Bias: An Unsupervised Domain Adaptation Approach  

E-Print Network [OSTI]

Overcoming Dataset Bias: An Unsupervised Domain Adaptation Approach Boqing Gong Dept. of Computer that recognition datasets are biased. Paying no heed to those biases, learning algorithms often result in classifiers with poor cross- dataset generalization. We are developing domain adaptation techniques to over

Grauman, Kristen

223

ORIGINAL ARTICLE Single ferroelectric-domain photovoltaic switch based  

E-Print Network [OSTI]

ORIGINAL ARTICLE Single ferroelectric-domain photovoltaic switch based on lateral BiFeO3 cells Ji serves as a basis for solid-state memory. This phenomenon can also yield an interesting photovoltaic imposed by the ferroelectric polarization vectors. Here, we demonstrate a single-domain photovoltaic

Jo, Moon-Ho

224

Building DomainSpecific Search Engines with Machine Learning Techniques  

E-Print Network [OSTI]

.netpart.com lets the user search over company pages by hostname, company name, and location. ffl wwwBuilding Domain­Specific Search Engines with Machine Learning Techniques Andrew McCallum zy Science Carnegie Mellon University Pittsburgh, PA 15213 Abstract Domain­specific search engines

McCallum, Andrew

225

WELL-CENTERED OVERRINGS OF AN INTEGRAL DOMAIN  

E-Print Network [OSTI]

WELL-CENTERED OVERRINGS OF AN INTEGRAL DOMAIN is a localization of A if and only if B is flat and well-centered over A. If the integral clo* *sure.3 that a simple flat well-centered overring of an integral domain A is a localization of A. If the integral

Heinzer, William

226

Important Cognitive Components of Domain-Specific Search Knowledge  

E-Print Network [OSTI]

the subject-specific terms to enter in a query. For example, many university students often buy electronicImportant Cognitive Components of Domain-Specific Search Knowledge Suresh K. Bhavnani School Many users have acquired a sophisticated understanding of searching the Web in specific domains

Bhavnani, Suresh K.

227

LNG FEM: Graded Meshes on Domains of Polygonal Structures  

E-Print Network [OSTI]

LNG FEM: Graded Meshes on Domains of Polygonal Structures Hengguang Li and Victor Nistor Abstract. We develop LNG FEM, a software package for graded mesh generation and for solving elliptic equations. LNG FEM gen- erates user-specified graded meshes on arbitrary 2D domains with straight edges

Nistor, Victor

228

A certifying frontend for (sub)polyhedral abstract domains  

E-Print Network [OSTI]

of the overall abstract domain. The main contribution of the work described here is the design of the linkA certifying frontend for (sub)polyhedral abstract domains Alexis Fouilhe and Sylvain Boulmé Univ. Grenoble-Alpes, VERIMAG, F-38000 Grenoble, France {alexis.fouilhe,sylvain.boulme}@imag.fr Abstract. Convex

Paris-Sud XI, Université de

229

Domain-theoretic models of parametric polymorphism L. Birkedal  

E-Print Network [OSTI]

gives formal proof of solutions to a large class of recursive domain equations, which we explicate Copenhagen S, DENMARK, birkedal@itu.dk This work is sponsored by Danish Research Agency stipend no. 272 that such a calculus could serve as a very powerful metalanguage for domain theory in which one could also encode

Birkedal, Lars

230

NExpTime-complete Description Logics with Concrete Domains  

E-Print Network [OSTI]

NExpTime-complete Description Logics with Concrete Domains Carsten Lutz LuFG Theoretical Computer Science RWTH Aachen, Germany lutz@cs.rwth-aachen.de Abstract. Concrete domains are an extension \\concrete properties" of objects such as sizes, weights, and durations. It is known that reasoning with ALC

Baader, Franz

231

NExpTime-complete Description Logics with Concrete Domains  

E-Print Network [OSTI]

that reasoning with the concrete do- main D (i.e., testing the satis#12;ability of #12;nite conjunctionsChapter 1 NExpTime-complete Description Logics with Concrete Domains Carsten Lutz Abstract. Description Logics (DLs) incorporating concrete domains are useful formalisms for integrated reasoning about

Baader, Franz

232

Binding Energy of dş Transition Metals to Alkenes By Wave...  

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

Energy of dş Transition Metals to Alkenes By Wave Function Theory and Density Functional Theory. Binding Energy of dş Transition Metals to Alkenes By Wave Function Theory...

233

antigen papillomavirus binding: Topics by E-print Network  

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

specificity, the present set of studies undertook similar goals by Corradin; Jacques M. Chiller 1979-01-01 124 Human Erythrocytes Selectively Bind and Enrich Infectious HIV-1...

234

antigen binding repertoire: Topics by E-print Network  

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

specificity, the present set of studies undertook similar goals by Corradin; Jacques M. Chiller 1979-01-01 127 Human Erythrocytes Selectively Bind and Enrich Infectious HIV-1...

235

antigen binds phosphatase: Topics by E-print Network  

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

specificity, the present set of studies undertook similar goals by Corradin; Jacques M. Chiller 1979-01-01 139 Human Erythrocytes Selectively Bind and Enrich Infectious HIV-1...

236

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

237

acid binding protein: Topics by E-print Network  

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

Richardson, Charles C. 17 Acidic pH Changes Receptor Binding Specificity of Helicobacter pylori: a Binary Adhesion Model in which Surface Heat Shock (Stress) Proteins...

238

Crown Ethers in Graphene Bring Strong, Selective Binding | ornl...  

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

Materials Characterization Crown Ethers in Graphene Bring Strong, Selective Binding November 14, 2014 Schematic showing a graphene sheet containing an array of ideal crown ethers....

239

U-183: ISC BIND DNS Resource Records Handling Vulnerability  

Broader source: Energy.gov [DOE]

This problem was uncovered while testing with experimental DNS record types. It is possible to add records to BIND with null (zero length) rdata fields.

240

Correlation between fundamental binding forces and clinical prognosis...  

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

Atomic force microscopy was used to “fish” for binding reactions between a fibronectin-coated probe (i.e., substrate simulating an implant device) and each of 15...

Note: This page contains sample records for the topic "bind deleted domain" 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

Crown Ethers Flatten in Graphene for Strong, Specific Binding...  

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

SHARE Crown Ethers Flatten in Graphene for Strong, Specific Binding ORNL discovery holds potential for separations, sensors, batteries, biotech and more This sheet of graphene...

242

Domain wall QCD with physical quark masses  

E-Print Network [OSTI]

We present results for several light hadronic quantities ($f_\\pi$, $f_K$, $B_K$, $m_{ud}$, $m_s$, $t_0^{1/2}$, $w_0$) obtained from simulations of 2+1 flavor domain wall lattice QCD with large physical volumes and nearly-physical pion masses at two lattice spacings. We perform a short, O(3)%, extrapolation in pion mass to the physical values by combining our new data in a simultaneous chiral/continuum `global fit' with a number of other ensembles with heavier pion masses. We use the physical values of $m_\\pi$, $m_K$ and $m_\\Omega$ to determine the two quark masses and the scale - all other quantities are outputs from our simulations. We obtain results with sub-percent statistical errors and negligible chiral and finite-volume systematics for these light hadronic quantities, including: $f_\\pi$ = 130.2(9) MeV; $f_K$ = 155.5(8) MeV; the average up/down quark mass and strange quark mass in the $\\overline {\\rm MS}$ scheme at 3 GeV, 2.997(49) and 81.64(1.17) MeV respectively; and the neutral kaon mixing parameter, $B_K$, in the RGI scheme, 0.750(15) and the $\\overline{\\rm MS}$ scheme at 3 GeV, 0.530(11).

RBC; UKQCD collaborations; :; T. Blum; P. A. Boyle; N. H. Christ; J. Frison; N. Garron; R. J. Hudspith; T. Izubuchi; T. Janowski; C. Jung; A. Juettner; C. Kelly; R. D. Kenway; C. Lehner; M. Marinkovic; R. D. Mawhinney; G. McGlynn; D. J. Murphy; S. Ohta; A. Portelli; C. T. Sachrajda; A. Soni

2014-11-25T23:59:59.000Z

243

Catheter guided by optical coherence domain reflectometry  

DOE Patents [OSTI]

A guidance and viewing system based on multiplexed optical coherence domain reflectometry is incorporated into a catheter, endoscope, or other medical device to measure the location, thickness, and structure of the arterial walls or other intra-cavity regions at discrete points on the medical device during minimally invasive medical procedures. The information will be used both to guide the device through the body and to evaluate the tissue through which the device is being passed. Multiple optical fibers are situated along the circumference of the device. Light from the distal end of each fiber is directed onto the interior cavity walls via small diameter optics (such as gradient index lenses and mirrored corner cubes). Both forward viewing and side viewing fibers can be included. The light reflected or scattered from the cavity walls is then collected by the fibers and multiplexed at the proximal end to the sample arm of an optical low coherence reflectometer. The system may also be implemented in a nonmedical inspection device.

Everett, Matthew (Pleasanton, CA); Colston, Billy W. (Livermore, CA); Da Silva, Luiz B. (Danville, CA); Matthews, Dennis (Moss Beach, CA)

2002-01-01T23:59:59.000Z

244

Method and apparatus for detecting chemical binding  

DOE Patents [OSTI]

The method for screening binding between a target binder and potential pharmaceutical chemicals involves sending a solution (preferably an aqueous solution) of the target binder through a conduit to a size exclusion filter, the target binder being too large to pass through the size exclusion filter, and then sending a solution of one or more potential pharmaceutical chemicals (preferably an aqueous solution) through the same conduit to the size exclusion filter after target binder has collected on the filter. The potential pharmaceutical chemicals are small enough to pass through the filter. Afterwards, x-rays are sent from an x-ray source to the size exclusion filter, and if the potential pharmaceutical chemicals form a complex with the target binder, the complex produces an x-ray fluorescence signal having an intensity that indicates that a complex has formed.

Warner, Benjamin P. (Los Alamos, NM); Havrilla, George J. (Los Alamos, NM); Miller, Thomasin C. (Los Alamos, NM); Wells, Cyndi A. (Los Alamos, NM)

2007-07-10T23:59:59.000Z

245

Neptunium Binding Kinetics with Arsenazo(III)  

SciTech Connect (OSTI)

This document has been prepared to meet FCR&D level 2 milestone M2FT-14IN0304021, “Report on the results of actinide binding kinetics with aqueous phase complexants” This work was carried out under the auspices of the Thermodynamics and Kinetics of Advanced Separations Systems FCR&D work package. The report details kinetics experiments that were performed to measure rates of aqueous phase complexation for pentavalent neptunium with the chromotropic dye Arsenazo III (AAIII). The studies performed were designed to determine how pH, ionic strength and AAIII concentration may affect the rate of the reaction. A brief comparison with hexavalent neptunium is also made. It was identified that as pH was increased the rate of reaction also increased, however increasing the ionic strength and concentration of AAIII had the opposite effect. Interestingly, the rate of reaction of Np(VI) with AAIII was found to be slower than that of the Np(V) reaction.

Leigh R. Martin; Aaron T. Johnson; Stephen P. Mezyk

2014-08-01T23:59:59.000Z

246

Triton binding energy with realistic precision  

E-Print Network [OSTI]

We compute the binding energy of triton with realistic statistical errors stemming from NN scattering data uncertainties and the deuteron and obtain $E_t=-7.638(15) \\, {\\rm MeV}$. Setting the numerical precision as $\\Delta E_t^{\\rm num} \\lesssim 1 \\, {\\rm keV}$ we obtain the statistical error $\\Delta E_t^{\\rm stat}= 15(1) \\, {\\rm keV}$ which is mainly determined by the channels involving relative S-waves. This figure reflects the uncertainty of the input NN data, more than two orders of magnitude larger than the experimental precision $\\Delta E_t^{\\rm exp}= 0.1 \\, {\\rm keV}$ and provides a bottleneck in the realistic precision that can be reached. This suggests an important reduction in the numerical precision and hence in the computational effort.

R. Navarro Perez; E. Garrido; J. E. Amaro; E. Ruiz Arriola

2014-07-29T23:59:59.000Z

247

Distal 8p deletion (8) (p23.1): An easily missed chromosomal abnormality that may be associated with congenital heart defect and mental retardation  

SciTech Connect (OSTI)

We describe the clinical manifestations and molecular cytogenetic analyses of three patients with a similar distal deletion of chromosome 8. Each child had mild developmental delay and subtle minor anomalies. Two had cardiac anomalies but no other major congenital anomalies were present. High resolution G and R banding showed in all three patients del(8)(p23.1), but the breakpoint in case 1 was distal to 8p23.1, in case 2 was in the middle of 8p23.1, and in case 3 proximal to 8p23.1. Fluorescence in situ hybridization (FISH) studies with a chromosome 8 paint probe confirmed that no other rearrangement had occurred. FISH with a chromosome 8-specific telomere probe indicated that two patients had terminal deletions. Chromosome analysis of the parents of case 1 and mother of case 2 were normal; the remaining parents were not available for study. Thirteen individual patients including the three in this study, and three relatives in one family with del(8)(p23.1), have been reported in the past 5 years. Major congenital anomalies, especially congenital heart defects, are most often associated with a breakpoint proximal to 8p23.1. Three patients were found within a 3-year period in this study and five cases were found within 4 years by another group, indicating that distal 8p deletion might be a relatively common chromosomal abnormality. This small deletion is easily overlooked (i.e., cases 1 and 2 were reported as normal at amniocentesis) and can be associated with few or no major congenital anomalies. 31 refs., 4 figs., 2 tabs.

Wu, Bai-Lin; Schneider, G.H.; Sabatino, D.E. [Harvard Medical School, Boston, MA (United States)] [and others] [Harvard Medical School, Boston, MA (United States); and others

1996-03-01T23:59:59.000Z

248

Engineering Deletions in the Mg1-Pk1 Gene Cluster of Streptomyces sp. Mg1 to Abolish Production of the Mg1-Pk1 Metabolite  

E-Print Network [OSTI]

and inserted into the mass spectrometer. The spectrometer is programmed to collect spectra at predefined points in an x-y grid across the sample. The spectra can then be used to construct colorized images.3 Some metabolites, such as chalcomycin produced... ENGINEERING DELETIONS IN THE MG1-PK1 GENE CLUSTER OF STREPTOMYCES sp. MG1 TO ABOLISH PRODUCTION OF THE MG1- PK1 METABOLITE An Undergraduate Research Scholars Thesis by SABRINA MOISAN Submitted to Honors and Undergraduate Research...

Moisan, Sabrina

2013-09-25T23:59:59.000Z

249

The mitochondrial ND1 m.3337G>A mutation associated to multiple mitochondrial DNA deletions in a patient with Wolfram syndrome and cardiomyopathy  

SciTech Connect (OSTI)

Highlights: {yields} We reported a patient with Wolfram syndrome and dilated cardiomyopathy. {yields} We detected the ND1 mitochondrial m.3337G>A mutation in 3 tested tissues (blood leukocytes, buccal mucosa and skeletal muscle). {yields} Long-range PCR amplification revealed the presence of multiple mitochondrial deletions in the skeletal muscle. {yields} The deletions remove several tRNA and protein-coding genes. -- Abstract: Wolfram syndrome (WFS) is a rare hereditary disorder also known as DIDMOAD (diabetes insipidus, diabetes mellitus, optic atrophy, and deafness). It is a heterogeneous disease and full characterization of all clinical and biological features of this disorder is difficult. The wide spectrum of clinical expression, affecting several organs and tissues, and the similarity in phenotype between patients with Wolfram syndrome and those with certain types of respiratory chain diseases suggests mitochondrial DNA (mtDNA) involvement in Wolfram syndrome patients. We report a Tunisian patient with clinical features of moderate Wolfram syndrome including diabetes, dilated cardiomyopathy and neurological complications. The results showed the presence of the mitochondrial ND1 m.3337G>A mutation in almost homoplasmic form in 3 tested tissues of the proband (blood leukocytes, buccal mucosa and skeletal muscle). In addition, the long-range PCR amplifications revealed the presence of multiple deletions of the mitochondrial DNA extracted from the patient's skeletal muscle removing several tRNA and protein-coding genes. Our study reported a Tunisian patient with clinical features of moderate Wolfram syndrome associated with cardiomyopathy, in whom we detected the ND1 m.3337G>A mutation with mitochondrial multiple deletions.

Mezghani, Najla [Laboratoire de Genetique Moleculaire Humaine, Faculte de Medecine de Sfax, Universite de Sfax (Tunisia)] [Laboratoire de Genetique Moleculaire Humaine, Faculte de Medecine de Sfax, Universite de Sfax (Tunisia); Mnif, Mouna [Service d'endocrinologie, C.H.U. Habib Bourguiba de Sfax (Tunisia)] [Service d'endocrinologie, C.H.U. Habib Bourguiba de Sfax (Tunisia); Mkaouar-Rebai, Emna, E-mail: emna_mkaouar@mail2world.com [Laboratoire de Genetique Moleculaire Humaine, Faculte de Medecine de Sfax, Universite de Sfax (Tunisia)] [Laboratoire de Genetique Moleculaire Humaine, Faculte de Medecine de Sfax, Universite de Sfax (Tunisia); Kallel, Nozha [Service d'endocrinologie, C.H.U. Habib Bourguiba de Sfax (Tunisia)] [Service d'endocrinologie, C.H.U. Habib Bourguiba de Sfax (Tunisia); Salem, Ikhlass Haj [Laboratoire de Genetique Moleculaire Humaine, Faculte de Medecine de Sfax, Universite de Sfax (Tunisia)] [Laboratoire de Genetique Moleculaire Humaine, Faculte de Medecine de Sfax, Universite de Sfax (Tunisia); Charfi, Nadia; Abid, Mohamed [Service d'endocrinologie, C.H.U. Habib Bourguiba de Sfax (Tunisia)] [Service d'endocrinologie, C.H.U. Habib Bourguiba de Sfax (Tunisia); Fakhfakh, Faiza [Laboratoire de Genetique Moleculaire Humaine, Faculte de Medecine de Sfax, Universite de Sfax (Tunisia)] [Laboratoire de Genetique Moleculaire Humaine, Faculte de Medecine de Sfax, Universite de Sfax (Tunisia)

2011-07-29T23:59:59.000Z

250

Protein Oligomerization Through Domain Swapping: Role of Inter-molecular Interactions and  

E-Print Network [OSTI]

show that prevention of domain swapping inhibits amyloid fibrils by 80%,11 and strongly support the idea that domain swapping has an important role in fibril formation. Domain swapping is a term used found to form domain-swapped configurations, such as the human prion,12,13 the SH3 domain,14,15 p13suc1

Yang, Sichun

251

Cadmium binding studies to the earthworm Lumbricus rubellus metallothionein by electrospray mass spectrometry and circular dichroism spectroscopy  

SciTech Connect (OSTI)

The earthworm Lumbricus rubellus has been found to inhabit cadmium-rich soils and accumulate cadmium within its tissues. Two metallothionein (MT) isoforms (1 and 2) have been identified and cloned from L. rubellus. In this study, we address the metalation status, metal coordination, and structure of recombinant MT-2 from L. rubellus using electrospray ionization mass spectrometry (ESI-MS), UV absorption, and circular dichroism (CD) spectroscopy. This is the first study to show the detailed mass and CD spectral properties for the important cadmium-containing earthworm MT. We report that the 20-cysteine L. rubellus MT-2 binds seven Cd{sup 2+} ions. UV absorption and CD spectroscopy and ESI-MS pH titrations show a distinct biphasic demetalation reaction, which we propose results from the presence of two metal-thiolate binding domains. We propose stoichiometries of Cd{sub 3}Cys{sub 9} and Cd{sub 4}Cys{sub 11} based on the presence of 20 cysteines split into two isolated regions of the sequence with 11 cysteines in the N-terminal and 9 cysteines in the C-terminal. The CD spectrum reported is distinctly different from any other metallothionein known suggesting quite different binding site structure for the peptide.

Ngu, Thanh T. [Department of Chemistry, University of Western Ontario, London, Ont., N6A 5B7 (Canada); Sturzenbaum, Stephen R. [School of Biomedical and Health Sciences, King's College, London, SE1 9NH (United Kingdom); Stillman, Martin J. [Department of Chemistry, University of Western Ontario, London, Ont., N6A 5B7 (Canada)]. E-mail: Martin.Stillman@uwo.ca

2006-12-08T23:59:59.000Z

252

Molecular Mechanisms of Calcium and Magnesium Binding to Parvalbumin  

E-Print Network [OSTI]

between the coordinating residues of the EF-hand calcium binding loop of parvalbumin and the overallMolecular Mechanisms of Calcium and Magnesium Binding to Parvalbumin M. Susan Cates, Miguel L at EF loop position 12 results in a dramatically less tightly bound monodentate Ca2 coordination

Phillips, George N. Jr.

253

Binding of Nucleobases with Single-Walled Carbon Nanotubes  

E-Print Network [OSTI]

We have calculated the binding energy of various nucleobases (guanine (G), adenine (A), thymine (T) and cytosine (C)) with (5,5) single-walled carbon nanotubes (SWNTs) using ab-initio Hartre-Fock method (HF) together with force field calculations. The gas phase binding energies follow the sequence G $>$ A $>$ T $>$ C. We show that main contribution to binding energy comes from van-der Wall (vdW) interaction between nanotube and nucleobases. We compare these results with the interaction of nucleobases with graphene. We show that the binding energy of bases with SWNTs is much lower than the graphene but the sequence remains same. When we include the effect of solvation energy (Poisson-Boltzman (PB) solver at HF level), the binding energy follow the sequence G $>$ T $>$ A $>$ C $>$, which explains the experiment\\cite{zheng} that oligonucleotides made of thymine bases are more effective in dispersing the SWNT in aqueous solution as compared to poly (A) and poly (C). We also demonstrate experimentally that there is differential binding affinity of nucleobases with the single-walled carbon nanotubes (SWNTs) by directly measuring the binding strength using isothermal titration (micro) calorimetry. The binding sequence of the nucleobases varies as thymine (T) $>$ adenine (A) $>$ cytosine (C), in agreement with our calculation.

Anindya Das; A. K. Sood; Prabal K. Maiti; Mili Das; R. Varadarajan; C. N. R. Rao

2007-09-19T23:59:59.000Z

254

news and views nucleotide binds to the polymerase and  

E-Print Network [OSTI]

news and views nucleotide binds to the polymerase and before it is incorporated into DNA. Recent structures of several structurally diverse DNA polymerases complexed to DNA and nucleotide substrates have shown that their active sites adopt a closed conforma- tion upon binding to the correct nucleotide12

Schedl, Paul

255

Unexpected Nondissociative Binding of N2O on Oxygen Vacancies...  

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

Nondissociative Binding of N2O on Oxygen Vacancies on a Rutile TiO2(110)-1×1 . Unexpected Nondissociative Binding of N2O on Oxygen Vacancies on a Rutile TiO2(110)-1×1 ....

256

Hydrogen Bonding Penalty upon Ligand Binding Hongtao Zhao, Danzhi Huang*  

E-Print Network [OSTI]

Hydrogen Bonding Penalty upon Ligand Binding Hongtao Zhao, Danzhi Huang* Department of Biochemistry, University of Zurich, Zurich, Switzerland Abstract Ligand binding involves breakage of hydrogen bonds with water molecules and formation of new hydrogen bonds between protein and ligand. In this work, the change

Caflisch, Amedeo

257

Apo calmodulin binding to the L-type voltage-gated calcium channel Ca{sub v}1.2 IQ peptide  

SciTech Connect (OSTI)

The influx of calcium through the L-type voltage-gated calcium channels (LTCCs) is the trigger for the process of calcium-induced calcium release (CICR) from the sarcoplasmic recticulum, an essential step for cardiac contraction. There are two feedback mechanisms that regulate LTCC activity: calcium-dependent inactivation (CDI) and calcium-dependent facilitation (CDF), both of which are mediated by calmodulin (CaM) binding. The IQ domain (aa 1645-1668) housed within the cytoplasmic domain of the LTCC Ca{sub v}1.2 subunit has been shown to bind both calcium-loaded (Ca{sup 2+}CaM ) and calcium-free CaM (apoCaM). Here, we provide new data for the structural basis for the interaction of apoCaM with the IQ peptide using NMR, revealing that the apoCaM C-lobe residues are most significantly perturbed upon complex formation. In addition, we have employed transmission electron microscopy of purified LTCC complexes which shows that both apoCaM and Ca{sup 2+}CaM can bind to the intact channel.

Lian Luyun [School of Biological Sciences, University of Liverpool, P.O. Box 147, Liverpool L69 7ZB (United Kingdom)]. E-mail: lu-yun.lian@liverpool.ac.uk; Myatt, Daniel [School of Medicine, Cardiovascular and Endocrine Sciences, University of Manchester, Manchester M13 9NT (United Kingdom); Kitmitto, Ashraf [School of Medicine, Cardiovascular and Endocrine Sciences, University of Manchester, Manchester M13 9NT (United Kingdom)]. E-mail: ashraf.kitmitto@manchester.ac.uk

2007-02-16T23:59:59.000Z

258

Domain wall induced magnetoresistance in a superconductor/ferromagnet nanowire  

E-Print Network [OSTI]

In a nanowire consisting of a ferromagnet/insulator/superconductor multilayer structure, the superconductivity is shown to depend strongly on the configuration of the magnetic domain walls in the neighboring ferromagnetic ...

Miao, G. X.

259

The Observation of Highly Ordered Domains in Membranes with Cholesterol  

SciTech Connect (OSTI)

Rafts, or functional domains, are transient nano- or mesoscopic structures in the exoplasmic leaflet of the plasma membrane, and are thought to be essential for many cellular processes. Using neutron diffraction and computer modelling, we present evidence for the existence of highly ordered lipid domains in the cholesterol-rich (32.5 mol%) liquid-ordered (lo) phase of dipalmitoylphosphatidylcholine membranes. The liquid ordered phase in one-component lipid membranes has previously been thought to be a homogeneous phase. The presence of highly ordered lipid domains embedded in a disordered lipid matrix implies non-uniform distribution of cholesterol between the two phases. The experimental results are in excellent agreement with recent computer simulations of DPPC/cholesterol complexes [Meinhardt, Vink and Schmid (2013). Proc Natl Acad Sci USA 110(12): 4476 4481], which reported the existence of nanometer size lo domains in a liquid disordered lipid environment.

Armstrong, Clare L [McMaster University; Marquardt, Drew [Brock University, St. Catharines, ON, Canada; Dies, Hannah [McMaster University; Kucerka, Norbert [Canadian Neutron Beam Centre and Comelius University (Slovakia); Yamani, Zahra [Canadian Neutron Beam Centre, National Research Council, Chalk River Laboratorie; Harroun, Thad [Brock University, St. Catharines, ON, Canada; Katsaras, John [ORNL; Shi, A-C [McMaster University; Rheinstadter, Maikel C [McMaster University

2013-01-01T23:59:59.000Z

260

A multi-domain process design and improvement framework  

E-Print Network [OSTI]

Processes in manufacturing, services, and healthcare are complex socio-technical systems composed of intricately sequenced activities supported by elements drawn from multiple domains. While many of these processes offer ...

Nicol, Robert A. (Robert Arthur), 1969-

2010-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "bind deleted domain" 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

Structural and Functional Characterization of DUF1471 Domains...  

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

function (DUF1471) from a family of conserved proteins also known as YhcN or BhsAMcbA. Proteins containing DUF1471 may have a single or three copies of this domain....

262

Apron: A Library of Numerical Abstract Domains for Static Analysis  

E-Print Network [OSTI]

Polka convex polyhedra linear equalities PPL + Wrapper convex polyhedra linear congruences Abstraction toolbox- mensions in vector spaces. Nevertheless, the domains implemented in the PPL can be interfaced to Apron

Miné, Antoine

263

Scaling reinforcement learning to the unconstrained multi-agent domain  

E-Print Network [OSTI]

policies over continuous action spaces, which can reduce problem complexity for domains that require continuous action spaces (analog controllers) by eliminating the need to finely discretize the action space. Finally, we look at ways to perform...

Palmer, Victor

2009-06-02T23:59:59.000Z

264

Understanding Domain Registration Abuses Scott E. Coull1  

E-Print Network [OSTI]

Understanding Domain Registration Abuses Scott E. Coull1 , Andrew M. White1 , Ting-Fang Yen2. Varadharajan, and C. Weber (Eds.): SEC 2010, IFIP AICT 330, pp. 68­79, 2010. c IFIP International Federation

Reiter, Michael

265

Understanding Domain Registration Abuses Scott E. Coull1  

E-Print Network [OSTI]

Understanding Domain Registration Abuses Scott E. Coull1 , Andrew M. White1 , Ting-Fang Yen2 (Ed.) (2012) 68-79" DOI : 10.1007/978-3-642-15257-3_7 #12;security problem underlying these behaviors

Boyer, Edmond

266

Lipschitz continuity of the Green function in Denjoy domains  

E-Print Network [OSTI]

Lipschitz continuity of the Green function in Denjoy domains Tom Carroll and Stephen J Gardiner of the harmonic 2000 Mathematics Subject Classification. Primary 31B25; 31C35. 1 #12;2 TOM CARROLL AND STEPHEN J

Carroll, Tom

267

A time and frequency domain analysis of contrarian trading strategies/  

E-Print Network [OSTI]

This thesis applies time and frequency domain analyses to a high-frequency market making strategy to study the profitability of liquidity provision over multiple time horizons from 1964 to 2013. Using daily returns and ...

Chaudhuri, Shomesh E

2014-01-01T23:59:59.000Z

268

antiferromagnetic domain fluctuations: Topics by E-print Network  

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

to the order parameter characterizing this process. R. Botet; M. Ploszajczak; A. Chbihi; B. Borderie; D. Durand; J. Frankland 2001-01-30 22 Time-Domain Detection of Weakly Coupled...

269

Dynein Motor Domain Shows Ring-Shaped Motor, Buttress  

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

Dynein Motor Domain Shows Ring-Shaped Motor, Buttress Print Movement is fundamental to life. It takes place even at the cellular level where cargo is continually being transported...

270

Status Report on Protected Domains for Cyber Infrastructure Management  

E-Print Network [OSTI]

through the use of distributed, highly secure, protected domains. Instead of creating a costly physically, Network Security, Information Assurance 1 Introduction Currently, our national cyber infrastructure to the President for Cyber Space Security and Chairman, President's Critical Infrastructure Protection Board

Irvine, Cynthia E.

271

Log-domain circuit models of chemical reactions  

E-Print Network [OSTI]

We exploit the detailed similarities between electronics and chemistry to develop efficient, scalable bipolar or subthreshold log-domain circuits that are dynamically equivalent to networks of chemical reactions. Our ...

Mandal, Soumyajit

272

Domain-specific Web Service Discovery with Service Class Descriptions  

SciTech Connect (OSTI)

This paper presents DynaBot, a domain-specific web service discovery system. The core idea of the DynaBot service discovery system is to use domain-specific service class descriptions powered by an intelligent Deep Web crawler. In contrast to current registry-based service discovery systems--like the several available UDDI registries--DynaBot promotes focused crawling of the Deep Web of services and discovers candidate services that are relevant to the domain of interest. It uses intelligent filtering algorithms to match services found by focused crawling with the domain-specific service class descriptions. We demonstrate the capability of DynaBot through the BLAST service discovery scenario and describe our initial experience with DynaBot.

Rocco, D; Caverlee, J; Liu, L; Critchlow, T J

2005-02-14T23:59:59.000Z

273

Critical Ising interfaces in multiply-connected domains  

E-Print Network [OSTI]

We prove a general result on convergence of interfaces in the critical planar Ising model to conformally invariant curves absolutely continuous with respect to SLE(3). Our setup includes multiple interfaces on arbitrary finitely connected domains, and we also treat the radial SLE case. In the case of simply and doubly connected domains, the limiting processes are described explicitly in terms of rational and elliptic functions, respectively.

Konstantin Izyurov

2015-03-13T23:59:59.000Z

274

A multilevel preconditioner for domain decomposition boundary systems  

SciTech Connect (OSTI)

In this note, we consider multilevel preconditioning of the reduced boundary systems which arise in non-overlapping domain decomposition methods. It will be shown that the resulting preconditioned systems have condition numbers which be bounded in the case of multilevel spaces on the whole domain and grow at most proportional to the number of levels in the case of multilevel boundary spaces without multilevel extensions into the interior.

Bramble, J.H.; Pasciak, J.E.; Xu, Jinchao.

1991-12-11T23:59:59.000Z

275

Baryon Binding Energy in Sakai-Sugimoto Model  

E-Print Network [OSTI]

The binding energy of baryon has been studied in the dual $AdS_5\\times S^5$ string theory with a black hole interior. In this picture baryon is constructed of a $D_5$ brane vertex wrapping on $S^5$ and $N_c$ fundamental strings connected to it. Here, we calculate the baryon binding energy in Sakai-Sugimoto model with a $D_4/D_8/\\bar{D_8}$ in which the supersymmetry is completely broken. Also we check the $T$ dependence of the baryon binding energy. We believe that this model represents an accurate description of baryons due to the existence of Chern-Simones coupling with the gauge field on the brane. We obtain an analytical expression for the baryon binding energy . In that case we plot the baryon binding energy in terms of radial coordinate. Then by using the binding energy diagram, we determine the stability range for baryon configuration. And also the position and energy of the stable equilibrium point is obtained by the corresponding diagram. Also we plot the baryon binding energy in terms of temperature and estimate a critical temperature in which the baryon would be dissociated.

J. Sadeghi; M. R. Pahlavani; S. Heshmatian; R. Morad

2009-10-20T23:59:59.000Z

276

Can adding oil control domain formation in binary amphiphile bilayers?  

E-Print Network [OSTI]

Bilayers formed of two species of amphiphile of different chain lengths may segregate into thinner and thicker domains composed predominantly of the respective species. Using a coarse-grained mean-field model, we investigate how mixing oil with the amphiphiles affects the structure and thickness of the bilayer at and on either side of the boundary between two neighbouring domains. In particular, we find that oil molecules whose chain length is close to that of the shorter amphiphiles segregate to the thicker domain. This smooths the surface of the hydrophobic bilayer core on this side of the boundary, reducing its area and curvature and their associated free-energy penalties. The smoothing effect is weaker for oil molecules that are shorter or longer than this optimum value: short molecules spread evenly through the bilayer, while long molecules swell the thicker domain, increasing the surface area and curvature of the bilayer core in the interfacial region. Our results show that adding an appropriate oil could make the formation of domain boundaries more or less favourable, raising the possibility of controlling the domain size distribution.

M. J. Greenall; C. M. Marques

2014-06-12T23:59:59.000Z

277

E-Print Network 3.0 - associating transmembrane domains Sample...  

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

transmembrane domains Search Powered by Explorit Topic List Advanced Search Sample search results for: associating transmembrane domains Page: << < 1 2 3 4 5 > >> 1 SUPPLEMENTARY...

278

XAS and Pulsed EPR Studies of the Copper Binding Site in Riboflavin Binding Protein  

SciTech Connect (OSTI)

Riboflavin Binding Protein (RBP) binds copper in a 1:1 molar ratio, forming a distinct well-ordered type II site. The nature of this site has been examined using X-ray absorption and pulsed electron paramagnetic resonance (EPR) spectroscopies, revealing a four coordinate oxygen/nitrogen rich environment. On the basis of analysis of the Cambridge Structural Database, the average protein bound copper-ligand bond length of 1.96 Angstroms, obtained by extended x-ray absorption fine structure (EXAFS), is consistent with four coordinate Cu(I) and Cu(II) models that utilize mixed oxygen and nitrogen ligand distributions. These data suggest a CuO3N coordination state for copper bound to RBP. While pulsed EPR studies including hyperfine sublevel correlation spectroscopy and electron nuclear double resonance show clear spectroscopic evidence for a histidine bound to the copper, inclusion of a histidine in the EXAFS simulation did not lead to any significant improvement in the fit.

Smith,S.; Bencze, K.; Wasiukanis, K.; Benore-Parsons, T.; Stemmler, T.

2008-01-01T23:59:59.000Z

279

The distal 8p deletion (8)(p23.1): A common syndrome associated with cogenital heart defect and mental retardation?  

SciTech Connect (OSTI)

We describe the clinical manifestations and molecular cytogenetic analysis of three patients with a similar distal deletion: del(8)(p23.1). Case 1: A nine-year-old girl who was the product of a normal pregnancy, with family history of recurrent miscarriages. She has an ASD, development delay and dysmorphic features. Case 2: A three-month-old female who died with a hypoplastic left heart and dysmorphic features. Her non-identical twin sister is healthy. No further family history is available. Case 3: A four-year-old boy who was the product of a normal pregnancy with family history of mental retardation. He has bifid uvula, delayed speech and language, and no major malformations or dysmorphic features. High resolution G and R banding revealed in all three patients del(8)(p23.1), but the breakpoint for case 1 and 2 was proximal to 8p23.1 and for case 3 distal to 8p23.1. FISH studies with a chromosome 8 paint probe confirmed that no other rearrangement was involved. Chromosome analysis of the parents of case 3 and mother of case 1 were normal; the remaining parents were not available for study. Eight individual patients and three members in one family with del(8)(p23.1) have been reported in the past five years. Major congenital anomalies, especially congenital heart defect, is most often associated with a breakpoint proximal to 8p23.1 Three patients were detected within a three year period in this study and five cases were found within a four year period by another group, suggesting that the distal 8p deletion may be a relatively common syndrome. This small deletion is easily overlooked (i.e. case 1 and 3 were reported as normal at amniocentesis) and can be associated with few or no major congenital anomalies.

Wu, B.L.; Schneider, G.H.; Sabatino, D.E. [Harvard Medical School, Boston, MA (United States)] [and others

1994-09-01T23:59:59.000Z

280

E-Print Network 3.0 - altered lectin-binding sites Sample Search...  

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

Fluorescent microscopy of lectin binding: Untreated exoskeleton... microscope with an Optronics cooled CCD camera) to determine if lectin binding had occurred. Statistical......

Note: This page contains sample records for the topic "bind deleted domain" 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

E-Print Network 3.0 - alix binding requirements Sample Search...  

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

alix binding requirements Search Powered by Explorit Topic List Advanced Search Sample search results for: alix binding requirements Page: << < 1 2 3 4 5 > >> 1 3025Commentary...

282

Membrane Porters of ATP-Binding Cassette Transport Systems Are Polyphyletic  

E-Print Network [OSTI]

REVIEW Membrane Porters of ATP-Binding Cassette Transportat Springerlink.com Abstract The ATP-binding cassette (ABC)classi?ed according to the ATP hydrolyzing constituents,

Wang, Bin; Dukarevich, Maxim; Sun, Eric I.; Yen, Ming Ren; Saier, Milton H.

2009-01-01T23:59:59.000Z

283

E-Print Network 3.0 - affect stability binding Sample Search...  

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

stability binding Search Powered by Explorit Topic List Advanced Search Sample search results for: affect stability binding Page: << < 1 2 3 4 5 > >> 1 Chemistry Department 2011...

284

E-Print Network 3.0 - active maltose-binding fusion Sample Search...  

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

a Summary: . Keywords: Fusion protein; inclusion bodies; maltose-binding protein; protein folding; solubility; aggre... - gation Escherichia coli maltose-binding protein (MBP) is...

285

E-Print Network 3.0 - adhesive binding mechanism Sample Search...  

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

binding mechanism Page: << < 1 2 3 4 5 > >> 1 IOWA STATE UNIVERSITY DEPARTMENT OF MECHANICAL ENGINEERING Summary: in metastatic cancers. Adhesion is initiated by the binding of...

286

Structure of a Glomulin-RBX1-CUL1 Complex: Inhibition of a RING E3 Ligase through Masking of Its E2-Binding Surface  

SciTech Connect (OSTI)

The approximately 300 human cullin-RING ligases (CRLs) are multisubunit E3s in which a RING protein, either RBX1 or RBX2, recruits an E2 to catalyze ubiquitination. RBX1-containing CRLs also can bind Glomulin (GLMN), which binds RBX1's RING domain, regulates the RBX1-CUL1-containing SCF{sup FBW7} complex, and is disrupted in the disease Glomuvenous Malformation. Here we report the crystal structure of a complex between GLMN, RBX1, and a fragment of CUL1. Structural and biochemical analyses reveal that GLMN adopts a HEAT-like repeat fold that tightly binds the E2-interacting surface of RBX1, inhibiting CRL-mediated chain formation by the E2 CDC34. The structure explains the basis for GLMN's selectivity toward RBX1 over RBX2, and how disease-associated mutations disrupt GLMN-RBX1 interactions. Our study reveals a mechanism for RING E3 ligase regulation, whereby an inhibitor blocks E2 access, and raises the possibility that other E3s are likewise controlled by cellular proteins that mask E2-binding surfaces to mediate inhibition.

Duda, David M.; Olszewski, Jennifer L.; Tron, Adriana E.; Hammel, Michal; Lambert, Lester J.; Waddell, M. Brett; Mittag, Tanja; DeCaprio, James A.; Schulman, Brenda A. (BWH); (LBNL); (SJCH); (DFCI)

2012-11-01T23:59:59.000Z

287

Metal binding proteins, recombinant host cells and methods  

DOE Patents [OSTI]

The present disclosure provides artificial heavy metal binding proteins termed chelons by the inventors. These chelons bind cadmium and/or mercuric ions with relatively high affinity. Also disclosed are coding sequences, recombinant DNA molecules and recombinant host cells comprising those recombinant DNA molecules for expression of the chelon proteins. In the recombinant host cells or transgenic plants, the chelons can be used to bind heavy metals taken up from contaminated soil, groundwater or irrigation water and to concentrate and sequester those ions. Recombinant enteric bacteria can be used within the gastrointestinal tracts of animals or humans exposed to toxic metal ions such as mercury and/or cadmium, where the chelon recombinantly expressed in chosen in accordance with the ion to be rededicated. Alternatively, the chelons can be immobilized to solid supports to bind and concentrate heavy metals from a contaminated aqueous medium including biological fluids.

Summers, Anne O.; Caguiat, Jonathan J.

2004-06-15T23:59:59.000Z

288

Research paper Drug diffusion and binding in ionizable interpenetrating networks  

E-Print Network [OSTI]

Research paper Drug diffusion and binding in ionizable interpenetrating networks from poly) (PVA), poly(acrylic acid) (PAA), and their interpenetrating networks (IPNs) were prepared using by measuring their equilibrium polymer volume fraction, equilibrium swelling ratio, and mesh size. Drug

Peppas, Nicholas A.

289

Galactoside-Binding Site in LacY Xiaoxu Jiang,  

E-Print Network [OSTI]

for Asn272 either markedly decrease affinity for the substrate (i.e., high KD) or abolish binding movement of H+ in response to the electrochemical H+ gradient (H +, interior negative and/or alkaline), Lac

White, Stephen

290

Understanding regulation of mRNA by RNA binding proteins  

E-Print Network [OSTI]

Posttranscriptional regulation of mRNA by RNA-binding proteins plays key roles in regulating the transcriptome over the course of development, between tissues and in disease states. The specific interactions between mRNA ...

Robertson, Alexander De Jong

2014-01-01T23:59:59.000Z

291

acid inhibitor binding: Topics by E-print Network  

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

of correctly predicted inter- face residues in actual interface residues Zhou, Yaoqi 162 Sm-like protein Hfq: Location of the ATP-binding site and the effect of ATP on HfqRNA...

292

angiotensin binding site: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 55 Similarity Analysis of Protein Binding Sites: A Generalization of the...

293

antigen binding site: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 69 Similarity Analysis of Protein Binding Sites: A Generalization of the...

294

alcohol binding sites: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 56 Similarity Analysis of Protein Binding Sites: A Generalization of the...

295

albumin binding sites: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 54 Similarity Analysis of Protein Binding Sites: A Generalization of the...

296

anesthetic binding site: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 57 Similarity Analysis of Protein Binding Sites: A Generalization of the...

297

acid binding sites: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 82 Similarity Analysis of Protein Binding Sites: A Generalization of the...

298

aml-1 binding site: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 55 Similarity Analysis of Protein Binding Sites: A Generalization of the...

299

affinity binding sites: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 112 Similarity Analysis of Protein Binding Sites: A Generalization of the...

300

antagonist binding sites: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 58 Similarity Analysis of Protein Binding Sites: A Generalization of the...

Note: This page contains sample records for the topic "bind deleted domain" 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

alcohol binding site: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 56 Similarity Analysis of Protein Binding Sites: A Generalization of the...

302

antidepressant binding site: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 55 Similarity Analysis of Protein Binding Sites: A Generalization of the...

303

antibody binding site: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 75 Binding of HIV-1 gp41-Directed Neutralizing and Non-Neutralizing...

304

autoantibody binding site: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 56 Similarity Analysis of Protein Binding Sites: A Generalization of the...

305

auxin binding protein: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 150 A High-Throughput Solid-Phase Microplate Protein-Binding Assay to...

306

acid binding site: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 82 Similarity Analysis of Protein Binding Sites: A Generalization of the...

307

androgen binding sites: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 55 Similarity Analysis of Protein Binding Sites: A Generalization of the...

308

affinity binding site: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 112 Similarity Analysis of Protein Binding Sites: A Generalization of the...

309

a1 binding site: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 59 Similarity Analysis of Protein Binding Sites: A Generalization of the...

310

amp binding proteins: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 4 Volume 159, number 1,2 FEBS 0638 August 1983 Specific DNA binding of the...

311

agonist binding site: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 62 Similarity Analysis of Protein Binding Sites: A Generalization of the...

312

allosteric binding sites: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 68 Similarity Analysis of Protein Binding Sites: A Generalization of the...

313

allosteric binding site: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 68 Similarity Analysis of Protein Binding Sites: A Generalization of the...

314

activator inhibitor-1 binding: Topics by E-print Network  

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

Ser-142 (14). Ser-129 is believed to be a substrate for glycogen synthase kinase 3 Brownfield, Mark S. 147 Stress modulation of visuomotor binding CiteSeer Summary: The primate...

315

DB-PABP: a database of polyanion-binding proteins  

E-Print Network [OSTI]

The interactions between polyanions (PAs) and polyanion-binding proteins (PABPs) have been found to play significant roles in many essential biological processes including intracellular organization, transport and protein folding. Furthermore, many...

Fang, Jianwen; Dong, Yinghua; Slamat-Miller, Nazila; Middaugh, C. Russell

2007-10-04T23:59:59.000Z

316

N NMR Investigation of the Covalent Binding of Reduced TNT  

E-Print Network [OSTI]

, HRP also shifted the binding away from heterocyclic condensation product toward imine formation leaching of TNT and its toxic reductive degradation products into ground and surface waters is a major

317

Molecular Binding Energies from Partition Density Functional Theory  

SciTech Connect (OSTI)

Approximate molecular calculations via standard Kohn-Sham density functional theory are exactly reproduced by performing self-consistent calculations on isolated fragments via partition density functional theory [P. Elliott, K. Burke, M. H. Cohen, and A. Wasserman, Phys. Rev. A 82, 024501 (2010)]. We illustrate this with the binding curves of small diatomic molecules. We find that partition energies are in all cases qualitatively similar and numerically close to actual binding energies. We discuss qualitative features of the associated partition potentials.

Nafziger, J.; Wu, Q.; Wasserman, A.

2011-12-21T23:59:59.000Z

318

Fatty acid-binding protein in bovine skeletal muscle  

E-Print Network [OSTI]

FATTY ACID-BINDING PROTEIN IN BOVINE SKELETAL MUSCLE A Thesis by KIMBERLY KIRBY MOORE Submitted to the Office of Graduate Studies of Texas A&M University in partial fulfillment of the requirements for the degree of MASTER OF SCIENCE... December 1989 Major Subject: Nutrition FATTY ACID-BINDING PROTEIN IN BOVINE SKELETAL MUSCLE A Thesis by KIMBERLY KIRBY MOORE Approved as to style and content by: Ste en B. Smith (Chair of Committee) Karen S. Kubena (Member) Gary C. Smith (Head...

Moore, Kimberly Kirby

2012-06-07T23:59:59.000Z

319

Sampling Approaches for Multi-Domain Internet Performance Measurement Infrastructures  

SciTech Connect (OSTI)

The next-generation of high-performance networks being developed in DOE communities are critical for supporting current and emerging data-intensive science applications. The goal of this project is to investigate multi-domain network status sampling techniques and tools to measure/analyze performance, and thereby provide “network awareness” to end-users and network operators in DOE communities. We leverage the infrastructure and datasets available through perfSONAR, which is a multi-domain measurement framework that has been widely deployed in high-performance computing and networking communities; the DOE community is a core developer and the largest adopter of perfSONAR. Our investigations include development of semantic scheduling algorithms, measurement federation policies, and tools to sample multi-domain and multi-layer network status within perfSONAR deployments. We validate our algorithms and policies with end-to-end measurement analysis tools for various monitoring objectives such as network weather forecasting, anomaly detection, and fault-diagnosis. In addition, we develop a multi-domain architecture for an enterprise-specific perfSONAR deployment that can implement monitoring-objective based sampling and that adheres to any domain-specific measurement policies.

Calyam, Prasad

2014-09-15T23:59:59.000Z

320

NEM modication prevents high-anity ATP binding to the rst nucleotide binding fold of the sulphonylurea receptor, SUR1  

E-Print Network [OSTI]

NEM modi¢cation prevents high-a¤nity ATP binding to the ¢rst nucleotide binding fold, UK Received 7 July 1999; received in revised form 11 August 1999 Abstract Pancreatic LL-cell ATP WWM 8-azido- [KK-32 P]ATP or 8-azido-[QQ-32 P]ATP was inhibited by NEM with Ki of 1.8 WWM and 2.4 WWM

Tucker, Stephen J.

Note: This page contains sample records for the topic "bind deleted domain" 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

Frequency-Domain Modeling Techniques for the Scalar Wave Equation : An Introduction  

E-Print Network [OSTI]

Frequency-domain finite-difference (FDFD) modeling offers several advantages over traditional timedomain

Ajo-Franklin, Jonathan B.

2005-01-01T23:59:59.000Z

322

High-Quality 2D Metal-Organic Coordination Network Providing Giant Cavities within Mesoscale Domains  

E-Print Network [OSTI]

-phase domains is particularly demanding. A recent step forward in this direction was an anthraquinone honeycomb

Brune, Harald

323

Assessment of current cybersecurity practices in the public domain : cyber indications and warnings domain.  

SciTech Connect (OSTI)

This report assesses current public domain cyber security practices with respect to cyber indications and warnings. It describes cybersecurity industry and government activities, including cybersecurity tools, methods, practices, and international and government-wide initiatives known to be impacting current practice. Of particular note are the U.S. Government's Trusted Internet Connection (TIC) and 'Einstein' programs, which are serving to consolidate the Government's internet access points and to provide some capability to monitor and mitigate cyber attacks. Next, this report catalogs activities undertaken by various industry and government entities. In addition, it assesses the benchmarks of HPC capability and other HPC attributes that may lend themselves to assist in the solution of this problem. This report draws few conclusions, as it is intended to assess current practice in preparation for future work, however, no explicit references to HPC usage for the purpose of analyzing cyber infrastructure in near-real-time were found in the current practice. This report and a related SAND2010-4766 National Cyber Defense High Performance Computing and Analysis: Concepts, Planning and Roadmap report are intended to provoke discussion throughout a broad audience about developing a cohesive HPC centric solution to wide-area cybersecurity problems.

Hamlet, Jason R.; Keliiaa, Curtis M.

2010-09-01T23:59:59.000Z

324

Modulation of Pantothenate Kinase 3 Activity by Small Molecules that Interact with the Substrate/Allosteric Regulatory Domain  

SciTech Connect (OSTI)

Pantothenate kinase (PanK) catalyzes the rate-controlling step in coenzyme A (CoA) biosynthesis. PanK3 is stringently regulated by acetyl-CoA and uses an ordered kinetic mechanism with ATP as the leading substrate. Biochemical analysis of site-directed mutants indicates that pantothenate binds in a tunnel adjacent to the active site that is occupied by the pantothenate moiety of the acetyl-CoA regulator in the PanK3 acetyl-CoA binary complex. A high-throughput screen for PanK3 inhibitors and activators was applied to a bioactive compound library. Thiazolidinediones, sulfonylureas and steroids were inhibitors, and fatty acyl-amides and tamoxifen were activators. The PanK3 activators and inhibitors either stimulated or repressed CoA biosynthesis in HepG2/C3A cells. The flexible allosteric acetyl-CoA regulatory domain of PanK3 also binds the substrates, pantothenate and pantetheine, and small molecule inhibitors and activators to modulate PanK3 activity.

Leonardi, Roberta; Zhang, Yong-Mei; Yun, Mi-Kyung; Zhou, Ruobing; Zeng, Fu-Yue; Lin, Wenwei; Cui, Jimmy; Chen, Taosheng; Rock, Charles O.; White, Stephen W.; Jackowski, Suzanne (SJCH)

2010-09-27T23:59:59.000Z

325

Clonal deletion of self-reactive T cells in irradiation bone marrow chimeras and neonatally tolerant mice. Evidence for intercellular transfer of Mlsa  

SciTech Connect (OSTI)

Tolerance to Mlsa has been shown to be associated with clonal deletion of cells carrying TCR beta chain variable regions V beta 6 or V beta 8.1 in mice possessing I-E antigens. To evaluate the rules of tolerance induction to Mlsa we prepared irradiation bone marrow chimeras expressing Mlsa or Mlsb and I-E by different cell types. Deletion of V beta 6+, Mlsa-reactive T cells required the presence of Mlsa and I-E products either on bone marrow-derived cells or on irradiated recipient cells. Tolerance was induced when Mlsa and I-E were expressed by distinct cells of the chimera. Also neonatally tolerized mice exhibited depletion of V beta 6+ cells after injection of I-E- Mlsa spleen cells (DBA/1) into newborn I-E+ Mlsb mice (BALB/c x B10.G)F1. These results suggest that the product of the Mlsa locus is soluble and/or may be transferred from cell to cell and bound to I-E antigens. The chimera experiments also showed that tolerance to Mlsa is H-2 allele independent, i.e., is apparently unrestricted. Differentiation of chimeric (H-2d/Mlsa x H-2q/Mlsb)F1 stem cells in either an H-2d or an H-2q thymus revealed that tolerance assessed by absence of V beta 6+ T cells is not dependent on the thymically determined restriction specificity of T cells.

Speiser, D.E.; Schneider, R.; Hengartner, H.; MacDonald, H.R.; Zinkernagel, R.M. (Univ. Hospital, Zuerich (Switzerland))

1989-08-01T23:59:59.000Z

326

MANAGING TIGHT BINDING RECEPTORS FOR NEW SPEARATIONS TECHNOLOGIES  

SciTech Connect (OSTI)

Much of the earth's pollution involves compounds of the metallic elements, including actinides, strontium, cesium, technetium, and RCRA metals. Metal ions bind to molecules called ligands, which are the molecular tools that can manipulate the metal ions under most conditions. This DOE-EMSP sponsored program strives (1) to provide the foundations for using the most powerful ligands in transformational separations technologies and (2) to produce seminal examples of their applications to separations appropriate to the DOE EM mission. These ultra tight-binding ligands can capture metal ions in the most competitive of circumstances (from mineralized sites, lesser ligands, and even extremely dilute solutions), but they react so slowly that they are useless in traditional separations methodologies. Two attacks on this problem are underway. The first accommodates to the challenging molecular lethargy by developing a seminal slow separations methodology termed the soil poultice. The second designs ligands that are only tight-binding while wrapped around the targeted metal ion, but can be put in place by switch-binding and removed by switch-release. We envision a kind of molecular switching process to accelerate the union between metal ion and tight-binding ligand. Molecular switching processes are suggested for overcoming the slow natural equilibration rate with which ultra tight-binding ligands combine with metal ions. Ligands that bind relatively weakly combine with metal ions rapidly, so the trick is to convert a ligand from a weak, rapidly binding species to a powerful, slow releasing ligand--during the binding of the ligand to the metal ion. Such switch-binding ligands must react with themselves, and the reaction must take place under the influence of the metal ion. For example, our generation 1 ligands showed that a well-designed linear ligand with ends that readily combine, forms a cyclic molecule when it wraps around a metal ion. Our generation 2 ligands are even more interesting. They convert from rings to structures that wrap around a metal ion to form a cage. These ligands are called cryptands. Switch release is accomplished by photolytic cleavage of a bond to convert a cyclic ligand into a linear ligand or to break similar bonds in a cryptate. Our studies have demonstrated switch binding and switch release with cryptates of calcium. These remarkable cyclic ligands and cage-like ligands are indeed tight-binding and may, in principle, be incorporated in various separations methodologies, including the soil poultice. The soil poultice mimics the way in which microbes secrete extremely powerful ligands into the soil in order to harvest iron. The cellular membrane of the microbe recognizes the iron/ligand complex and admits it into the cell. The soil poultice uses molecularly imprinted polymers (MIPs) to play the role of the cellular membrane. Imprinting involves creation of the polymer in the presence of the metal/ligand complex. In principle, a well design ligand/MIP combination can be highly selective toward almost any targeted metal ion. The principles for that design are the focus of these investigations. An imprinting molecule can interact with the polymer through any, some, or all of the so-called supramolecular modes; e.g., hydrogen bonding, electrostatic charge, minor ligand bonding, Pi-Pi stacking, and hydrophobic and van der Waals interactions. Historically these modes of binding have given MIPs only small re-binding capacities and very limited selectivities. This program has shown that each mode of interaction can be made more powerful than previously suspected and that combinations of different supramolecular interaction modes can produce remarkable synergisms. The results of this systematic study provide a firm foundation for tailoring molecular imprinted polymers for reclamation of specific metal ion, including those important to the DOE EM mission.

DARYLE H BUSCH RICHARD S GIVENS

2004-12-10T23:59:59.000Z

327

Multiple Glycogen-binding Sites in Eukaryotic Glycogen Synthase Are Required for High Catalytic Efficiency toward Glycogen  

SciTech Connect (OSTI)

Glycogen synthase is a rate-limiting enzyme in the biosynthesis of glycogen and has an essential role in glucose homeostasis. The three-dimensional structures of yeast glycogen synthase (Gsy2p) complexed with maltooctaose identified four conserved maltodextrin-binding sites distributed across the surface of the enzyme. Site-1 is positioned on the N-terminal domain, site-2 and site-3 are present on the C-terminal domain, and site-4 is located in an interdomain cleft adjacent to the active site. Mutation of these surface sites decreased glycogen binding and catalytic efficiency toward glycogen. Mutations within site-1 and site-2 reduced the V{sub max}/S{sub 0.5} for glycogen by 40- and 70-fold, respectively. Combined mutation of site-1 and site-2 decreased the V{sub max}/S{sub 0.5} for glycogen by >3000-fold. Consistent with the in vitro data, glycogen accumulation in glycogen synthase-deficient yeast cells ({Delta}gsy1-gsy2) transformed with the site-1, site-2, combined site-1/site-2, or site-4 mutant form of Gsy2p was decreased by up to 40-fold. In contrast to the glycogen results, the ability to utilize maltooctaose as an in vitro substrate was unaffected in the site-2 mutant, moderately affected in the site-1 mutant, and almost completely abolished in the site-4 mutant. These data show that the ability to utilize maltooctaose as a substrate can be independent of the ability to utilize glycogen. Our data support the hypothesis that site-1 and site-2 provide a 'toehold mechanism,' keeping glycogen synthase tightly associated with the glycogen particle, whereas site-4 is more closely associated with positioning of the nonreducing end during catalysis.

Baskaran, Sulochanadevi; Chikwana, Vimbai M.; Contreras, Christopher J.; Davis, Keri D.; Wilson, Wayne A.; DePaoli-Roach, Anna A.; Roach, Peter J.; Hurley, Thomas D. (Indiana-Med); (Des Moines U)

2012-12-10T23:59:59.000Z

328

Testin, a novel binding partner of the calcium-sensing receptor, enhances receptor-mediated Rho-kinase signalling  

SciTech Connect (OSTI)

Highlights: {yields} A yeast two-hybrid screen revealed testin bound to the calcium-sensing receptor. {yields} The second zinc finger of LIM domain 1 of testin is critical for interaction. {yields} Testin bound to a region of the receptor tail important for cell signalling. {yields} Testin and receptor interaction was confirmed in mammalian (HEK293) cells. {yields} Overexpression of testin enhanced receptor-mediated Rho signalling in HEK293 cells. -- Abstract: The calcium-sensing receptor (CaR) plays an integral role in calcium homeostasis and the regulation of other cellular functions including cell proliferation and cytoskeletal organisation. The multifunctional nature of the CaR is manifested through ligand-dependent stimulation of different signalling pathways that are also regulated by partner binding proteins. Following a yeast two-hybrid library screen using the intracellular tail of the CaR as bait, we identified several novel binding partners including the focal adhesion protein, testin. Testin has not previously been shown to interact with cell surface receptors. The sites of interaction between the CaR and testin were mapped to the membrane proximal region of the receptor tail and the second zinc-finger of LIM domain 1 of testin, the integrity of which was found to be critical for the CaR-testin interaction. The CaR-testin association was confirmed in HEK293 cells by coimmunoprecipitation and confocal microscopy studies. Ectopic expression of testin in HEK293 cells stably expressing the CaR enhanced CaR-stimulated Rho activity but had no effect on CaR-stimulated ERK signalling. These results suggest an interplay between the CaR and testin in the regulation of CaR-mediated Rho signalling with possible effects on the cytoskeleton.

Magno, Aaron L. [Western Australian Institute for Medical Research and Centre for Medical Research, University of Western Australia, Nedlands, Western Australia 6009 (Australia) [Western Australian Institute for Medical Research and Centre for Medical Research, University of Western Australia, Nedlands, Western Australia 6009 (Australia); Department of Endocrinology and Diabetes, Sir Charles Gairdner Hospital, Hospital Avenue, Nedlands, Western Australia 6009 (Australia); Ingley, Evan [Western Australian Institute for Medical Research and Centre for Medical Research, University of Western Australia, Nedlands, Western Australia 6009 (Australia)] [Western Australian Institute for Medical Research and Centre for Medical Research, University of Western Australia, Nedlands, Western Australia 6009 (Australia); Brown, Suzanne J. [Department of Endocrinology and Diabetes, Sir Charles Gairdner Hospital, Hospital Avenue, Nedlands, Western Australia 6009 (Australia)] [Department of Endocrinology and Diabetes, Sir Charles Gairdner Hospital, Hospital Avenue, Nedlands, Western Australia 6009 (Australia); Conigrave, Arthur D. [School of Molecular Bioscience, University of Sydney, New South Wales 2000 (Australia)] [School of Molecular Bioscience, University of Sydney, New South Wales 2000 (Australia); Ratajczak, Thomas [Western Australian Institute for Medical Research and Centre for Medical Research, University of Western Australia, Nedlands, Western Australia 6009 (Australia) [Western Australian Institute for Medical Research and Centre for Medical Research, University of Western Australia, Nedlands, Western Australia 6009 (Australia); Department of Endocrinology and Diabetes, Sir Charles Gairdner Hospital, Hospital Avenue, Nedlands, Western Australia 6009 (Australia); Ward, Bryan K., E-mail: bryanw@cyllene.uwa.edu.au [Western Australian Institute for Medical Research and Centre for Medical Research, University of Western Australia, Nedlands, Western Australia 6009 (Australia); Department of Endocrinology and Diabetes, Sir Charles Gairdner Hospital, Hospital Avenue, Nedlands, Western Australia 6009 (Australia)

2011-09-09T23:59:59.000Z

329

SUBCRITICAL BUBBLES NEAR THE PHASE SPACE DOMAIN WALL  

E-Print Network [OSTI]

We study the subcritical bubble formation near the phase space domain wall. We take into account that the phase of the scalar field can vary using complex U(1) symmetric field and a phenomenological potential with cubic term responsible to symmetry breaking. We show that the presence of the domain wall induces subcritical bubbles so that their formation rate near the wall is considerably larger than far of it. The allowed deviations of the phases of new bubbles are so large that they prevent the system from induced nucleation.

J. Sirkka; I. Vilja

1995-03-31T23:59:59.000Z

330

Targeted Gene Deletion Demonstrates that Cell Adhesion MoleculeICAM-4 is Critical for Erythroblastic Island Formation  

SciTech Connect (OSTI)

Erythroid progenitors differentiate in erythroblastic islands, bone marrow niches composed of erythroblasts surrounding a central macrophage. Evidence suggests that within islands adhesive interactions regulate erythropoiesis and apoptosis. We are exploring whether erythroid intercellular adhesion molecule-4 (ICAM-4), animmunoglobulin superfamily member, participates in island formation. Earlier, we identified alpha V integrins as ICAM-4 counter receptors. Since macrophages express alpha V, ICAM-4 potentially mediates island attachments. To test this, we generated ICAM-4 knockout mice and developed quantitative, live cell techniques for harvesting intact islands and for reforming islands in vitro. We observed a 47 percent decrease in islands reconstituted from ICAM-4 null marrow compared to wild type. We also found a striking decrease in islands formed in vivo in knockout mice. Further, peptides that block ICAM-4 alpha V adhesion produced a 53-57 percent decrease in reconstituted islands, strongly suggesting that ICAM-4 binding to macrophage alpha V functions in island integrity. Importantly, we documented that alpha V integrin is expressed in macrophages isolated from erythro blastic islands. Collectively, these data provide convincing evidence that ICAM-4 is critical in erythroblastic island formation via ICAM-4/alpha V adhesion and also demonstrate that the novel experimental strategies we developed will be valuable in exploring molecular mechanisms of erythroblastic island formation and their functional role in regulating erythropoiesis.

Lee, Gloria; Lo, Annie; Short, Sarah A.; Mankelow, Tosti J.; Spring, Frances; Parsons, Stephen F.; Mohandas, Narla; Anstee, David J.; Chasis, Joel Anne

2006-02-15T23:59:59.000Z

331

Crystal structure of FAS thioesterase domain with polyunsaturated fatty acyl adduct and inhibition by dihomo-[gamma]-linolenic acid  

SciTech Connect (OSTI)

Human fatty acid synthase (hFAS) is a homodimeric multidomain enzyme that catalyzes a series of reactions leading to the de novo biosynthesis of long-chain fatty acids, mainly palmitate. The carboxy-terminal thioesterase (TE) domain determines the length of the fatty acyl chain and its ultimate release by hydrolysis. Because of the upregulation of hFAS in a variety of cancers, it is a target for antiproliferative agent development. Dietary long-chain polyunsaturated fatty acids (PUFAs) have been known to confer beneficial effects on many diseases and health conditions, including cancers, inflammations, diabetes, and heart diseases, but the precise molecular mechanisms involved have not been elucidated. We report the crystal structure of the hFAS TE domain covalently modified and inactivated by methyl {gamma}-linolenylfluorophosphonate. Whereas the structure confirmed the phosphorylation by the phosphonate head group of the active site serine, it also unexpectedly revealed the binding of the 18-carbon polyunsaturated {gamma}-linolenyl tail in a long groove-tunnel site, which itself is formed mainly by the emergence of an {alpha} helix (the 'helix flap'). We then found inhibition of the TE domain activity by the PUFA dihomo-{gamma}-linolenic acid; {gamma}- and {alpha}-linolenic acids, two popular dietary PUFAs, were less effective. Dihomo-{gamma}-linolenic acid also inhibited fatty acid biosynthesis in 3T3-L1 preadipocytes and selective human breast cancer cell lines, including SKBR3 and MDAMB231. In addition to revealing a novel mechanism for the molecular recognition of a polyunsaturated fatty acyl chain, our results offer a new framework for developing potent FAS inhibitors as therapeutics against cancers and other diseases.

Zhang, Wei; Chakravarty, Bornali; Zheng, Fei; Gu, Ziwei; Wu, Hongmei; Mao, Jianqiang; Wakil, Salih J.; Quiocho, Florante A. (Baylor)

2012-05-29T23:59:59.000Z

332

ORIGINAL PAPER A bacterial ice-binding protein from the Vostok ice core  

E-Print Network [OSTI]

to produce a 54 kDa ice-binding protein (GenBank EU694412) that is similar to ice-binding proteins previously- vival at sub-zero temperatures by producing proteins that bind to and inhibit the growth of ice crystalsORIGINAL PAPER A bacterial ice-binding protein from the Vostok ice core James A. Raymond Ă? Brent C

Christner, Brent C.

333

Correlation Between Domain Behavior and Magnetic Properties of Materials  

SciTech Connect (OSTI)

Correlation between length scales in the field of magnetism has long been a topic of intensive study. The long-term desire is simple: to determine one theory that completely describes the magnetic behavior of matter from an individual atomic particle all the way up to large masses of material. One key piece to this puzzle is connecting the behavior of a material's domains on the nanometer scale with the magnetic properties of an entire large sample or device on the centimeter scale. In the first case study involving the FeSiAl thin films, contrast and spacing of domain patterns are clearly related to microstructure and stress. Case study 2 most clearly demonstrates localized, incoherent domain wall motion switching with field applied along an easy axis for a square hysteresis loop. In case study 3, axis-specific images of the complex Gd-Si-Ge material clearly show the influence of uniaxial anisotropy. Case study 4, the only study with the sole intent of creating domain structures for imaging, also demonstrated in fairly simple terms the effects of increasing stress on domain patterns. In case study 5, it was proven that the width of magnetoresistance loops could be quantitatively predicted using only MFM. When all of the case studies are considered together, a dominating factor seems to be that of anisotropy, both magneticrostaylline and stress induced. Any quantitative bulk measurements heavily reliant on K coefficients, such as the saturation fields for the FeSiAl films, H{sub c} in cases 1, 3, and 5, and the uniaxial character of the Gd{sub 5}(Si{sub 2}Ge{sub 2}), transferred to and from the domain scale quite well. In-situ measurements of domain rotation and switching, could also be strongly correlated with bulk magnetic properties, including coercivity, M{sub s}, and hysteresis loop shape. In most cases, the qualitative nature of the domain structures, when properly considered, matched quite well to what might have been expected from theory and calculation, and provided such information in a matter of minutes. In fact, typical characterization in each of these studies was far more complete and reliable with domain imagery to back it up--especially the single crystal and applied field pictures. In these simple cases, it appears that domain imagery may be close to standing alone in magnetic characterization. The surprises in the 10 nm CoFeHfO film, the complexity seen in the polycrystalline Gd-Si-Ge sample and the broad range predictions of the K{sub 1} of the same reinforce the unreliability of making concrete statements based purely on domain imagery of any type, but it may be possible to create standards similar to the types used in optical microscopy for metallography in these complex cases.

Jeffrey Scott Leib

2003-05-31T23:59:59.000Z

334

Changes in misonidazole binding with hypoxic fraction in mouse tumors  

SciTech Connect (OSTI)

Binding of misonidazole (MISO) or a derivative to hypoxic cells in tumors has been proposed as a method for identifying tumors, and measuring their level of hypoxia. The author has recently shown that the hypoxic fraction of tumor cells can be altered over a wide range in vivo by acutely changing the hematocrit of the host animal by transfusion. The present study is aimed to investigate the changes in binding by /sup 14/C MISO that accompanied this procedure. Tumor bearing mice were injected with /sup 14/C MISO, irradiated with a single dose of X rays (20 Gy) and their tumor excised and bisected. One half of each tumor was used to determine cell survival in vitro, the other was used for /sup 14/C scintillation counting. As previously described, tumor cell survival was dramatically increased in acutely anemic mice and this was accompanied by an increase in /sup 14/C MISO binding to the tumors. The relationship between clonogenic cell survival and binding was found to be linear on a log-log plot for each of the tumor lines studied, but the slopes of the lines were different in different tumor lines and generally steeper than the value of 1.0 expected for a 1:1 correspondence between cells binding radioactivity and radiobiological resistance.

Hirst, D.G.; Hazlehurst, J.L.; Brown, J.M.

1985-07-01T23:59:59.000Z

335

Multiferroic Domain Dynamics in Strained Strontium Titanate A. Vasudevarao,1  

E-Print Network [OSTI]

Multiferroic Domain Dynamics in Strained Strontium Titanate A. Vasudevarao,1 A. Kumar,1 L. Tian,1 J (Received 19 June 2006; published 21 December 2006) Multiferroicity can be induced in strontium titanate to the ferroelectric mm2 phase, followed by a transition to a ferroelastic-ferroelectric mm2 phase in a strontium

Gopalan, Venkatraman

336

Supersymmetric vertex models with domain wall boundary conditions  

SciTech Connect (OSTI)

By means of the Drinfeld twists, we derive the determinant representations of the partition functions for the gl(1 vertical bar 1) and gl(2 vertical bar 1) supersymmetric vertex models with domain wall boundary conditions. In the homogeneous limit, these determinants degenerate to simple functions.

Zhao Shaoyou; Zhang Yaozhong [Department of Mathematics, University of Queensland, Brisbane, QLD 4072 (Australia); Department of Mathematics, University of Queensland, Brisbane, QLD 4072 (Australia) and Physikalisches Institut, Universitaet Bonn, D-53115 Bonn (Germany)

2007-02-15T23:59:59.000Z

337

Applying electronic contracting to the aerospace aftercare domain Felipe Meneguzzia,  

E-Print Network [OSTI]

Applying electronic contracting to the aerospace aftercare domain Felipe Meneguzzia, , Sanjay The contract project was a European Commission project whose aim was to develop frame- works, components contracts. In this context, an electronic contract provides a specifi- cation of the expected behaviours

Luck, Michael

338

Time-domain Dynamics and Stability Analysis of Optoelectronic Oscillators  

E-Print Network [OSTI]

Time-domain Dynamics and Stability Analysis of Optoelectronic Oscillators based on Whispering and Yanne K. Chembo Optoelectronic oscillators (OEOs) are microwave photonics systems in- tended to generate in "" #12;1 Introduction The optoelectronic oscillator (OEO) is nowadays considered as one of the most

Paris-Sud XI, Université de

339

WHEELS: A CONVERSATIONAL SYSTEM IN THE AUTOMOBILE CLASSIFIEDS DOMAIN  

E-Print Network [OSTI]

WHEELS: A CONVERSATIONAL SYSTEM IN THE AUTOMOBILE CLASSIFIEDS DOMAIN Helen Meng, Senis WHEELS is a conversational system which provides access to a database of eletronic automobile classified users to search through a database of 5,000 automobile classifieds. The current end-to-end system can re

340

Abstract Domains of Affine Relations , T. Sharma1  

E-Print Network [OSTI]

, and stud- ies how they relate to each other. We show that the abstract domains of M¨uller-Olm/Seidl (MOS for affine-relation analysis (ARA)--one defined by M¨uller-Olm and Seidl (MOS) [19, 21] and one defined

Reps, Thomas W.

Note: This page contains sample records for the topic "bind deleted domain" 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

TIME DOMAIN REFLECTOMETRY MEASUREMENT AND HIGHLY PLASTIC CLAYS  

E-Print Network [OSTI]

1 TIME DOMAIN REFLECTOMETRY MEASUREMENT AND HIGHLY PLASTIC CLAYS By: J. A. Kuhn1 and J. G. Zornberg for use in highly plastic clay. The clay used for experimentation was taken locally from the Eagle Ford Ford Clay is determined. INTRODUCTION The progression of wetting and drying fronts in highly plastic

Zornberg, Jorge G.

342

10 DOMAIN-APPROPRIATE DEVICES * For a video example, see  

E-Print Network [OSTI]

of drawing as its application area, and a process control system in a power plant has the domain of that power plant and its functions as its application area. However, most interactive systems use a lot of work into creating "meta- phors" in which the virtual, on-screen world resembles items

Borchers, Jan

343

Conceptual modelling for domain specific document description and retrieval  

E-Print Network [OSTI]

and are applied in the tasks of describing and retrieving documents, within cooperative document management settings, where the users themselves have to perform the document management tasks they need in orderConceptual modelling for domain specific document description and retrieval - An approach

344

Interpreting Performance Data Across Intuitive Domains Martin Schulz1  

E-Print Network [OSTI]

performed under the auspices of the U.S. Department of Energy by Lawrence Livermore National LaboratoryInterpreting Performance Data Across Intuitive Domains Martin Schulz1 , Joshua A. Levine2 , Peer, USA 2 Scientific Computing and Imaging Institute, University of Utah, Salt Lake City, UT {schulzm

Utah, University of

345

An Abstract Domain Extending Difference-Bound Matrices  

E-Print Network [OSTI]

" (or DBMs) is a domain proposed by David Dill, for expressing relations of the form "x - y c" or "c1 x c2". We define dDBMs ("disequalities DBMs") as conjunctions of DBMs with simple disequalities of the form "x = y" or "x = 0". We give algorithms on dDBMs, for deciding the emptiness, computing a normal

Paris-Sud XI, Université de

346

Characterization of dense suspensions using frequency domain photon migration  

E-Print Network [OSTI]

) _____________________________ Kenneth R. Hall (Head of Department) May 2004 Major Subject: Chemical Engineering iii ABSTRACT Characterization of Dense Suspensions Using Frequency Domain Photon Migration. (May 2004) Yingqing Huang, B.S., Tsinghua University; M....2. MSA-HSY provided by Herrera et al.............................................. 136 VI.1.3. MSA-PM structure factor model provided by Hiroike ...................138 VI.2. Summary...

Huang, Yingqing

2005-08-29T23:59:59.000Z

347

BLINK: Pixel-Domain Encryption for Secure Document Idris Atakli  

E-Print Network [OSTI]

be a video cable with an integrated decoder box; its interface is a single switch by which the user canBLINK: Pixel-Domain Encryption for Secure Document Management Idris Atakli Department of Electrical. The primary application is delivery of confidential documents that can only be viewed by a specific machine

Chen, Yu

348

ROO: Involving Domain Experts in Authoring OWL Ronald Denaux  

E-Print Network [OSTI]

Authoring, Controlled Natural Language Interfaces, Evaluation of Ontology Building Tools, Geographical process and improve the quality of the resultant ontologies. Recently, controlled language (CL) interfaces domain experts' definition of ontologies in OWL by allowing them to author the ontology in a controlled

Dimitrova, Vania

349

IDENTIFICATION OF MATERIAL DAMAGE IN TWO DIMENSIONAL DOMAINS  

E-Print Network [OSTI]

IDENTIFICATION OF MATERIAL DAMAGE IN TWO DIMENSIONAL DOMAINS USING SQUID BASED NDE SYSTEM H on such problems entails quantitative nondestructive evaluation methods in SQUID-based NDE system [1]. It is well, SQUID based nondestructive evaluation (NDE) systems using injection current methods have been recently

350

IDENTIFICATION OF MATERIAL DAMAGE IN TWO DIMENSIONAL DOMAINS  

E-Print Network [OSTI]

IDENTIFICATION OF MATERIAL DAMAGE IN TWO DIMENSIONAL DOMAINS USING SQUID BASED NDE SYSTEM H#ort on such problems entails quantitative nondestructive evaluation methods in SQUID­based NDE system [1]. It is well nondestructive evaluation (NDE) systems using injection current methods have been recently developed [3, 4

351

Observational Constraints on Varying-alpha Domain Walls  

E-Print Network [OSTI]

We consider the possibility that current hints of a spatial variation of the fine structure constant at high redshift could be due to a biased domain wall network described by a scalar field non-minimally coupled to the electromagnetic field. We show that in order to be cause of the reported spatial variation of the fine structure constant without being in conflict with the observed anisotropies of the cosmic microwave background, the characteristic scale of the network would have to be of the order of the Hubble radius and the fractional contribution of the domain wall network to the energy density of the Universe would need to be in the range $10^{-10} temperature distribution of the cosmic microwave background detected by Planck and WMAP and provide a significant contribution to the excess B-mode polarisation power detected by BICEP2. Since the domain wall contribution to the cosmic energy budget only becomes important at late times, domain wall networks cannot play a significant role as a seed for large scale structure formation and primary cosmic microwave background anisotropies.

P. P. Avelino; L. Sousa

2014-06-20T23:59:59.000Z

352

Analyzing Parallelism and Domain Similarities in the MAREC Patent Corpus  

E-Print Network [OSTI]

Analyzing Parallelism and Domain Similarities in the MAREC Patent Corpus Katharina W}@cl.uni-heidelberg.de Abstract. Statistical machine translation of patents requires large a- mounts of sentence-parallel data. Translations of patent text often exist for parts of the patent document, namely title, abstract and claims

Riezler, Stefan

353

Catalytic Domain of Phosphoinositide-specific Phospholipase C (PLC)  

E-Print Network [OSTI]

Catalytic Domain of Phosphoinositide-specific Phospholipase C (PLC) MUTATIONAL ANALYSIS OF RESIDUES WITHIN THE ACTIVE SITE AND HYDROPHOBIC RIDGE OF PLC 1* (Received for publication, November 20, 1997 Institute, University of Dundee, Dundee DD1 4HN, United Kingdom Structural studies of phospholipase C 1 (PLC

Williams, Roger L.

354

AN AGGREGATIONBASED DOMAIN DECOMPOSITION PRECONDITIONER FOR GROUNDWATER FLOW \\Lambda  

E-Print Network [OSTI]

the standard finite element framework from [18,24]. The preconditioner also works well in the context of finiteAN AGGREGATION­BASED DOMAIN DECOMPOSITION PRECONDITIONER FOR GROUNDWATER FLOW \\Lambda E. W. JENKINS analysis of a two­level additive Schwarz method in which the coarse mesh basis is constructed

355

AN AGGREGATION-BASED DOMAIN DECOMPOSITION PRECONDITIONER FOR GROUNDWATER FLOW  

E-Print Network [OSTI]

. Our analysis uses the standard finite element framework from [18,24]. The preconditioner also works well in the context of finite differences, however, as some of the examples in £ 3 illustrateAN AGGREGATION-BASED DOMAIN DECOMPOSITION PRECONDITIONER FOR GROUNDWATER FLOW E. W. JENKINS ¡, C

356

Hybrid Powertrain Design Using a Domain-Specific Modeling Environment  

E-Print Network [OSTI]

Hybrid Powertrain Design Using a Domain- Specific Modeling Environment Wenzhong Gao1 , Sandeep environment is capable of rapidly assimilating new knowledge from experts and design database. Further, it can. As an example, the well-known worldwide recall in Spring 2002 of the BMW 745i was a direct result

Gray, Jeffrey G.

357

SUMTIME: KA For Weather Domain Page 1 of 20  

E-Print Network [OSTI]

News Inc, Aberdeen, UK) and gas turbine diagnosis (in collaboration with Intelligent Applications on a third (yet to be chosen) domain. In the case of gas turbine diagnosis, as is the case with the doctors://www.csd.abdn.ac.in/research/sumtime) is a research project aimed at developing a generic computational model for producing textual summaries of time

Sripada, Yaji

358

Analysis of transmission system faults in the phase domain  

E-Print Network [OSTI]

. With the advanced development of computers, there is a possibility to totally get rid of the sequence method. In this thesis, a short circuit analysis method based on phase domain is developed. After the three sequence admittance matrices of the system are built...

Zhu, Jun

2004-11-15T23:59:59.000Z

359

Databases on the Web: national web domain survey Denis Shestakov  

E-Print Network [OSTI]

, Aalto University Konemiehentie 2, Espoo, 02150 Finland denis.shestakov@aalto.fi ABSTRACT The deep Web of the deep Web by sampling one national web domain. We report some of our results ob- tained when surveying the Russian Web. The survey find- ings, namely the size estimates of the deep Web, could be useful for further

Hammerton, James

360

Accurate nuclear radii and binding energies from a chiral interaction  

E-Print Network [OSTI]

The accurate reproduction of nuclear radii and binding energies is a long-standing challenge in nuclear theory. To address this problem two-nucleon and three-nucleon forces from chiral effective field theory are optimized simultaneously to low-energy nucleon-nucleon scattering data, as well as binding energies and radii of few-nucleon systems and selected isotopes of carbon and oxygen. Coupled-cluster calculations based on this interaction, named NNLOsat, yield accurate binding energies and radii of nuclei up to 40Ca, and are consistent with the empirical saturation point of symmetric nuclear matter. In addition, the low-lying collective 3- states in 16O and 40Ca are described accurately, while spectra for selected p- and sd-shell nuclei are in reasonable agreement with experiment.

Ekstrom, A; Wendt, K A; Hagen, G; Papenbrock, T; Carlsson, B D; Forssen, C; Hjorth-Jensen, M; Navratil, P; Nazarewicz, W

2015-01-01T23:59:59.000Z

Note: This page contains sample records for the topic "bind deleted domain" 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

Functional characterization of acyl-CoA binding protein (ACBP) and oxysterol binding protein-related proteins (ORPS) from Cryptosporidium parvum  

E-Print Network [OSTI]

maltose-binding protein fusion system and expressed as a recombinant protein for functional analysis. Acyl-CoA-binding assays clearly revealed that the preferred binding substrate for CpACBP1 is palmitoyl-CoA. RT-PCR, Western blotting and immunolabelling...

Zeng, Bin

2009-05-15T23:59:59.000Z

362

Molecular Modeling of the Extracellular Domain of the RET Receptor Tyrosine Kinase Reveals Multiple Cadherin-like Domains  

E-Print Network [OSTI]

induce constitutive activation of the RET tyrosine kinase and lead to congenital and sporadic cancers-directed mutagenesis studies aimed at identifying residues in- volved in ligand binding and receptor activation transducing receptor subunit, with specificity being deter- mined by cooperation between RET and different

Ibáñez, Carlos

363

Structural Insight into the Mechanism of Substrate Specificity and Catalytic Activity of an HD-Domain Phosphohydrolase: The 5;#8242;-Deoxyribonucleotidase YfbR from Escherichia coli  

SciTech Connect (OSTI)

HD-domain phosphohydrolases have nucleotidase and phosphodiesterase activities and play important roles in the metabolism of nucleotides and in signaling. We present three 2.1-{angstrom}-resolution crystal structures (one in the free state and two complexed with natural substrates) of an HD-domain phosphohydrolase, the Escherichia coli 5'-nucleotidase YfbR. The free-state structure of YfbR contains a large cavity accommodating the metal-coordinating HD motif (H33, H68, D69, and D137) and other conserved residues (R18, E72, and D77). Alanine scanning mutagenesis confirms that these residues are important for activity. Two structures of the catalytically inactive mutant E72A complexed with Co{sup 2+} and either thymidine-5'-monophosphate or 2'-deoxyriboadenosine-5'-monophosphate disclose the novel binding mode of deoxyribonucleotides in the active site. Residue R18 stabilizes the phosphate on the Co{sup 2+}, and residue D77 forms a strong hydrogen bond critical for binding the ribose. The indole side chain of W19 is located close to the 2'-carbon atom of the deoxyribose moiety and is proposed to act as the selectivity switch for deoxyribonucleotide, which is supported by comparison to YfdR, another 5'-nucleotidase in E. coli. The nucleotide bases of both deoxyriboadenosine-5'-monophosphate and thymidine-5'-monophosphate make no specific hydrogen bonds with the protein, explaining the lack of nucleotide base selectivity. The YfbR E72A substrate complex structures also suggest a plausible single-step nucleophilic substitution mechanism. This is the first proposed molecular mechanism for an HD-domain phosphohydrolase based directly on substrate-bound crystal structures.

Zimmerman, Matthew D.; Proudfoot, Michael; Yakunin, Alexander; Minor, Wladek (Toronto); (UV)

2011-08-16T23:59:59.000Z

364

Calculation of HVDC-converter harmonics in frequency domain with regard to asymmetries and comparison with time domain simulations  

SciTech Connect (OSTI)

In order to study the effects of large HVDC converters to the feeding ac networks, it is of importance to explain and to calculate harmonic phenomena which are a result of converter operation. During commissioning of real HVDC converters it could be seen, that harmonics resulting from unsymmetries in the system voltages or from unsymmetries in converter operation led to significant difficulties concerning the system design. For this reason, not only the effects of characteristic but also the effects of noncharacteristic converter harmonics must be taken into account. The aim is to describe the steady state harmonic behavior of the converter. The harmonic spectra are not determined by time domain analysis but instead the solution is found by frequency domain calculations. This can result in reduced calculation time in comparison to conventional fourier analysis of the time functions. The converter is interpreted as an amplitude modulator with voltage and current converter functions which describe the coupling of the dc circuit and the ac network through the converter. To verify the theory, comparison of frequency domain with time domain calculations were carried out.

Rittiger, J. [Siemens AG, Erlangen (Germany)] [Siemens AG, Erlangen (Germany); Kulicke, B. [Technische Univ. Berlin (Germany)] [Technische Univ. Berlin (Germany)

1995-10-01T23:59:59.000Z

365

Similarity of Position Frequency Matrices for Transcription Factor Binding Sites  

E-Print Network [OSTI]

approximating the binding energy of the profiled transcription factor. Comparison tools for TFBS PFMs: Software is available to use over the web at http://rulai.cshl.edu/MatCompare Contact: dschones, sumazin to the average log likelihood ratio method and the Pearson correlation coef- ficient method on simulated data

366

A probabilistic approach to microRNA-target binding  

SciTech Connect (OSTI)

Highlights: {yields} A new probabilistic model is introduced for microRNA-target binding. {yields} The new model significantly outperforms RNAHybrid and miRTif. {yields} The experiments can unveil the effects of the type and directions of distinct base pairings. -- Abstract: Elucidation of microRNA activity is a crucial step in understanding gene regulation. One key problem in this effort is how to model the pairwise interactions of microRNAs with their targets. As this interaction is strongly mediated by their sequences, it is desired to set-up a probabilistic model to explain the binding preferences between a microRNA sequence and the sequence of a putative target. To this end, we introduce a new model of microRNA-target binding, which transforms an aligned duplex to a new sequence and defines the likelihood of this sequence using a Variable Length Markov Chain. It offers a complementary representation of microRNA-mRNA pairs for microRNA target prediction tools or other probabilistic frameworks of integrative gene regulation analysis. The performance of present model is evaluated by its ability to predict microRNA-target mRNA interaction given a mature microRNA sequence and a putative mRNA binding site. In regard to classification accuracy, it outperforms two recent methods based on thermodynamic stability and sequence complementarity. The experiments can also unveil the effects of base pairing types and non-seed region in duplex formation.

Ogul, Hasan, E-mail: hogul@baskent.edu.tr [Department of Computer Engineering, Baskent University, Baglica TR-06810, Ankara (Turkey)] [Department of Computer Engineering, Baskent University, Baglica TR-06810, Ankara (Turkey); Umu, Sinan U. [Department of Chemistry, Middle East Technical University, Cankaya TR-06800, Ankara (Turkey) [Department of Chemistry, Middle East Technical University, Cankaya TR-06800, Ankara (Turkey); Bioinformatics Program, Informatics Institute, Middle East Technical University, Cankaya TR-06800, Ankara (Turkey); Tuncel, Y. Yener [Bioinformatics Program, Informatics Institute, Middle East Technical University, Cankaya TR-06800, Ankara (Turkey)] [Bioinformatics Program, Informatics Institute, Middle East Technical University, Cankaya TR-06800, Ankara (Turkey); Akkaya, Mahinur S. [Department of Chemistry, Middle East Technical University, Cankaya TR-06800, Ankara (Turkey)] [Department of Chemistry, Middle East Technical University, Cankaya TR-06800, Ankara (Turkey)

2011-09-16T23:59:59.000Z

367

Biomaterials 28 (2007) 49914999 Targeted binding of PLA microparticles with  

E-Print Network [OSTI]

Biomaterials 28 (2007) 4991­4999 Targeted binding of PLA microparticles with lipid comprised of poly(lactic acid) (PLA) with incorporated poly(ethylene glycol)-lipids (PEG-lipids). Particles/O/W) technique are poly(lactic acid) (PLA) [8,9] and poly(lactic-co-glycolic acid) (PLGA) [10­12], both of which

368

Molecular Cell High-Affinity Binding of Chp1 Chromodomain  

E-Print Network [OSTI]

Molecular Cell Article High-Affinity Binding of Chp1 Chromodomain to K9 Methylated Histone H3, Chp1, and siRNAs derived from centro- meric repeats. Recruitment of RITS to centromeres has been establishment. Our crystal structure of Chp1's chromodomain in complex with a trimethylated lysine 9 H3 peptide

Halazonetis, Thanos

369

Stopbands in the existence domains of acoustic solitons  

SciTech Connect (OSTI)

A fully nonlinear Sagdeev pseudopotential approach is used to study the existence domain of fast mode ion-acoustic solitons in a three-species plasma composed of cold and warm adiabatic positive ion species and Boltzmann electrons. It is shown that for appropriate values of the cold-to-warm ion charge-to-mass ratio, ?, and the effective warm ion-to-electron temperature ratio, ?, there is a range in cold to warm ion charge density ratio, f, over which a stopband in soliton speed exists. Solitons do not propagate in the stopband, although they can occur for both higher and lower speeds. The stopbands are associated with a limiting curve of the existence domain that is double-valued in speed for a range of values of f. Analytical estimates of the upper and lower limits of ? and ? that support stopbands are found. It is suggested that, inter alia, the analysis should be applicable to the solar wind plasma.

Nsengiyumva, F., E-mail: franco.nseng@gmail.com; Hellberg, M. A., E-mail: hellberg@ukzn.ac.za; Mace, R. L., E-mail: macer@ukzn.ac.za [School of Chemistry and Physics, University of KwaZulu-Natal, Durban 4000 (South Africa); Verheest, F., E-mail: frank.verheest@ugent.be [School of Chemistry and Physics, University of KwaZulu-Natal, Durban 4000 (South Africa); Sterrenkundig Observatorium, Universiteit Gent, Krijgslaan 281, B–9000 Gent (Belgium)

2014-10-15T23:59:59.000Z

370

Time Domain Partitioning of Electricity Production Cost Simulations  

SciTech Connect (OSTI)

Production cost models are often used for planning by simulating power system operations over long time horizons. The simulation of a day-ahead energy market can take several weeks to compute. Tractability improvements are often made through model simplifications, such as: reductions in transmission modeling detail, relaxation of commitment variable integrality, reductions in cost modeling detail, etc. One common simplification is to partition the simulation horizon so that weekly or monthly horizons can be simulated in parallel. However, horizon partitions are often executed with overlap periods of arbitrary and sometimes zero length. We calculate the time domain persistence of historical unit commitment decisions to inform time domain partitioning of production cost models. The results are implemented using PLEXOS production cost modeling software in an HPC environment to improve the computation time of simulations while maintaining solution integrity.

Barrows, C.; Hummon, M.; Jones, W.; Hale, E.

2014-01-01T23:59:59.000Z

371

Computer Forensics: you can hide but you canComputer Forensics: you can hide but you can''t deletet delete Dr. Nazli Hardy, 2009Reference: Computer Forensics: Principles and Practice  

E-Print Network [OSTI]

1 Computer Forensics: you can hide but you canComputer Forensics: you can hide but you can''t deletet delete Dr. Nazli Hardy, 2009Reference: Computer Forensics: Principles and Practice Volonino Anzaldua Godwin Computer Forensics April 10, 2009 Presentation for Dr. Maria Schiza's Forensics class

Hardy, Christopher R.

372

Off-Shell NN Potential and Triton Binding Energy  

E-Print Network [OSTI]

The NONLOCAL Bonn-B potential predicts 8.0 MeV binding energy for the triton (in a charge-dependent 34-channel Faddeev calculation) which is about 0.4 MeV more than the predictions by LOCAL NN potentials. We pin down origin and size of the nonlocality in the Bonn potential, in analytic and numeric form. The nonlocality is due to the use of the correct off-shell Feynman amplitude of one-boson-exchange avoiding the commonly used on-shell approximations which yield the local potentials. We also illustrate how this off-shell behavior leads to more binding energy. We emphasize that the increased binding energy is not due to on-shell differences (differences in the fit of the NN data or phase shifts). In particular, the Bonn-B potential reproduces accurately the $\\epsilon_1$ mixing parameter up to 350 MeV as determined in the recent Nijmegen multi-energy NN phase-shift analysis. Adding the relativistic effect from the relativistic nucleon propagators in the Faddeev equations, brings the Bonn-B result up to 8.2 MeV triton binding. This leaves a difference of only 0.3 MeV to experiment, which may possibly be explained by refinements in the treatment of relativity and the inclusion of other nonlocalities (e.~g., quark-gluon exchange at short range). Thus, it is conceivable that a realistic NN potential which describes the NN data up to 300 MeV correctly may explain the triton binding energy without recourse to 3-N forces; relativity would play a major role for this result.

Y. Song; R. Machleidt

1994-03-31T23:59:59.000Z

373

Understanding domain registration abuses Scott E. Coull a,  

E-Print Network [OSTI]

Understanding domain registration abuses Scott E. Coull a, *, Andrew M. White b , Ting-Fang Yen c Carolina, Chapel Hill, NC 27599, USA c RSA Laboratories, Cambridge, MA 02140, USA a r t i c l e i n f o author. E-mail addresses: scott.coull@redjack.com (S.E. Coull), amw@cs.unc.edu (A.M. White), tingfang

Reiter, Michael

374

An Energy Efficient Asynchronous Time-Domain Comparator  

E-Print Network [OSTI]

Approved by: Chair of Committee, Edgar Sanchez-Sinencio Committee Members, Sergiy Butenko Kamran Entesari Mi Lu Head of Department, Chanan Singh May 2013 Major Subject: Electrical Engineering Copyright 2013Yang Gao ii ABSTRACT...-domain comparators. iii DEDICATION To my parents and my beloved wife Qi iv ACKNOWLEDGEMENTS First, I would like to express my sincere thanks to my advisor, Dr. Edgar Sanchez-Sinencio for guidance, support and encouragement throughout my...

Gao, Yang

2013-04-26T23:59:59.000Z

375

Phenomenological theory of a single domain wall in uniaxial trigonal ferroelectrics: Lithium niobate and lithium tantalate  

E-Print Network [OSTI]

Phenomenological theory of a single domain wall in uniaxial trigonal ferroelectrics: Lithium niobate and lithium tantalate David A. Scrymgeour and Venkatraman Gopalan Department of Materials Science, lithium niobate and lithium tantalate. The contributions to the domain- wall energy from polarization

Gopalan, Venkatraman

376

Current-driven Domain Wall Dynamics And Its Electric Signature In Ferromagnetic Nanowires  

E-Print Network [OSTI]

We study current-induced domain wall dynamics in a thin ferromagnetic nanowire. We derive the effective equations of domain wall motion, which depend on the wire geometry and material parameters. We describe the procedure to determine...

Liu, Yang

2012-10-19T23:59:59.000Z

377

A New Methodology for Frequency Domain Analysis of Wave Energy Converters with Periodically Varying Physical Parameters  

E-Print Network [OSTI]

A New Methodology for Frequency Domain Analysis of Wave Energy Converters with Periodically Varying Methodology for Frequency Domain Analysis of Wave Energy Converters with Periodically Varying Physical of Mechanical Engineering) ABSTRACT Within a wave energy converter's operational bandwidth, device operation

Victoria, University of

378

One Work Analysis, Two Domains: A Display Information Requirements Case Study  

E-Print Network [OSTI]

Work domain analyses can be time consuming, requiring extensive interviews, documentation review, and observations, among other techniques. Given the time and resources required, we examine how to generalize a work domain ...

Cummings, M. L.

379

One Work Analysis, Two Domains: A Display Information Requirements Case Study  

E-Print Network [OSTI]

d observations, among other techniques. Given the time and resources required, we examine how to generalize a work domain analysis technique, namely the hybrid Cognitive Task Analysis (hCTA) method across two domains in ...

Cummings, M. L.

2012-01-01T23:59:59.000Z

380

Structural genomics reveals EVE as a new ASCH/PUA-related domain...  

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

reveals EVE as a new ASCHPUA-related domain. Structural genomics reveals EVE as a new ASCHPUA-related domain. Abstract: We report on a number of proteins recently solved by NESG...

Note: This page contains sample records for the topic "bind deleted domain" 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

Modulation Domain Spectral Subtraction for Speech Enhancement Kuldip Paliwal, Belinda Schwerin, Kamil Wojcicki  

E-Print Network [OSTI]

Modulation Domain Spectral Subtraction for Speech Enhancement Kuldip Paliwal, Belinda Schwerin- native to the acoustic domain for speech enhancement. More specifically, we wish to determine how achieves better back- ground noise reduction than the MMSE method. Index Terms: speech enhancement

382

E-Print Network 3.0 - adam22 pro domain Sample Search Results  

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

2 pro domain Search Powered by Explorit Topic List Advanced Search Sample search results for: adam22 pro domain Page: << < 1 2 3 4 5 > >> 1 Role of Leucine-Rich Repeat Proteins in...

383

Cross-domain comparison of quantitative technology improvement using patent derived characteristics  

E-Print Network [OSTI]

This thesis compares the performance improvement rates of 28 technological domains with characteristics derived from the patents of the domains, seeking to objectively test theories of how and why technologies change over ...

Benson, Christopher Lee

2014-01-01T23:59:59.000Z

384

E-Print Network 3.0 - apiai domain se Sample Search Results  

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

- Matematiska institutionen, Uppsala Universitet Collection: Mathematics 42 Service Oriented Architecture Introduction and Research Issues Summary: Domain Area Context Business...

385

Proceedings of Symposia in Pure Mathematics Nodal domains on graphs -How to count them and why?  

E-Print Network [OSTI]

by the pioneering work of Chladni on the nodal structures of vibrating plates. Counting nodal domains started

Smilansky, Uzy

386

A familial {open_quotes}balanced{close_quotes} 3;9 translocation with cryptic 8q insertion leading to deletion and duplication of 9p23 loci in siblings  

SciTech Connect (OSTI)

A child with phenotypic features of the 9p{sup {minus}} syndrome, including metopic craniosynostosis, small ears, abdominal wall defect, and mental retardation, as well as hypopigmentation, was found to have a cytogenetically balanced 3;9 translocation, with breakpoints at 3p11 and 9p23, inherited from his phenotypically normal father. Molecular analysis showed heterozygous deletion of the TYRP (tyrosinase-related protein) locus, as well as loci D9S157, D9S274, D9S268, and D9S267, in the child but in neither parent. FISH analysis of the proband`s father indicated that loci deleted in his son, including TYRP, were present on neither the der(3) nor the der(9) translocation products but had been inserted into the long arm of chromosome 8. Therefore, the apparent deletion of these loci in the proband was the result of meiotic segregation of the father`s 3;9 translocation chromosomes together with his normal chromosome 8 (not bearing the insertion from 9p23). Neither the deletion of these 9p23 loci from the translocation chromosomes nor their insertion into 8q was detectable by standard chromosome banding techniques. The proband`s sister exhibited speech delay, mild facial dysmorphism, and renal malformation, and her karyotype was 46,XX. Molecular analysis showed that she had inherited normal chromosomes 3 and 9, as well as the chromosome 8 with the insertion of 9p23 material, from her father. This analysis illustrates a new mechanism to explain cases in which an apparently balanced translocation has been transmitted from a normal parent to a child with a phenotypic abnormality: submicroscopic deletion of material from the translocation breakpoint and insertion into a third chromosome in the balanced parent, with meiotic segregation leading to loss of the inserted material in the child. 36 refs., 9 figs., 1 tab.

Wagstaff, J.; Hemann, M. [Harvard Medical School, Boston, MA (United States)

1995-01-01T23:59:59.000Z

387

Binding deficits within the visual domain: an associative deficit characteristic of developmental dyslexia or merely a limitation in working memory capacity?   

E-Print Network [OSTI]

Dyslexics have reading difficulties which originate from the inability to accurately store and retrieve associations between a visual representation (grapheme) and the corresponding verbal representation (phoneme) in long ...

Currie, Jennifer

2010-06-30T23:59:59.000Z

388

Architectural Accommodation in the Complex of Four p53 DNA Binding Domain Peptides with the p21/waf1/cip1  

E-Print Network [OSTI]

1/cip1 DNA Response Element* (Received for publication, January 10, 1997, and in revised form, March acids 98­ 309) and the p21/waf1/cip1 DNA response element impli- cated in the G1/S phase cell cycle, gadd45, and p21/waf1/cip1, the last being involved in the G1/S phase checkpoint (5­8). When ex- pressed

Clore, G. Marius

389

Expression and accumulation of the two-domain odorant-binding protein AaegOBP45 in the ovaries of blood-fed Aedes aegypti  

E-Print Network [OSTI]

Nacional de Cięncia e Tecnologia em Entomologia Molecular,Nacional de Cięncia e Tecnologia em Entomologia Molecular,

Costa-da-Silva, André; Kojin, Bianca B; Marinotti, Osvaldo; James, Anthony A; Capurro, Margareth

2013-01-01T23:59:59.000Z

390

High-Resolution NMR Structure of the Chemically-Synthesized Melanocortin Receptor Binding Domain AGRP(87-132) of the Agouti-Related Protein,  

E-Print Network [OSTI]

and associated disorders such as diabetes are now at epidemic levels in the United States and other developed are directly implicated in energy balance. All MCRs are G-protein-coupled receptors (GPCRs) that up countries (1, 2). An understanding at the molecular level of the normal processes governing energy

Puglisi, Joseph

391

Engagement of Nucleotide-Binding Oligomerization Domain-Containing Protein 1 (NOD1) by Receptor Interacting Protein 2 (RIP2) is Insufficient for Signal Transduction.  

E-Print Network [OSTI]

) according to the manufacturer’s instructions. After 24 h, cells were fixed with 3% paraformaldehyde (Roth) in PBS for 10min and permeabilized with 0.5% Triton X-100 (Roth) in cold PBS for 5min. Cells were blocked in 3% BSA (Roth) in PBS for 20 min... interaction. To overcome this prob- lem, we modified the recently reported co-expression system used to study interaction between NOD2 and RIP2 (33). We expressed either GST-NOD1 or His-MBP-NOD1 fusions and GB1-RIP2 fusion CARDs in separate cultures...

Mayle, Sophie; Boyle, Joseph P.; Sekine, Eiki; Zurek, Birte; Kufer, Thomas A.; Monie, Tom P.

2014-06-23T23:59:59.000Z

392

I:EBS 16060 FEBS Letters 372 (1995) 215-221 Classification of multi-helical DNA-binding domains and application to  

E-Print Network [OSTI]

recognition; DNA-protein interaction; Protein folding Resemblance between individual multi-helical DBDs has

393

The Laminin 511/521 Binding Site on the Lutheran Blood Group Glycoprotein is Located at theFlexible Junction of Ig Domains 2 and 3  

E-Print Network [OSTI]

The receptor critical for sickle cell adhesion to laminin. JML, Hines PC et al. Sickle cell adhesion to laminin:glycoprotein / Laminin / sickle cell disease / X- ray

Mankelow, Tosti J.

2009-01-01T23:59:59.000Z

394

Homo-dimerization and ligand binding by the leucine-rich repeat domain at RHG1/RFS2 underlying resistance to two soybean pathogens  

E-Print Network [OSTI]

change in free energy between the wild type protein (Pekingfree energy differences between the 3 mu- tants and the wild

2013-01-01T23:59:59.000Z

395

Propagating and reflecting of spin wave in permalloy nanostrip with 360° domain wall  

SciTech Connect (OSTI)

By micromagnetic simulation, we investigated the interaction between propagating spin wave (or magnonic) and a 360° domain wall in a nanostrip. It is found that propagating spin wave can drive a 360° domain wall motion, and the velocity and direction are closely related to the transmission coefficient of the spin wave of the domain wall. When the spin wave passes through the domain wall completely, the 360° domain wall moves toward the spin wave source. When the spin wave is reflected by the domain wall, the 360° domain wall moves along the spin wave propagation direction. Moreover, when the frequency of the spin wave is coincident with that of the 360° domain wall normal mode, the 360° domain wall velocity will be resonantly enhanced no matter which direction the 360 DW moves along. On the other hand, when the spin wave is reflected from the moving 360° domain wall, we observed the Doppler effect clearly. After passing through a 360° domain wall, the phase of the spin wave is changed, and the phase shift is related to the frequency. Nevertheless, phase shift could be manipulated by the number of 360° domain walls that spin wave passing through.

Zhang, Senfu; Mu, Congpu; Zhu, Qiyuan; Zheng, Qi; Liu, Xianyin; Wang, Jianbo; Liu, Qingfang, E-mail: liuqf@lzu.edu.cn [Key Laboratory for Magnetism and Magnetic Materials of Ministry of Education, Lanzhou University, Lanzhou 730000 (China)

2014-01-07T23:59:59.000Z

396

A Study of Revenue Flows in Packet Networks under Multiple Administrative Domains  

E-Print Network [OSTI]

A Study of Revenue Flows in Packet Networks under Multiple Administrative Domains Saadullah Tareenx that they usually only consider a single network and always consider a single administrative domain when for a detailed study of more realistic networks under multiple administrative domains. The interac- tions between

397

Reflexive Scott domains are not complete for the extensional lambda calculus Alberto Carraro  

E-Print Network [OSTI]

for the -calculus, i.e., there are equations not in which hold in all extensional reflexive Scott domains. (ii). The following are the main results of the paper: (i) Extensional reflexive Scott domains are not complete, Reflexive Scott domains, Filter models. I. INTRODUCTION Lambda theories are congruences on the set of -terms

Salibra, Antonino

398

Modulation-domain Kalman filtering for single-channel speech enhancement  

E-Print Network [OSTI]

Modulation-domain Kalman filtering for single-channel speech enhancement Stephen So , Kuldip K-term correlation speech information in the time domain. As a result, the MDKF method produces enhanced speech speech parameters) outperforms all the acoustic and time-domain enhancement methods that were evaluated

399

BAYESIAN SINGLE CHANNEL SPEECH ENHANCEMENT EXPLOITING SPARSENESS IN THE ICA DOMAIN  

E-Print Network [OSTI]

BAYESIAN SINGLE CHANNEL SPEECH ENHANCEMENT EXPLOITING SPARSENESS IN THE ICA DOMAIN Liang Hong We propose a Bayesian single channel speech enhance- ment algorithm to exploit speech sparseness, further used to estimate enhanced speech in the time domain, and (2) ICA domain transformation of data

Maryland at College Park, University of

400

Phase-field simulation of strain-induced domain switching in magnetic thin films  

E-Print Network [OSTI]

Phase-field simulation of strain-induced domain switching in magnetic thin films Jia-Mian Hu, G of the Bloch point in a magnetic film with strong uniaxial magnetic anisotropy Low Temp. Phys. 37, 690 (2011) Evolution of magnetic bubble domains in manganite films Appl. Phys. Lett. 99, 042503 (2011) 360° domain wall

Chen, Long-Qing

Note: This page contains sample records for the topic "bind deleted domain" 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

In-medium effects for nuclear matter in the Fermi energy domain D. Durand,1  

E-Print Network [OSTI]

In-medium effects for nuclear matter in the Fermi energy domain O. Lopez,1 D. Durand,1 G. Lehaut,1 of nuclear reactions in the Fermi energy domain. I. INTRODUCTION Transport properties in nuclear matter energy domain, transport features should exhibit the in- terplay between mean-field (nuclear degrees

Boyer, Edmond

402

Three-dimensional finite difference time domain modeling of the Earth-ionosphere cavity resonances  

E-Print Network [OSTI]

domain (FDTD) model of Schumann resonances (SR) with a set of classical eigenfrequency and quality factorThree-dimensional finite difference time domain modeling of the Earth-ionosphere cavity resonances-dimensional finite difference time domain modeling of the Earth-ionosphere cavity resonances, Geophys. Res. Lett., 32

Pasko, Victor

403

Compactness of the ? ? -Neumann Operator on the Intersection Domains in ?^(N)  

E-Print Network [OSTI]

) domains satisfies McNeal's property ( P ?). More precisely, let ?_(1) and ?_(2) be bounded (not necessarily smooth) pseudoconvex domains in ?^(n) which intersect each other in a domain ?. If the ? ?-Neumann operators N_(q)^(?_(1)) and N_(q)^(?_(2...

Ayyuru, Mustafa

2014-07-10T23:59:59.000Z

404

Numerical methods for extracting edge stress intensity functions in anisotropic three-dimensional domains  

E-Print Network [OSTI]

) depending on the given body forces and tractions on the other hand. The eigen-pairs (eigen-values and eigen domains is provided in many prior publications [21,12,9,2]. A semi-analytic approach for the eigen domains in the vicinity of an edge is represented by a family of eigen-functions (similar to 2-D domains

Yosibash, Zohar

405

E-Print Network 3.0 - atp-binding rna aptamer Sample Search Results  

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

aptamer Search Powered by Explorit Topic List Advanced Search Sample search results for: atp-binding rna aptamer Page: << < 1 2 3 4 5 > >> 1 Mutant ATP-binding RNA Aptamers Reveal...

406

E-Print Network 3.0 - angiostatin binds atp Sample Search Results  

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

binds atp Search Powered by Explorit Topic List Advanced Search Sample search results for: angiostatin binds atp Page: << < 1 2 3 4 5 > >> 1 Molecular Biology of the Cell Vol. 16,...

407

E-Print Network 3.0 - arabidopsis atp-binding cassette Sample...  

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

atp-binding cassette Search Powered by Explorit Topic List Advanced Search Sample search results for: arabidopsis atp-binding cassette Page: << < 1 2 3 4 5 > >> 1 BioMed Central...

408

E-Print Network 3.0 - abcc9-encoded nucleotide binding Sample...  

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

Biology and Medicine 2 Nucleotide binding and hydrolysis by GlcV Thermodynamics of the ATP hydrolysis cycle of GlcV, Summary: Nucleotide binding and hydrolysis by GlcV 43...

409

High-Affinity Binding and Direct Electron Transfer to Solid Metals...  

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

Binding and Direct Electron Transfer to Solid Metals by the Shewanella oneidensis MR-1 Outer Membrane c-type High-Affinity Binding and Direct Electron Transfer to Solid Metals...

410

acid-binding protein genes: Topics by E-print Network  

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

The adipocyte fatty acid-binding protein aP2 regulates systemic glucose (more) Shum, Bennett Oh Vic 2007-01-01 2 Fatty acid-binding protein in bovine skeletal muscle Texas A&M...

411

acid-binding protein ii: Topics by E-print Network  

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

The adipocyte fatty acid-binding protein aP2 regulates systemic glucose (more) Shum, Bennett Oh Vic 2007-01-01 2 Fatty acid-binding protein in bovine skeletal muscle Texas A&M...

412

acid-binding immunoglobulin-like lectin-6: Topics by E-print...  

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

The adipocyte fatty acid-binding protein aP2 regulates systemic glucose (more) Shum, Bennett Oh Vic 2007-01-01 2 Fatty acid-binding protein in bovine skeletal muscle Texas A&M...

413

E-Print Network 3.0 - affinity brain membrane-binding Sample...  

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

brain membrane-binding Search Powered by Explorit Topic List Advanced Search Sample search results for: affinity brain membrane-binding Page: << < 1 2 3 4 5 > >> 1 Inositol...

414

DOI: 10.1002/cbic.200500285 Binding of Helix-Threading Peptides to E. coli  

E-Print Network [OSTI]

] To further explore and develop the capabilities of the HTP design for binding RNA selectively, we identified duplex grooves. To further explore and develop the capabili- ties of the HTP design for binding RNA

Beal, Peter A.

415

E-Print Network 3.0 - atp-binding cassette transporters Sample...  

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

transporters Search Powered by Explorit Topic List Advanced Search Sample search results for: atp-binding cassette transporters...

416

E-Print Network 3.0 - atp-binding cassette transporter Sample...  

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

transporter Search Powered by Explorit Topic List Advanced Search Sample search results for: atp-binding cassette transporter...

417

E-Print Network 3.0 - atp-binding cassette transport Sample Search...  

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

transport Search Powered by Explorit Topic List Advanced Search Sample search results for: atp-binding cassette transport...

418

E-Print Network 3.0 - aptamers binding reversal Sample Search...  

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

will be covered. Keywords Affinity binding Aptamer Aptasensor Biosensor Microfluidics ... - and nanoscale aptasensors, which are biosensors that exploit aptamers, or...

419

Screening a phage display library for a novel FGF8b-binding peptide with anti-tumor effect on prostate cancer  

SciTech Connect (OSTI)

Fibroblast growth factor 8b (FGF8b) is the major isoform of FGF8 expressed in prostate cancer and it correlates with the stage and grade of the disease. FGF8b has been considered as a potential target for prostate cancer therapy. Here we isolated 12 specific FGF8b-binding phage clones by screening a phage display heptapeptide library with FGF8b. The peptide (HSQAAVP, named as P12) corresponding to one of these clones showed high homology to the immunoglobulin-like (Ig-like) domain II(D2) of high-affinity FGF8b receptor (FGFR3c), contained 3 identical amino acids (AVP) to the authentic FGFR3 D2 sequence aa 163–169 (LLAVPAA) directly participating in ligand binding, carried the same charges as its corresponding motif (aa163–169) in FGFR3c, suggesting that P12 may have a greater potential to interrupt FGF8b binding to its receptors than other identified heptapeptides do. Functional analysis indicated that synthetic P12 peptides mediate significant inhibition of FGF8b-induced cell proliferation, arrest cell cycle at the G0/G1 phase via suppression of Cyclin D1 and PCNA, and blockade of the activations of Erk1/2 and Akt cascades in both prostate cancer cells and vascular endothelial cells. The results demonstrated that the P12 peptide acting as an FGF8b antagonist may have therapeutic potential in prostate cancer. - Highlights: ? A novel FGF8b-binding peptide P12 was isolated from a phage display library. ? The mechanisms for P12 peptide inhibiting cell proliferation were proposed. ? P12 caused cell cycle arrest at G0/G1 phase via suppression of Cyclin D1 and PCNA. ? P12 suppressed FGF8b-induced activations of Akt and MAP kinases. ? P12 acting as an FGF8b antagonist may have therapeutic potential in prostate cancer.

Wang, Wenhui; Chen, Xilei; Li, Tao; Li, Yanmei; Wang, Ruixue; He, Dan; Luo, Wu [Institute of Tissue Transplantation and Immunology, Jinan University, Guangzhou 510632 (China); Li, Xiaokun [Institute of Tissue Transplantation and Immunology, Jinan University, Guangzhou 510632 (China); School of Pharmaceutical Science, Wenzhou Medical College, Wenzhou 325035 (China); Wu, Xiaoping, E-mail: twxp@jnu.edu.cn [Institute of Tissue Transplantation and Immunology, Jinan University, Guangzhou 510632 (China); School of Pharmaceutical Science, Wenzhou Medical College, Wenzhou 325035 (China)

2013-05-01T23:59:59.000Z

420

Uranium Exerts Acute Toxicity by Binding to Pyrroloquinoline Quinone Cofactor  

SciTech Connect (OSTI)

Uranium as an environmental contaminant has been shown to be toxic to eukaryotes and prokaryotes; however, no specific mechanisms of uranium toxicity have been proposed so far. Here a combination of in vivo, in vitro, and in silico studies are presented describing direct inhibition of pyrroloquinoline quinone (PQQ)-dependent growth and metabolism by uranyl cations. Electrospray-ionization mass spectroscopy, UV-vis optical spectroscopy, competitive Ca2+/uranyl binding studies, relevant crystal structures, and molecular modeling unequivocally indicate the preferred binding of uranyl simultaneously to the carboxyl oxygen, pyridine nitrogen, and quinone oxygen of the PQQ molecule. The observed toxicity patterns are consistent with the biotic ligand model of acute metal toxicity. In addition to the environmental implications, this work represents the first proposed molecular mechanism of uranium toxicity in bacteria, and has relevance for uranium toxicity in many living systems.

Michael R. VanEngelen; Robert I. Szilagyi; Robin Gerlach; Brady E. Lee; William A. Apel; Brent M. Peyton

2011-02-01T23:59:59.000Z

Note: This page contains sample records for the topic "bind deleted domain" 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 phenomenological formula for ground state binding energies  

E-Print Network [OSTI]

A phenomenological formula based on liquid drop model has been proposed for ground state binding energies of nuclei. The effect due to bunching of single particle levels has been incorporated through a term resembling the one-body Hamiltonian. The effect of n-p interaction has been included through a function of valence nucleons. A total of 50 parameters has been used in the present calculation. The r.m.s. deviation for the binding energy values for 2140 nuclei comes out to be 0.376 MeV, and that for 1091 alpha decay energies is 0.284 MeV. The correspondence with the conventional liquid drop model is discussed.

G. Gangopadhyay

2010-07-09T23:59:59.000Z

422

Nuclear binding, correlations and the origin of EMC effect  

E-Print Network [OSTI]

Recent data for the slope of the EMC-ratio in the intermediate $x$-region for {\\em light} nuclei, with $3 \\leq A \\leq 12$, have the potential to shed new light on the origin of the EMC effect. Here we study the role of nuclear binding using the scaling variable ${\\tilde y}$, best suited to take into account this effect, and the understanding of the average nucleon removal energies, $\\bar{E}$, provided by state-of-the-art calculations based on nuclear many body theory. We find an excellent correlation between the new EMC data at $x \\sim 0.5$ and $\\bar{E}$ for nuclei with $A$ from 3 to $\\infty$, indicating that in this $x$ region binding is an important ingredient to explain the EMC effect. The role played by nucleon-nucleon correlations in this context is also discussed.

Omar Benhar; Ingo SIck

2012-07-19T23:59:59.000Z

423

Nuclear binding, correlations and the origin of EMC effect  

E-Print Network [OSTI]

Recent data for the slope of the EMC-ratio in the intermediate $x$-region for {\\em light} nuclei, with $3 \\leq A \\leq 12$, have the potential to shed new light on the origin of the EMC effect. Here we study the role of nuclear binding using the scaling variable ${\\tilde y}$, best suited to take into account this effect, and the understanding of the average nucleon removal energies, $\\bar{E}$, provided by state-of-the-art calculations based on nuclear many body theory. We find an excellent correlation between the new EMC data at $x \\sim 0.5$ and $\\bar{E}$ for nuclei with $A$ from 3 to $\\infty$, indicating that in this $x$ region binding is an important ingredient to explain the EMC effect. The role played by nucleon-nucleon correlations in this context is also discussed.

Benhar, Omar

2012-01-01T23:59:59.000Z

424

Persistent conductive footprints of 109° domain walls in bismuth ferrite films  

SciTech Connect (OSTI)

Using conductive and piezoforce microscopy, we reveal a complex picture of electronic transport at weakly conductive 109° domain walls in bismuth ferrite films. Even once initial ferroelectric stripe domains are changed/erased, persistent conductive paths signal the original domain wall position. The conduction at such domain wall “footprints” is activated by domain movement and decays rapidly with time, but can be re-activated by opposite polarity voltage. The observed phenomena represent true leakage conduction rather than merely displacement currents. We propose a scenario of hopping transport in combination with thermionic injection over interfacial barriers controlled by the ferroelectric polarization.

Stolichnov, I.; Iwanowska, M.; Colla, E.; Setter, N. [Ceramics Laboratory, EPFL-Swiss Federal Institute of Technology, Lausanne 1015 (Switzerland); Ziegler, B.; Gaponenko, I.; Paruch, P. [DPMC-MaNEP, University of Geneva, 24 Quai Ernest Ansermet, 1211 Geneva 4 (Switzerland); Huijben, M.; Rijnders, G. [Faculty of Science and Technology and MESA Institute for Nanotechnology, University of Twente, 7500 AE Enschede (Netherlands)

2014-03-31T23:59:59.000Z

425

Accelerated Articles Direct Electrical Transduction of Antibody Binding  

E-Print Network [OSTI]

Using Electrochemical Impedance Li-Mei C. Yang, Juan E. Diaz, Theresa M. McIntire, Gregory A. Weiss-2025 Electrochemical impedance spectroscopy is used to detect the binding of a 148.2 kDa antibody to a "covalent virusM but noise compromised the reproducibility of the p-Ab measurement at frequencies below 40 Hz. A "signal-to-noise

Weiss, Gregory A.

426

ATM Networking in Linux Bindings occur at four distinct times  

E-Print Network [OSTI]

the following call: sock_register(pvc_proto_ops.family, &pvc_proto_ops); Family is PF_ATMPVC (as in PF_INET) pvc_len); : For ATM PVCs the structure is filled in as follows: static struct proto_ops pvc_proto_ops = { PF_ATMPVC, atm_create, pvc_dup, atm_release, pvc_bind, pvc_connect, : · The entry point addresses

Westall, James M.

427

ATM Networking in Linux Bindings occur at four distinct times  

E-Print Network [OSTI]

using the following call: sock_register(pvc_proto_ops.family, &pvc_proto_ops); Family is PF_ATMPVC (as in PF_INET) pvc_proto_ops is a table of entry point addresses: struct proto_ops { int family; int_ops pvc_proto_ops = { PF_ATMPVC, atm_create, pvc_dup, atm_release, pvc_bind, pvc_connect, : . The entry

Westall, James M.

428

High molecular weight polysaccharide that binds and inhibits virus  

DOE Patents [OSTI]

This invention provides a high molecular weight polysaccharide capable of binding to and inhibiting virus and related pharmaceutical formulations and methods on inhibiting viral infectivity and/or pathogenicity, as well as immunogenic compositions. The invention further methods of inhibiting the growth of cancer cells and of ameliorating a symptom of aging. Additionally, the invention provides methods of detecting and/or quantifying and/or isolating viruses.

Konowalchuk, Thomas W

2014-01-14T23:59:59.000Z

429

Efficient Evaluation of Binding Free Energy Using Continuum Electrostatics Danzhi Huang and Amedeo Caflisch*  

E-Print Network [OSTI]

Efficient Evaluation of Binding Free Energy Using Continuum Electrostatics Solvation Danzhi Huang of the absolute free energy of binding. A predictive accuracy of about 1.0 kcal/mol is obtained for 13 and 29 into proteins of known structure require fast and accurate methods for the evaluation of binding free energies.1

Caflisch, Amedeo

430

Theory of Free Energy and Entropy in Noncovalent Binding Huan-Xiang Zhou*,  

E-Print Network [OSTI]

Theory of Free Energy and Entropy in Noncovalent Binding Huan-Xiang Zhou*, and Michael K. Gilson, Rockville, Maryland 20850 Received December 23, 2008 Contents 1. Introduction 4092 2. Free Energy, Partition.4. Solvation and a Temperature-Dependent Energy Function 4096 3. Binding Free Energy and Binding Constant 4096

Weston, Ken

431

DNA binding shifts the redox potential of the transcription factor SoxR  

E-Print Network [OSTI]

DNA binding shifts the redox potential of the transcription factor SoxR Alon A. Gorodetsky , Lars E-modified electrodes are used to probe the effects of binding to DNA on the redox potential of SoxR, a transcription in the absence of DNA. Using Redmond red as a covalently bound redox reporter affixed above the SoxR binding site

Dietrich, Lars

432

Journal of Cellular Biochemistry 80:580588 (2001) Characterization of Nuclear Factors Binding to  

E-Print Network [OSTI]

). It was suggested that these elements might play a role in deter- mining the activity of the p53 promoter [Bienz that the binding proteins did not require divalent cation for DNA-binding activity. In addition, the binding. The mutations of the gene have been observed in over 50% of all human cancers [Hollstein et al., 1991; Levine et

Park, Jong-Sang

433

Deciphering the Effect of Nemaline-Myopathy Nebulin Mutations on Desmin Binding  

E-Print Network [OSTI]

-disc of the muscle sarcomere. The Z-disk peripheral region binds desmin (Bang et al., 2002; Conover et al, 2009). The N-terminus of nebulin binds tropomodulin at the pointed end of the thin filament (McElhinny et al., 2001). Tropomodulin acts to bind and cap...

Jacobs, Krystyna M

2012-07-11T23:59:59.000Z

434

oligomeric and polymeric DNA Large electrostatic differences in the binding thermodynamics of a cationic peptide to  

E-Print Network [OSTI]

oligomeric and polymeric DNA Large electrostatic differences in the binding thermodynamics electrostatic differences in the binding thermodynamics of a cationic peptide to oligomeric and polymeric DNA binding to polymeric and oligomeric DNA are not equivalent because of long-range electrostatic effects

Lohman, Timothy M.

435

In-silico and in-vitro elucidation of BH3 binding specificity towards Bcl-2  

E-Print Network [OSTI]

Interactions between Bcl-2-like proteins and BH3 domains play a key role in the regulation of apoptosis. Despite the overall structural similarity of their interaction with helical BH3 domains, Bcl-2-like proteins exhibit ...

London, Nir

436

The Australian domain name registration system : a more efficient system for the promotion of liberalisation, consumer protection and growth.  

E-Print Network [OSTI]

??This thesis is about the Australian domain name system and, in particular, the principles governing the registration of domain names in the '.au' country code… (more)

Ng, Jenny Swee Gaik

2009-01-01T23:59:59.000Z

437

Binding of cobalt and iron to cavities in silicon  

SciTech Connect (OSTI)

The chemisorption binding of Co and Fe to cavity walls in Si was quantitatively characterized in the temperature range 973{endash}1273 K in order to evaluate the efficacy of cavities for impurity gettering. The cavities were formed by He ion implantation and annealing. Then, with the solution concentration of Co or Fe being held at the solid solubility through prior formation of excess metal-silicide phase, the equilibrium number of metal atoms bound to the cavities was measured. Using this information in conjunction with published solubilities, a binding free energy relative to interstitial solution was extracted. The binding free energies for cavity-wall chemisorption of Co and Fe were found to be less than those for precipitation of the respective silicide phases, a reversal of the ordering previously observed by us for Cu and Au. Nevertheless, model calculations indicate that the chemisorption mechanism is important together with silicide precipitation for cavity gettering of all four elements. The results of this work, taken with the known thermal stability and the anticipated device-side compatibility of cavities, suggest that these sinks will prove attractive for gettering.

Myers, S.M.; Petersen, G.A.; Seager, C.H. [Sandia National Laboratories, P.O. Box 5800, Albuquerque, New Mexico 87185-1056 (United States)] [Sandia National Laboratories, P.O. Box 5800, Albuquerque, New Mexico 87185-1056 (United States)

1996-10-01T23:59:59.000Z

438

Energy dissipation in single-domain ferromagnetic nanoparticles: Dynamical approach  

E-Print Network [OSTI]

We study, both analytically and numerically, the phenomenon of energy dissipation in single-domain ferromagnetic nanoparticles driven by an alternating magnetic field. Our interest is focused on the power loss resulting from the Landau-Lifshitz-Gilbert equation, which describes the precessional motion of the nanoparticle magnetic moment. We determine the power loss as a function of the field amplitude and frequency and analyze its dependence on different regimes of forced precession induced by circularly and linearly polarized magnetic fields. The conditions to maximize the nanoparticle heating are also analyzed.

T. V. Lyutyy; S. I. Denisov; A. Yu. Peletskyi; C. Binns

2015-02-14T23:59:59.000Z

439

Two-dimensional random walk in a bounded domain  

E-Print Network [OSTI]

In a recent Letter Ciftci and Cakmak [EPL 87, 60003 (2009)] showed that the two dimensional random walk in a bounded domain, where walkers which cross the boundary return to a base curve near origin with deterministic rules, can produce regular patterns. Our numerical calculations suggest that the cumulative probability distribution function of the returning walkers along the base curve is a Devil's staircase, which can be explained from the mapping of these walks to a non-linear stochastic map. The non-trivial probability distribution function(PDF) is a universal feature of CCRW characterized by the fractal dimension d=1.75(0) of the PDF bounding curve.

Mahashweta Basu; P. K. Mohanty

2009-10-30T23:59:59.000Z

440

Dynein Motor Domain Shows Ring-Shaped Motor, Buttress  

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 MayAtmospheric Optical Depth7-1D: Vegetation Proposed NewcatalystNeutron scattering characterizes dynamics in polymerDynein Motor Domain

Note: This page contains sample records for the topic "bind deleted domain" 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

Stochastic Domain-Wall Depinning in Magnetic Nanowires  

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 Administrationcontroller systemsBiSiteNeutron Scattering4American'! I ,Stochastic Domain-Wall

442

Two-dimensional random walk in a bounded domain  

E-Print Network [OSTI]

In a recent Letter Ciftci and Cakmak [EPL 87, 60003 (2009)] showed that the two dimensional random walk in a bounded domain, where walkers which cross the boundary return to a base curve near origin with deterministic rules, can produce regular patterns. Our numerical calculations suggest that the cumulative probability distribution function of the returning walkers along the base curve is a Devil's staircase, which can be explained from the mapping of these walks to a non-linear stochastic map. The non-trivial probability distribution function(PDF) is a universal feature of CCRW characterized by the fractal dimension d=1.75(0) of the PDF bounding curve.

Basu, Mahashweta

2010-01-01T23:59:59.000Z

443

A familial {open_quotes}balanced{close_quotes} 3;9 translocation with cryptic 8q insertion leading to deletion and duplication of 9p23 loci in siblings  

SciTech Connect (OSTI)

Families in which a balanced translocation has been transmitted from a normal parent to a child with a phenotypic abnormality have been a longstanding puzzle for human geneticists. A child with phenotypic features of the 9p- syndrome, including metopic craniosynostosis, small ears, abdominal wall defect, and mental retardation, was found to have a cytogenetically balanced 3;9 translocation, with breakpoints at 3p11 and 9p23, inherited from his normal father. He also exhibited marked hypopigmentation of hair and skin. Analysis with a cDNA probe from the TYRP1 (tyrosinase-related protein 1) gene in 9p23 showed heterozygous deletion in the child but in neither parent. This submicroscopic deletion also included loci D9S157, D9S274, D9S268, and D9S267. FISH analysis of the proband`s father indicated the 9p23 loci deleted in his son were present on neither the der(3) nor the der(9) translocation product, but had been inserted into the long arm of chromosome 8. Therefore, the apparent deletion of these loci in the proband was the result of meiotic segregation of the father`s 3;9 translocation chromosomes together with his normal chromosome 8. Neither the deletion from the translocation chromosomes nor the insertion into 8q was detectable by standard chromosome banding techniques. The proband`s sister exhibited speech delay, mild facial dysmorphism, and renal malformation, and her karyotype was 46,XX. Molecular analysis of this sister showed 3 copies of 9p23 sequences, indicating that she had inherited normal chromosomes 3 and 9 from her father as well as the chromosome 8 with the insertion from 9p23. This analysis illustrates a new mechanism to explain cases of phenotypic discordance in familial balanced translocations: submicroscopic deletion of material from the translocation breakpoint and insertion into a third chromosome in the balanced parent, with meiotic segregation leading to loss of the inserted material in the child.

Wagstaff, J.; Hemann, M. [Children`s Hospital and Harvard Medical School, Boston, MA (United States)

1994-09-01T23:59:59.000Z

444

Somatic mutational analysis of FAK in breast cancer: A novel gain-of-function mutation due to deletion of exon 33  

SciTech Connect (OSTI)

Highlights: •A novel FAK splicing mutation identified in breast tumor. •FAK-Del33 mutation promotes cell migration and invasion. •FAK-Del33 mutation regulates FAK/Src signal pathway. -- Abstract: Focal adhesion kinase (FAK) regulates cell adhesion, migration, proliferation, and survival. We identified a novel splicing mutant, FAK-Del33 (exon 33 deletion, KF437463), in both breast and thyroid cancers through colony sequencing. Considering the low proportion of mutant transcripts in samples, this mutation was detected by TaqMan-MGB probes based qPCR. In total, three in 21 paired breast tissues were identified with the FAK-Del33 mutation, and no mutations were found in the corresponding normal tissues. When introduced into a breast cell line through lentivirus infection, FAK-Del33 regulated cell motility and migration based on a wound healing assay. We demonstrated that the expression of Tyr397 (main auto-phosphorylation of FAK) was strongly increased in FAK-Del33 overexpressed breast tumor cells compared to wild-type following FAK/Src RTK signaling activation. These results suggest a novel and unique role of the FAK-Del33 mutation in FAK/Src signaling in breast cancer with significant implications for metastatic potential.

Fang, Xu-Qian [Department of Clinical Laboratory, Ruijin Hospital, Shanghai JiaoTong University School of Medicine, Shanghai (China)] [Department of Clinical Laboratory, Ruijin Hospital, Shanghai JiaoTong University School of Medicine, Shanghai (China); Liu, Xiang-Fan [Faculty of Medical Laboratory Science, Shanghai JiaoTong University School of Medicine, Shanghai (China)] [Faculty of Medical Laboratory Science, Shanghai JiaoTong University School of Medicine, Shanghai (China); Yao, Ling [Department of Biochemistry and Molecular Biology, Shanghai JiaoTong University School of Medicine, Shanghai (China)] [Department of Biochemistry and Molecular Biology, Shanghai JiaoTong University School of Medicine, Shanghai (China); Chen, Chang-Qiang; Gu, Zhi-Dong [Department of Clinical Laboratory, Ruijin Hospital, Shanghai JiaoTong University School of Medicine, Shanghai (China)] [Department of Clinical Laboratory, Ruijin Hospital, Shanghai JiaoTong University School of Medicine, Shanghai (China); Ni, Pei-Hua [Faculty of Medical Laboratory Science, Shanghai JiaoTong University School of Medicine, Shanghai (China)] [Faculty of Medical Laboratory Science, Shanghai JiaoTong University School of Medicine, Shanghai (China); Zheng, Xin-Min [Department of Biochemistry and Molecular Biology, Shanghai JiaoTong University School of Medicine, Shanghai (China) [Department of Biochemistry and Molecular Biology, Shanghai JiaoTong University School of Medicine, Shanghai (China); Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY (United States); Fan, Qi-Shi, E-mail: qishifan@126.com [Department of Clinical Laboratory, Ruijin Hospital, Shanghai JiaoTong University School of Medicine, Shanghai (China)] [Department of Clinical Laboratory, Ruijin Hospital, Shanghai JiaoTong University School of Medicine, Shanghai (China)

2014-01-10T23:59:59.000Z

445

Functional clonal deletion versus suppressor cell-induced transplantation tolerance in chimeras prepared with a short course of total-lymphoid irradiation  

SciTech Connect (OSTI)

Allogeneic bone marrow (BM) chimeras induced by infusion of BM cells into recipients conditioned with total lymphoid irradiation (TLI) were shown to develop humoral and cell-mediated tolerance to host and donor-type alloantigens by a number of in vitro and in vivo assays. Spleen cells of tolerant chimeras exhibited suppressive activity of mixed lymphocyte reaction (MLR). MLR suppression was not abrogated by depletion of Lyt-2 cells, and neither could Lyt-2-positive cells sorted from the spleens of tolerant chimeras suppress MLR or attenuate graft-versus-host reactivity in vivo. Likewise, specifically unresponsive spleen cells obtained from chimeras could not be induced to respond in MLR against tolerizing host-type cells following depletion of Lyt-2 or passage through a nylon-wool column. Tolerance of chimera spleen cells to host alloantigens, best documented by permanent survival of donor-type skin allografts, could be adoptively transferred into syngeneic recipients treated by heavy irradiation but not into untreated or mildly irradiated recipients. Adoptive transfer of tolerance seemed to be associated with experimental conditions favoring engraftment of tolerant cells rather than suppression of host reactivity. We speculate that although host and/or donor-derived suppressor cells may be operating in reducing the pool of specific alloreactive clones by blocking cell proliferation in response to allogeneic challenge, the final outcome in tolerant chimeras is actual or functional deletion of alloreactive clones.

Slavin, S.; Morecki, S.; Weigensberg, M.; Bar, S.; Weiss, L.

1986-06-01T23:59:59.000Z

446

Anti-phase domains in cubic GaN  

SciTech Connect (OSTI)

The existence of anti-phase domains in cubic GaN grown on 3C-SiC/Si (001) substrates by plasma-assisted molecular beam epitaxy is reported. The influence of the 3C-SiC/Si (001) substrate morphology is studied with emphasis on the anti-phase domains (APDs). The GaN nucleation is governed by the APDs of the substrate, resulting in equal plane orientation and the same anti-phase boundaries. The presence of the APDs is independent of the GaN layer thickness. Atomic force microscopy surface analysis indicates lateral growth anisotropy of GaN facets in dependence of the APD orientation. This anisotropy can be linked to Ga and N face types of the {l_brace}111{r_brace} planes, similar to observations of anisotropic growth in 3C-SiC. In contrast to 3C-SiC, however, a difference in GaN phase composition for the two types of APDs can be measured by electron backscatter diffraction, {mu}-Raman and cathodoluminescence spectroscopy.

Maria Kemper, Ricarda; Schupp, Thorsten; Haeberlen, Maik; Lindner, Joerg; Josef As, Donat [University of Paderborn, Department of Physics, Warburger Str. 100, D-33098 Paderborn (Germany); Niendorf, Thomas; Maier, Hans-Juergen [University of Paderborn, Lehrstuhl fuer Werkstoffkunde, Pohlweg 47-49, D-33098 Paderborn (Germany); Dempewolf, Anja; Bertram, Frank; Christen, Juergen [University of Magdeburg, Institut fuer Festkoerperphysik, P.O. Box 4120, D-39016 Magdeburg (Germany); Kirste, Ronny; Hoffmann, Axel [Technische Universitaet Berlin, Institute of Solid State Physics, Hardenbergstr. 36, D-10623 Berlin (Germany)

2011-12-15T23:59:59.000Z

447

Tips for implementing multigrid methods on domains containing holes  

E-Print Network [OSTI]

As part of our development of a computer code to perform 3D `constrained evolution' of Einstein's equations in 3+1 form, we discuss issues regarding the efficient solution of elliptic equations on domains containing holes (i.e., excised regions), via the multigrid method. We consider as a test case the Poisson equation with a nonlinear term added, as a means of illustrating the principles involved, and move to a "real world" 3-dimensional problem which is the solution of the conformally flat Hamiltonian constraint with Dirichlet and Robin boundary conditions. Using our vertex-centered multigrid code, we demonstrate globally second-order-accurate solutions of elliptic equations over domains containing holes, in two and three spatial dimensions. Keys to the success of this method are the choice of the restriction operator near the holes and definition of the location of the inner boundary. In some cases (e.g. two holes in two dimensions), more and more smoothing may be required as the mesh spacing decreases to zero; however for the resolutions currently of interest to many numerical relativists, it is feasible to maintain second order convergence by concentrating smoothing (spatially) where it is needed most. This paper, and our publicly available source code, are intended to serve as semi-pedagogical guides for those who may wish to implement similar schemes.

Scott H. Hawley; Richard A. Matzner

2003-11-18T23:59:59.000Z

448

Phylogenomic and functional domain analysis of polyketide synthases in Fusarium  

SciTech Connect (OSTI)

Fusarium species are ubiquitous in nature, cause a range of plant diseases, and produce a variety of chemicals often referred to as secondary metabolites. Although some fungal secondary metabolites affect plant growth or protect plants from other fungi and bacteria, their presence in grain based food and feed is more often associated with a variety of diseases in plants and in animals. Many of these structurally diverse metabolites are derived from a family of related enzymes called polyketide synthases (PKSs). A search of genomic sequence of Fusarium verticillioides, F. graminearum, F. oxysporum and Nectria haematococca (anamorph F. solani) identified a total of 58 PKS genes. To gain insight into how this gene family evolved and to guide future studies, we conducted a phylogenomic and functional domain analysis. The resulting genealogy suggested that Fusarium PKSs represent 34 different groups responsible for synthesis of different core metabolites. The analyses indicate that variation in the Fusarium PKS gene family is due to gene duplication and loss events as well as enzyme gain-of-function due to the acquisition of new domains or of loss-of-function due to nucleotide mutations. Transcriptional analysis indicate that the 16 F. verticillioides PKS genes are expressed under a range of conditions, further evidence that they are functional genes that confer the ability to produce secondary metabolites.

Brown, Daren W.; Butchko, Robert A.; Baker, Scott E.; Proctor, Robert H.

2012-02-01T23:59:59.000Z

449

Hydroxyapatite-binding peptides for bone growth and inhibition  

DOE Patents [OSTI]

Hydroxyapatite (HA)-binding peptides are selected using combinatorial phage library display. Pseudo-repetitive consensus amino acid sequences possessing periodic hydroxyl side chains in every two or three amino acid sequences are obtained. These sequences resemble the (Gly-Pro-Hyp).sub.x repeat of human type I collagen, a major component of extracellular matrices of natural bone. A consistent presence of basic amino acid residues is also observed. The peptides are synthesized by the solid-phase synthetic method and then used for template-driven HA-mineralization. Microscopy reveal that the peptides template the growth of polycrystalline HA crystals .about.40 nm in size.

Bertozzi, Carolyn R. (Berkeley, CA); Song, Jie (Shrewsbury, MA); Lee, Seung-Wuk (Walnut Creek, CA)

2011-09-20T23:59:59.000Z

450

DNA-Binding Mechanism in Prokaryotic Partition Complex Formation  

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 MayAtmospheric Optical Depth7-1D: Vegetation Proposed Newcatalyst phases onOrganization FY Middle SchoolARM-TR-01468This4t cDNA-Binding

451

Holographic imaging based on time-domain data of natural-fiber-containing materials  

DOE Patents [OSTI]

Methods and apparatuses for imaging material properties in natural-fiber-containing materials can utilize time-domain data. In particular, images can be constructed that provide quantified measures of localized moisture content. For example, one or more antennas and at least one transceiver can be configured to collect time-domain data from radiation interacting with the natural-fiber-containing materials. The antennas and the transceivers are configured to transmit and receive electromagnetic radiation at one or more frequencies, which are between 50 MHz and 1 THz, according to a time-domain impulse function. A computing device is configured to transform the time-domain data to frequency-domain data, to apply a synthetic imaging algorithm for constructing a three-dimensional image of the natural-fiber-containing materials, and to provide a quantified measure of localized moisture content based on a pre-determined correlation of moisture content to frequency-domain data.

Bunch, Kyle J.; McMakin, Douglas L.

2012-09-04T23:59:59.000Z

452

Investigation of dominant spin wave modes by domain walls collision  

SciTech Connect (OSTI)

Spin wave emission due to field-driven domain wall (DW) collision has been investigated numerically and analytically in permalloy nanowires. The spin wave modes generated are diagonally symmetric with respect to the collision point. The non-propagating mode has the highest amplitude along the middle of the width. The frequency of this mode is strongly correlated to the nanowire geometrical dimensions and is independent of the strength of applied field within the range of 0.1?mT to 1?mT. For nanowire with film thickness below 5?nm, a second spin wave harmonic mode is observed. The decay coefficient of the spin wave power suggests that the DWs in a memory device should be at least 300?nm apart for them to be free of interference from the spin waves.

Ramu, M.; Purnama, I.; Goolaup, S.; Chandra Sekhar, M.; Lew, W. S., E-mail: wensiang@ntu.edu.sg [School of Physical and Mathematical Sciences, Nanyang Technological University, 21 Nanyang Link, Singapore 637371 (Singapore)

2014-06-28T23:59:59.000Z

453

Time-domain simulation of the full hydrodynamic model  

E-Print Network [OSTI]

A simple upwind discretization of the highly coupled non-linear differential equations which define the hydrodynamic model for semiconductors is given in full detail. The hydrodynamic model is able to describe inertia effects which play an increasing role in different fields of opto- and microelectronics. A silicon $n^+ - n - n^+$ - structure is simulated, using the energy-balance model and the full hydrodynamic model. Results for stationary cases are then compared, and it is pointed out where the energy-balance model, which is implemented in most of today's commercial semiconductor device simulators, fails to describe accurately the electron dynamics. Additionally, a GaAs $n^+ - n - n^+$-structure is simulated in time-domain in order to illustrate the importance of inertia effects at high frequencies in modern submicron devices.

Aste, A

2003-01-01T23:59:59.000Z

454

Detecting Rare Events in the Time-Domain  

SciTech Connect (OSTI)

One of the biggest challenges in current and future time-domain surveys is to extract the objects of interest from the immense data stream. There are two aspects to achieving this goal: detecting variable sources and classifying them. Difference imaging provides an elegant technique for identifying new transients or changes in source brightness. Much progress has been made in recent years toward refining the process. We discuss a selection of pitfalls that can afflict an automated difference imagine pipeline and describe some solutions. After identifying true astrophysical variables, we are faced with the challenge of classifying them. For rare events, such as supernovae and microlensing, this challenge is magnified because we must balance having selection criteria that select for the largest number of objects of interest against a high contamination rate. We discuss considerations and techniques for developing classification schemes.

Rest, A; Garg, A

2008-10-31T23:59:59.000Z

455

Crossed-ratchet effects and domain wall geometrical pinning  

E-Print Network [OSTI]

The motion of a domain wall in a two dimensional medium is studied taking into account the internal elastic degrees of freedom of the wall and geometrical pinning produced both by holes and sample boundaries. This study is used to analyze the geometrical conditions needed for optimizing crossed ratchet effects in periodic rectangular arrays of asymmetric holes, recently observed experimentally in patterned ferromagnetic films. Geometrical calculations and numerical simulations have been used to obtain the anisotropic critical fields for depinning flat and kinked walls in rectangular arrays of triangles. The aim is to show with a generic elastic model for interfaces how to build a rectifier able to display crossed ratchet effects or effective potential landscapes for controlling the motion of interfaces or invasion fronts.

V. I. Marconi; A. B. Kolton; J. A. Capitan; J. A. Cuesta; A. Perez-Junquera; M. Velez; J. I. Martin; J. M. R. Parrondo

2010-12-25T23:59:59.000Z

456

AMRNodeElliptic user guide: On irregular problem domains  

SciTech Connect (OSTI)

This document describes an extension to the Chombo package [CGL+00] for solving elliptic equations using adaptive mesh refinement on multiple levels with node-centered data on non-rectangular domains. See the AMRNodeElliptic design document [McC02] for a description of the algorithms used. Chapter 2 describes the subroutines that the user must supply to describe the geometry and the operator. Chapter 3 describes the class NodeFArrayBox and functions that use this class to manipulate node-centered data. Interfaces for elliptic equation solvers are described in chapter 4. Some internal classes of the solvers are described in chapter 5. User interfaces for physical boundary conditions are described in chapter 6. The AMRNodeElliptic package requires that Chombo library be installed. See chapter 1 of the Chombo design document [CGL+00] for requirements and installation of Chombo.

McCorquodale, Peter

2003-04-15T23:59:59.000Z

457

Seismic attenuation studies using frequency domain synthetic seismograms  

E-Print Network [OSTI]

of Model 6. Reflection coefficient is z. 0137 in each case. 0 1s varied to show the resulting effect on the notches in the ratio, , 37. Downgo1ng time domain ratios for the first permuta- tion of 11odel 6. (} 1s 30 in each case. Reflection coefficient... 1 = n t, i=n m 1 E = 11 a)~ n, m-1 m-1 ~n, m-1 & Fi i=n n m-1 (A)n, m an, m-1 21 an qm-1 12 22 m-1 11 i=n al 11 12 a21 a22 1 1 z;F; r; 1=n z. F. 2r. I 1 1 1 From the basic matrix equations (6), (7), (8), and (9), the responses Ri...

Butler, Theresa Meade

2012-06-07T23:59:59.000Z

458

The Era GTPase recognizes the GAUCACCUCC sequence and binds helix 45 near the 3; end of 16S rRNA  

SciTech Connect (OSTI)

Era, composed of a GTPase domain and a K homology domain, is essential for bacterial cell viability. It is required for the maturation of 16S rRNA and assembly of the 30S ribosomal subunit. We showed previously that the protein recognizes nine nucleotides (1531{sup AUCACCUCC}1539) near the 3{prime} end of 16S rRNA, and that this recognition stimulates GTP-hydrolyzing activity of Era. In all three kingdoms of life, the 1530{sup GAUCA}1534 sequence and helix 45 (h45) (nucleotides 1506-1529) are highly conserved. It has been shown that the 1530{sup GA}1531 to 1530{sup AG}1531 double mutation severely affects the viability of bacteria. However, whether Era interacts with G1530 and/or h45 and whether such interactions (if any) contribute to the stimulation of Era's GTPase activity were not known. Here, we report two RNA structures that contain nucleotides 1506-1542 (RNA301), one in complex with Era and GDPNP (GNP), a nonhydrolysable GTP-analogue, and the other in complex with Era, GNP, and the KsgA methyltransferase. The structures show that Era recognizes 10 nucleotides, including G1530, and that Era also binds h45. Moreover, GTPase assay experiments show that G1530 does not stimulate Era's GTPase activity. Rather, A1531 and A1534 are most important for stimulation and h45 further contributes to the stimulation. Although G1530 does not contribute to the intrinsic GTPase activity of Era, its interaction with Era is important for binding and is essential for the protein to function, leading to the discovery of a new cold-sensitive phenotype of Era.

Tu, Chao; Zhou, Xiaomei; Tarasov, Sergey G.; Tropea, Joseph E.; Austin, Brian P.; Waugh, David S.; Court, Donald L.; Ji, Xinhua (NCI)

2012-03-26T23:59:59.000Z

459

Crystal Structures of the Outer Membrane Domain of Intimin and Invasin from Enterohemorrhagic E. coli and Enteropathogenic Y. pseudotuberculosis  

SciTech Connect (OSTI)

Intimins and invasins are virulence factors produced by pathogenic Gram-negative bacteria. They contain C-terminal extracellular passenger domains that are involved in adhesion to host cells and N-terminal {beta} domains that are embedded in the outer membrane. Here, we identify the domain boundaries of an E. coli intimin {beta} domain and use this information to solve its structure and the {beta} domain structure of a Y. pseudotuberculosis invasin. Both {beta} domain structures crystallized as monomers and reveal that the previous range of residues assigned to the {beta} domain also includes a protease-resistant domain that is part of the passenger. Additionally, we identify 146 nonredundant representative members of the intimin/invasin family based on the boundaries of the highly conserved intimin and invasin {beta} domains. We then use this set of sequences along with our structural data to find and map the evolutionarily constrained residues within the {beta} domain.

Fairman, James W.; Dautin, Nathalie; Wojtowicz, Damian; Liu, Wei; Noinaj, Nicholas; Barnard, Travis J.; Udho, Eshwar; Przytycka, Teresa M.; Cherezov, Vadim; Buchanan, Susan K. (CUA); (Einstein); (NIH); (Scripps)

2012-12-10T23:59:59.000Z

460

Relativistic Nuclear Energy Density Functionals: adjusting parameters to binding energies  

E-Print Network [OSTI]

We study a particular class of relativistic nuclear energy density functionals in which only nucleon degrees of freedom are explicitly used in the construction of effective interaction terms. Short-distance (high-momentum) correlations, as well as intermediate and long-range dynamics, are encoded in the medium (nucleon density) dependence of the strength functionals of an effective interaction Lagrangian. Guided by the density dependence of microscopic nucleon self-energies in nuclear matter, a phenomenological ansatz for the density-dependent coupling functionals is accurately determined in self-consistent mean-field calculations of binding energies of a large set of axially deformed nuclei. The relationship between the nuclear matter volume, surface and symmetry energies, and the corresponding predictions for nuclear masses is analyzed in detail. The resulting best-fit parametrization of the nuclear energy density functional is further tested in calculations of properties of spherical and deformed medium-heavy and heavy nuclei, including binding energies, charge radii, deformation parameters, neutron skin thickness, and excitation energies of giant multipole resonances.

T. Niksic; D. Vretenar; P. Ring

2008-09-08T23:59:59.000Z

Note: This page contains sample records for the topic "bind deleted domain" 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

Shape of isolated domains in lithium tantalate single crystals at elevated temperatures  

SciTech Connect (OSTI)

The shape of isolated domains has been investigated in congruent lithium tantalate (CLT) single crystals at elevated temperatures and analyzed in terms of kinetic approach. The obtained temperature dependence of the growing domain shape in CLT including circular shape at temperatures above 190?°C has been attributed to increase of relative input of isotropic ionic conductivity. The observed nonstop wall motion and independent domain growth after merging in CLT as opposed to stoichiometric lithium tantalate have been attributed to difference in wall orientation. The computer simulation has confirmed applicability of the kinetic approach to the domain shape explanation.

Shur, V. Ya., E-mail: vladimir.shur@usu.ru; Akhmatkhanov, A. R.; Baturin, I. S. [Ferroelectric Laboratory, Institute of Natural Sciences, Ural Federal University, 620000 Ekaterinburg (Russian Federation) [Ferroelectric Laboratory, Institute of Natural Sciences, Ural Federal University, 620000 Ekaterinburg (Russian Federation); Labfer Ltd., 620014 Ekaterinburg (Russian Federation); Chezganov, D. S.; Lobov, A. I.; Smirnov, M. M. [Ferroelectric Laboratory, Institute of Natural Sciences, Ural Federal University, 620000 Ekaterinburg (Russian Federation)] [Ferroelectric Laboratory, Institute of Natural Sciences, Ural Federal University, 620000 Ekaterinburg (Russian Federation)

2013-12-09T23:59:59.000Z

462

Direct writing of ferroelectric domains on strontium barium niobate crystals using focused ultraviolet laser light  

SciTech Connect (OSTI)

We report ferroelectric domain inversion in strontium barium niobate (SBN) single crystals by irradiating the surface locally with a strongly focused ultraviolet (UV) laser beam. The generated domains are investigated using piezoresponse force microscopy. We propose a simple model that allows predicting the domain width as a function of the irradiation intensity, which indeed applies for both SBN and LiNbO{sub 3}. Evidently, though fundamentally different, the domain structure of both SBN and LiNbO{sub 3} can be engineered through similar UV irradiation.

Boes, Andreas; Crasto, Tristan; Steigerwald, Hendrik; Mitchell, Arnan [School of Electrical and Computer Engineering and ARC Center for Ultra-High Bandwidth Devices for Optical Systems (CUDOS), RMIT University, Melbourne, Victoria 3001 (Australia)] [School of Electrical and Computer Engineering and ARC Center for Ultra-High Bandwidth Devices for Optical Systems (CUDOS), RMIT University, Melbourne, Victoria 3001 (Australia); Wade, Scott [Faculty of Engineering and Industrial Sciences, Swinburne University of Technology, Hawthorn, Victoria 3122 (Australia)] [Faculty of Engineering and Industrial Sciences, Swinburne University of Technology, Hawthorn, Victoria 3122 (Australia); Frohnhaus, Jakob; Soergel, Elisabeth [Institute of Physics, University of Bonn, Wegelerstr. 8, 53115 Bonn (Germany)] [Institute of Physics, University of Bonn, Wegelerstr. 8, 53115 Bonn (Germany)

2013-09-30T23:59:59.000Z

463

E-Print Network 3.0 - amphiphysin-1 sh3 domain Sample Search...  

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

important for autoinhibition... , with the fifth domain (SH3(E)) being sufficient for the bulk of the autoinhibitory effect. This ... Source: Lim, Wendell - Departments of Cellular...

464

E-Print Network 3.0 - adaptive inter-domain pce Sample Search...  

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

Sciences 4 Path Computation Element in Telecom Networks: Recent Developments and Standardization Activities Summary: the candidate inter-domain connections. Once this answer is...

465

The Plasma Membrane of the Cyanobacterium Gloeobacter violaceus Contains Segregated Bioenergetic Domains C W  

E-Print Network [OSTI]

The Plasma Membrane of the Cyanobacterium Gloeobacter violaceus Contains Segregated Bioenergetic, in which both the photosynthetic and the respiratory complexes are concentrated. These bioenergetic domains

Roegner, Matthias

466

Existence and uniqueness of domain wall solitons in a Maxwell–Chern–Simons model  

SciTech Connect (OSTI)

We present some sharp existence and uniqueness theorems for the domain wall solutions of the basic governing equations of a self-dual Maxwell–Chern–Simons model.

Zhang, Ruifeng [Institute of Contemporary Mathematics, Henan University, Kaifeng 475001 (China) [Institute of Contemporary Mathematics, Henan University, Kaifeng 475001 (China); College of Mathematics and Information Science, Henan University, Kaifeng 475001 (China); Li, Fangfang [College of Mathematics and Information Science, Henan University, Kaifeng 475001 (China)] [College of Mathematics and Information Science, Henan University, Kaifeng 475001 (China)

2014-02-15T23:59:59.000Z

467

E-Print Network 3.0 - amino-terminal extracellular domain Sample...  

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

for: amino-terminal extracellular domain Page: << < 1 2 3 4 5 > >> 1 DEVELOPMENTAL BIOLOGY 136,97-103 (1989) The Mechanism of Precartilage Mesenchymal Condensation: A Major...

468

Hamilton-Jacobi Theory for Optimal Control Problems on Stratified Domains.  

E-Print Network [OSTI]

??This thesis studies optimal control problems on stratified domains. We first establish a known proximal Hamilton-Jacobi characterization of the value function for problems with Lipschitz… (more)

Barnard, Richard Charles

2010-01-01T23:59:59.000Z

469

X-ray imaging of extended magnetic domain walls in Ni80Fe20 wires  

SciTech Connect (OSTI)

We have used magnetic transmission X-ray microscopy to image magnetization configurations in 700 nm wide Ni{sub 80}Fe{sub 20} planar wires attached to 'nucleation' pads Domain walls were observed to inject only across half of the wire width but extend to several micrometers in length. Magnetostatic interactions with adjacent wires caused further unusual domain wall behavior. Micromagnetic modeling suggests the extended walls have Neel-like structure along their length and indicates weaker exchange coupling than is often assumed. These observations explain previous measurements of domain wall injection and demonstrate that magnetic domain walls in larger nanowires cannot always be considered as localized entities.

Basu, S.; Fry, P. W.; Allwood, D. A.; Bryan, M. T.; Gibbs, M. R. J.; Schrefl, T.; Im, M.-Y.; Fischer, P.

2009-06-20T23:59:59.000Z

470

The Importance of Domain Size and Purity in High-Efficiency Organic...  

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

The Importance of Domain Size and Purity in High-Efficiency Organic Solar Cells Print The efficiency of polymerorganic photovoltaic cells hinges on excitons-electronhole pairs...

471

E-Print Network 3.0 - apical domain control Sample Search Results  

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

apical and basolateral domains (Fig. 2G... examined whether PVF1 is sequestered following secretion, or free to diffuse within the ... Source: Shilo, Benny - Department of...

472

High-frequency programmable acoustic wave device realized through ferroelectric domain engineering  

SciTech Connect (OSTI)

Surface acoustic wave devices are extensively used in contemporary wireless communication devices. We used atomic force microscopy to form periodic macroscopic ferroelectric domains in sol-gel deposited lead zirconate titanate, where each ferroelectric domain is composed of many crystallites, each of which contains many microscopic ferroelastic domains. We examined the electro-acoustic characteristics of the apparatus and found a resonator behavior similar to that of an equivalent surface or bulk acoustic wave device. We show that the operational frequency of the device can be tailored by altering the periodicity of the engineered domains and demonstrate high-frequency filter behavior (>8?GHz), allowing low-cost programmable high-frequency resonators.

Ivry, Yachin, E-mail: ivry@mit.edu, E-mail: cd229@eng.cam.ac.uk; Wang, Nan; Durkan, Colm, E-mail: ivry@mit.edu, E-mail: cd229@eng.cam.ac.uk [Nanoscience Centre, University of Cambridge, 11 JJ Thomson Avenue, Cambridge CB3 0FF (United Kingdom)

2014-03-31T23:59:59.000Z

473

Identification of protein binding sites in the promoter regions of a light-responsive gene family in a cyanobacterium  

E-Print Network [OSTI]

binding sites were characterized that display some interdependence for protein binding ability. One binding site was identified as the primary sequence required for protein binding to the second site. Mutations were introduced into the first binding...lment of the requirements for the degree of MASTER OF SCIENCE December 1991 Major Subject: Biology ZDIBlTZPZCATION OP PROTEIN BINDINQ SITES IN TEB PROMOTER REGIONS OP A LIGHT RESPONSIVE SBBB FAMILY IN A CYANOBACTBRZUM A Thesis by ULRICH WOLFGANG...

Mueller, Ulrich Wolfgang

1991-01-01T23:59:59.000Z

474

Investigation of the Copper Binding Site And the Role of Histidine As a Ligand in Riboflavin Binding Protein  

SciTech Connect (OSTI)

Riboflavin Binding Protein (RBP) binds copper in a 1:1 molar ratio, forming a distinct well-ordered type II site. The nature of this site has been examined using X-ray absorption and pulsed electron paramagnetic resonance (EPR) spectroscopies, revealing a four coordinate oxygen/nitrogen rich environment. On the basis of analysis of the Cambridge Structural Database, the average protein bound copper-ligand bond length of 1.96 {angstrom}, obtained by extended x-ray absorption fine structure (EXAFS), is consistent with four coordinate Cu(I) and Cu(II) models that utilize mixed oxygen and nitrogen ligand distributions. These data suggest a Cu-O{sub 3}N coordination state for copper bound to RBP. While pulsed EPR studies including hyperfine sublevel correlation spectroscopy and electron nuclear double resonance show clear spectroscopic evidence for a histidine bound to the copper, inclusion of a histidine in the EXAFS simulation did not lead to any significant improvement in the fit.

Smith, S.R.; Bencze, K.Z.; Russ, K.A.; Wasiukanis, K.; Benore-Parsons, M.; Stemmler, T.L.

2009-05-26T23:59:59.000Z

475

The effects of temperature on thyroid hormone binding to serum proteins in sea turtles  

E-Print Network [OSTI]

. S. , Texas AKN University Chair of Advisory Committee: Dr. Duncan S. HacKenzie The high affinity binding of thyroid hormones to plasma proteins is a critical step in their peripheral delivery. This study was undertaken to investigate whether... changes in temperature might alter thyroid hormone binding to plasma binding proteins in poikilotherms. The objectives were to determine if high affinity thyroid hormo plasma hi ding proteins e ist i the green (ghelo ia %dash, ioggerhead tata caretta...

Haynes, Shane Patrick

1990-01-01T23:59:59.000Z

476

Mechanisms by which von Willebrand Disease Mutations Destabilize the A2 Domain*  

E-Print Network [OSTI]

upon calcium removal. In contrast, R1597W, which resides within the A2 calcium-binding loop, exhibited highlight the calcium-binding loop (R1597W), the hydrophobic core around the vicinal disulfide (M1528V slows refolding by disrupting calcium stabilization. Significance: Three mutations highlight structural

Springer, Timothy A.

477

E-Print Network 3.0 - atp binding cassette Sample Search Results  

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

Search Powered by Explorit Topic List Advanced Search Sample search results for: atp binding cassette Page: << < 1 2 3 4 5 > >> 1 12-13( Humulus Lupulus,...

478

E-Print Network 3.0 - atomic binding energy Sample Search Results  

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

energy Search Powered by Explorit Topic List Advanced Search Sample search results for: atomic binding energy Page: << < 1 2 3 4 5 > >> 1 Extended Xray Absorption Fine Structure...

479

E-Print Network 3.0 - androgen binding protein Sample Search...  

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

data showing that androgen binding increases AR protein stability (Kemppainen et al., 1992... and protein biosynthesis. Androgen levels in CRPC appear adequate to stimulate AR...

480

E-Print Network 3.0 - a-binding protein acbp6 Sample Search Results  

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

Biology and Medicine 3 Femtomole Mixer for Microsecond Kinetic Studies of Protein Folding Summary: kinetics using FRET with acyl-CoA binding protein. In protein folding,...

Note: This page contains sample records for the topic "bind deleted domain" 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

U-227: bind-dyndb-ldap DN Escaping Flaw Lets Remote Users Deny Service  

Broader source: Energy.gov [DOE]

A vulnerability has been reported in bind-dyndb-ldap, which can be exploited by malicious people to cause a DoS (Denial of Service).

482

E-Print Network 3.0 - adipocyte fatty acid-binding Sample Search...  

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

Biochemistry 221: 127132, 2001. 2001 Kluwer Academic Publishers. Printed in the Netherlands. Summary: acid, gene regulation Introduction Fatty acid-binding proteins (FABPs)...

483

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

484

E-Print Network 3.0 - adiponectin retinol binding Sample Search...  

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

(CRBP1) located... , the acyltransferase activity of LRAT requires exclusion of water and binding of retinol in LRAT's active site... , is facilitated by three...

485

Anthraquinone Photonuclease Structure Determines Its Mode of Binding to DNA and the Cleavage  

E-Print Network [OSTI]

Anthraquinone Photonuclease Structure Determines Its Mode of Binding to DNA and the Cleavage recently described a set of anthraquinone derivatives that act as photonucleases.6 Three classes

Williams, Loren

486

E-Print Network 3.0 - adenosine binding pocket Sample Search...  

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

adenosine into a binding pocket similar... 17, 2000 ABSTRACT: ADARs are ... Source: Beal, Peter A. - Department of Chemistry, University of Utah Collection: Chemistry 10...

487

Quasielastic electron-deuteron scattering in the weak binding approximation  

SciTech Connect (OSTI)

We perform a global analysis of all available electron-deuteron quasielastic scattering data using Q^2-dependent smearing functions that describe inclusive inelastic e-d scattering within the weak binding approximation. We study the dependence of the cross sections on the deuteron wave function and the off-shell extrapolation of the elastic electron-nucleon cross section, which show particular sensitivity at x >> 1. The excellent overall agreement with data over a large range of Q^2 and x suggest a limited need for effects beyond the impulse approximation, with the exception of the very high-x or very low-Q^2 regions, where short-distance effects in the deuteron become more relevant.

Ethier, Jacob J. [William and Mary College, JLAB; Doshi, Nidhi P. [Carnegie Mellon University; Malace, Simona P. [JLAB; Melnitchouk, Wally [JLAB

2014-06-01T23:59:59.000Z

488

ATP binding to a multisubunit enzyme: statistical thermodynamics analysis  

E-Print Network [OSTI]

Due to inter-subunit communication, multisubunit enzymes usually hydrolyze ATP in a concerted fashion. However, so far the principle of this process remains poorly understood. In this study, from the viewpoint of statistical thermodynamics, a simple model is presented. In this model, we assume that the binding of ATP will change the potential of the corresponding enzyme subunit, and the degree of this change depends on the state of its adjacent subunits. The probability of enzyme in a given state satisfies the Boltzmann's distribution. Although it looks much simple, this model can fit the recent experimental data of chaperonin TRiC/CCT well. From this model, the dominant state of TRiC/CCT can be obtained. This study provided a new way to understand biophysical processes by statistical thermodynamics analysis.

Yunxin Zhang

2012-03-22T23:59:59.000Z

489

ATP binding to a multisubunit enzyme: statistical thermodynamics analysis  

E-Print Network [OSTI]

Due to inter-subunit communication, multisubunit enzymes usually hydrolyze ATP in a concerted fashion. However, so far the principle of this process remains poorly understood. In this study, from the viewpoint of statistical thermodynamics, a simple model is presented. In this model, we assume that the binding of ATP will change the potential of the corresponding enzyme subunit, and the degree of this change depends on the state of its adjacent subunits. The probability of enzyme in a given state satisfies the Boltzmann's distribution. Although it looks much simple, this model can fit the recent experimental data of chaperonin TRiC/CCT well. From this model, the dominant state of TRiC/CCT can be obtained. This study provided a new way to understand biophysical processes by statistical thermodynamics analysis.

Zhang, Yunxin

2012-01-01T23:59:59.000Z

490

On the nuclear interaction. Potential, binding energy and fusion reaction  

E-Print Network [OSTI]

The nuclear interaction is responsible for keeping neutrons and protons joined in an atomic nucleus. Phenomenological nuclear potentials, fitted to experimental data, allow one to know about the nuclear behaviour with more or less success where quantum mechanics is hard to be used. A nuclear potential is suggested and an expression for the potential energy of two nuclear entities, either nuclei or nucleons, is developed. In order to estimate parameters in this expression, some nucleon additions to nuclei are considered and a model is suggested as a guide of the addition process. Coulomb barrier and energy for the addition of a proton to each one of several nuclei are estimated by taking into account both the nuclear and electrostatic components of energy. Studies on the binding energies of several nuclei and on the fusion reaction of two nuclei are carried out.

I. Casinos

2008-05-22T23:59:59.000Z

491

Final:Realizing Domain-Specific Compiler Optimizations via Generic Programming  

E-Print Network [OSTI]

-level" operations of built-in types; there are no mechanisms for defining domain-specific optimization rules languages (9) and the BroadWay compiler (6), allow more powerful domain-specific optimizations by devising and their operations, and, second, to annotate the programs to indicate where the transformations should apply

Paris-Sud XI, Université de

492

nature materials | ADVANCE ONLINE PUBLICATION | www.nature.com/naturematerials 1 Domain-wall superconductivity in  

E-Print Network [OSTI]

can be used in the S/F hybrids: individual magnetic dots12,13 or arrays of these14 , and non-patterned ferromagnetic thin films with bubble domains15 . Depending on the domain structure of the ferromagnet, theory3

Moshchalkov, Victor V.

493

Micro-and nanoscale domain engineering in lithium niobate and lithium tantalate  

E-Print Network [OSTI]

Micro- and nanoscale domain engineering in lithium niobate and lithium tantalate Vladimir Ya. Shur investigation of the domain evolution in lithium niobate and lithium tantalate during backswitched electric sources based on quasi-phase matching.11 Lithium niobate LiNbO3 (LN) and lithium tantalate LiTaO3 (LT

Byer, Robert L.

494

Domain Controlled Architecture A New Approach for Large Scale Software Integrated Automotive Systems  

E-Print Network [OSTI]

Domain Controlled Architecture A New Approach for Large Scale Software Integrated Automotive Scale Software Integration, LSSI, Automotive Real Time, Multi-core, Many-core, Embedded Automo- tive mobility domain. The automotive in- dustry is confronted with a rising system complexity and several

KĂĽhnhauser, Winfried

495

Molecular Dynamics Simulation of the SH3 Domain Aggregation Suggests a Generic  

E-Print Network [OSTI]

the elongation of amyloid fibrils.12 ­ 15 However, the domain swapping hypothesis is based on the aggregation and the open aggregation state. The closed dimer is formed by "domain swapping"-- the two proteins exchange human disease were found to be able to form amyloid fibril struc- tures in vitro under denaturing

Stanley, H. Eugene

496

POLARIZATION DEPENDENT TERAHERTZ TIME-DOMAIN SPECTROSCOPY MEASUREMENTS ON ALIGNED CARBON NANOTUBE FILMS AND FIBERS  

E-Print Network [OSTI]

Dependent Terahertz Time-Domain Spectroscopy Measurements On Aligned Carbon Nanotube Films And Fibers are not well defined ! Carbon nanotube (CNT) fiber properties strongly determined by overall alignment of itsPOLARIZATION DEPENDENT TERAHERTZ TIME-DOMAIN SPECTROSCOPY MEASUREMENTS ON ALIGNED CARBON NANOTUBE

Mellor-Crummey, John

497

Role of Pam16's degenerate J domain in protein import across the mitochondrial inner membrane  

E-Print Network [OSTI]

Patrick R. D'Silva*, Brenda Schilke*, William Walter, and Elizabeth A. Craig Department of Biochemistry domain to stim- ulate Ssc1's ATPase domain, and (iii) the innately lower stimulatory activity of the Pam-terminal regions. In addition, the C-terminal region of Pam16 has significant sequence similarity to Pam18's C

Craig, Elizabeth A

498

ADAPTIVE POSTFILTERING FOR ENHANCEMENT OF NOISY SPEECH IN THE FREQUENCY DOMAIN  

E-Print Network [OSTI]

ADAPTIVE POSTFILTERING FOR ENHANCEMENT OF NOISY SPEECH IN THE FREQUENCY DOMAIN Peter Kabal ' j 2 for enhancement of noisy speech. The postfilter suppresses the noise in spectral valleys and allows more noise that this new frequency-domain approach results in enhanced speech of better perceptual quality than obtained

Kabal, Peter

499

Single-channel speech enhancement using spectral subtraction in the short-time modulation domain  

E-Print Network [OSTI]

Single-channel speech enhancement using spectral subtraction in the short-time modulation domain as an alternative to the acoustic domain for speech enhancement. More specif- ically, we wish to determine how. In this study, the effect of modulation frame duration on speech quality of the proposed enhancement method

500

SPECTRAL THEORY OF ELLIPTIC OPERATORS IN EXTERIOR DOMAINS FRITZ GESZTESY AND MARK M. MALAMUD  

E-Print Network [OSTI]

) domains# in R n with compact boundary # # Using the concept of boundary triples and operator­valued Weyl. Introduction Let# be an open domain in R n (bounded or unbounded) with compact boundary # Throughout we assume., A # ), that is, the closure of A defined on C # 0(##3 The maximal operators Amax and A # max are then defined