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Sample search results for: a-helix peptide fragment

Page:   2  3  4  5 
 
1 Conformation of a Peptide Encompassing the Proton Translocation Channel of Vacuolar H1
 

Summary:  that the peptide forms a dynamic a-helix. We discuss this finding in the light of current models for proton... . The percentage of a-helix content {a} of the labeled and unlabeled peptide I was estimated by assuming... -labeled peptide I in SDS micelles (Fig. 2) has two minima at 208 and ...

  

Source: Hemminga, Marcus A. - Department of Molecular Physics, Wageningen Universiteit

 

Collection: Physics ; Biology and Medicine

 
2 Proc. Natl. Acad. Sd. USA Vol. 77, No. 8, pp. 4534-4538, August 1980
 

Summary:  . Peptides W-1 and W-2 contained all of the a-helix of the intact subunits, indicating the tryptophan... - or Mr X content, a-helix Terminal fragment 10-3 % X 10-3 residue From BHK-21 IF Decamin: Unreacted 55 42... content, % 75 73 >85 >85 Total weight of a-helix, X 10-3 74.6 74.1 ...

  

Source: Goldman, Robert D. - Department of Cell and Molecular Biology, Northwestern University

 

Collection: Biology and Medicine

 
3 1048 Biochemistry 1989, 28, 1048-1054 Solution Conformation of a Synthetic Fragment of Human Pituitary Growth
 

Summary:  -133 fragment of bGH forms an a-helix spanning residues 106-128 (Gooley & MacKenzie, 1988). Apparently, the a-helix... previously described that demonstrate a sig- nificant amount of a-helix in short linear peptides in purely... that suggest that the short synthetic ...

  

Source: Powers, Robert - Department of Chemistry, University of Nebraska-Lincoln

 

Collection: Chemistry

 
4 Combining Single-Molecule Optical Trapping and Small-Angle X-Ray Scattering Measurements to Compute the Persistence Length of a Protein
 

Summary:  the Persistence Length of a Protein ER/K a-Helix S. Sivaramakrishnan, J. Sung, M. Ali, S. Doniach,§ H. Flyvbjerg... been shown to be essential for the function of some molecular motors. The flexibility of the ER/K a-helix... Carlo simulations to demonstrate that the Kelch ER/K a-helix behaves as a wormlike chain

  

Source: Spudich, James A. - Department of Biochemistry, Stanford University

 

Collection: Biology and Medicine

 
5 Mary KoeppeLuidens Department of Medicine
 

Summary:  Value Decomposition and Variable Selection Method of Manavalan and Johnsonz5 Parallel Peptide % TFE a-Helix... ER) is substantially overpredicted. This peptide is known to be especially stable as an a-helix, not only in TFE... ), suggesting this peptide does not have a strong tendency to ...

  

Source: Vajda, Sandor - Department of Biomedical Engineering, Boston University

 

Collection: Biotechnology ; Biology and Medicine

 
6 Antitumor activity of a membrane lytic peptide cyclized with a linker sensitive to membrane
 

Summary:  L-25. For peptides of L-chirality, the CD spectrum of a typical a-helix exhibits double minima at 208... above, the functional peptides L-18 and D-18 undergo a random coil to a-helix transition when trans... from random coil to A-helix in a membrane-mimicking environment. Selective ...

  

Source: Chau, Ying - Department of Chemical Engineering, Hong Kong University of Science and Technology

 

Collection: Biology and Medicine

 
7 Protein Science (1998), 7:123-131. Cambridge University Press. Printed in the USA. Copyright 0 1998 The Protein Society
 

Summary:  -like helical structures in this peptide (Mat- sushimaet al., 1990). The absence of a-helix induction even... of a-helical conformations of both the peptides (d?g3 2.5-4.2 A for a-helix and 3.1-5.1 Afor 310-helix... -124. Nelson JW, Kallenbach NR. 1984. Persistence of the a-helix stop ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
8 Structure of Membrane-Embedded M13 Major Coat Protein Is Insensitive to Hydrophobic Stress
 

Summary:  -helical polyleucine peptides suggested distortions of the a-helix in the N- and C-termini in response to hydrophobic... of the a-helix does not seem to play a crucial role, as the coat protein and other a-helical model peptides... of hydrophobic mismatch remain unknown. Several structural mechanisms have ...

  

Source: Hemminga, Marcus A. - Department of Molecular Physics, Wageningen Universiteit

 

Collection: Physics ; Biology and Medicine

 
9 Protein Science (1994), 3:1547-1555. Cambridge University Press. Printed in theUSA. Copyright 0 1994The Protein Society
 

Summary:  structures; helical transitions; helix packing; peptide conformation The a-helix is a widely characterized... that the same 8-residue segment,which is in a 3,0-helix in peptides B and C, becomes an a-helix in peptide A... . Increasing sequence length fa- vors a-helix ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
10 Robust production of a peptide library using methodological synchronization Kristen L. Huber, Kevin D. Olson, Jeanne A. Hardy *
 

Summary:  a hydrophobic core and hydrogen bond network between the a-helix and polyproline helix of the peptide [32... by three prolines located on the poly-proline helix (medium gray) and various residues on the a-helix (dark... , D23, L24 Q25, and Y26 on the a-helix. In addition D11, was selected as a site to be ...

  

Source: Hardy, Jeanne - Department of Chemistry, University of Massachusetts at Amherst

 

Collection: Chemistry

 
11 Three Force Fields' Views of the 310 Helix Kalliopi K. Patapati and Nicholas M. Glykos*
 

Summary:  to CHARMM the peptide is an extremely stable a-helix for its N-terminal part (colored magenta... graphs, the color code is: a-helix / magenta, 310-helix / red, b-structure / yellow, turns / cyan... is a-helix, G is 310-helix, C is coil, T is turn, E is extended structure, and B is bridge as reported

  

Source: Glykos, Nikolaos - Department of Molecular Biology and Genetics, Democritus University of Thrace

 

Collection: Biology and Medicine

 
12 Interactions of Peptides with a Protein Pore Liviu Movileanu,*y
 

Summary:  Ac-(AAKAA)mY-NH2. The PDB format files of all peptides, forced to be a-helix, were generated... -barrel domain that is filled by an N-terminal a-helix (12). Removal of the N-terminal a-helical domain enhanced... Number of residues My wðDÞ a-helix lengthz (A° ) van der Waals volumez (A° 3 ) 3 10ÿ3 ...

  

Source: Movileanu, Liviu - Department of Physics, Syracuse University

 

Collection: Biotechnology ; Biology and Medicine

 
13 Molecular Dynamics Simulations Reveal a Disorder-to-Order Transition on Phosphorylation of Smooth Muscle Myosin
 

Summary:  and dynamics. Simulations were carried out in explicit water at 310 K, starting with an ideal a-helix... metastable throughout the simulation, undergoing rapid transitions among a-helix, p-helix, and turn, whereas... -terminal a-helix that serves in dimerization and filament formation. Both the ELC and RLC are bound

  

Source: Thomas, David D. - Departments of Biochemistry, Molecular Biology, & Biophysics, University of Minnesota

 

Collection: Biology and Medicine

 
14 Membrane Perturbation Induced by Interfacially Adsorbed Peptides Assaf Zemel,* Avinoam Ben-Shaul,* and Sylvio Mayy
 

Summary:  into an amphipathic a-helix comprising complementary hydrophobic and hydrophilic faces. The hydrophilic face typically... profiles for membrane-bound amphipathic peptide fragments of the envelope protein of human immunodefi... Membrane Perturbation Induced by Interfacially Adsorbed Peptides Assaf Zemel,* ...

  

Source: Ben-Shaul, Avinoam - Institute of Chemistry, Hebrew University of Jerusalem

 

Collection: Chemistry

 
15 Unfolding of an a-Helix in Peptide Crystals by Solvation: Conformational Fragility in a Heptapeptide
 

Summary:  Unfolding of an a-Helix in Peptide Crystals by Solvation: Conformational Fragility... (11) 5369 (14) 4337 (17) 4241 (13) 6334 (15) 7468 (17) #12;UNFOLDING OF a-HELIX IN PEPTIDE CRYSTALS... in Table I. #12;UNFOLDING OF a-HELIX IN PEPTIDE CRYSTALS 831 ferences from ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
16 Assaf Zemel Avinoam Ben-Shaul Sylvio May Perturbation of a lipid membrane by amphipathic peptides
 

Summary:  change in the pore-forming peptides, upon which the long axis of the amphipathic a-helix reorients normal... ), based on deuterium order parameter profiles for membrane-bound amphi- pathic peptide fragments... by amphipathic peptides and its role in pore formation Received: 2 August 2004 ...

  

Source: Ben-Shaul, Avinoam - Institute of Chemistry, Hebrew University of Jerusalem

 

Collection: Chemistry

 
17 Biochimica et Biophysica Acta 915 (1987)357-370 357 Primary and secondary structure of antifreeze peptides
 

Summary:  . Peptide sequencing Manual sequencing of the digest fragments was done using the 4-N... OF DIGEST FRAGMENTS Digest fragment Sequence Mass Observed FAB molecular ions Peptide LP N-terminal dansyl... - ment at m/z 1472. Four tryptic fragments were isolated from each ...

  

Source: Cheng, Chi-Hing Christina - Department of Animal Biology, University of Illinois at Urbana-Champaign

 

Collection: Environmental Sciences and Ecology

 
18 Peptide fragmentation algorithms Peptide identification software currently used in proteomic studies take into
 

Summary:  Peptide fragmentation algorithms Peptide identification software currently used in proteomic... of this project is to identify peptide fragmentation patterns by bio-informatic analysis of thousands of spectra... for the greater good of peptide ...

  

Source: Wysocki, Vicki H. - Department of Chemistry and Biochemistry, University of Arizona

 

Collection: Chemistry

 
19 pH-dependent Self-association of Influenza Hemagglutinin Fusion Peptides in Lipid Bilayers
 

Summary:  the 210-220 nm spectral region. These spectra are indicative of mixtures of a-helix and b... assignments are 1625 and 1686 cmÀ1 , b-sheet; $1636 cmÀ1 , random coil; $1649-1651 cmÀ1 , a-helix; 1673... pH-dependent Self-association of Influenza Hemagglutinin Fusion Peptides in Lipid Bilayers Xing Han

  

Source: Tamm, Lukas K. - Department of Molecular Physiology and Biological Physics, University of Virginia

 

Collection: Biology and Medicine

 
20 Helical Conformations of Hexapeptides Containing N-Terminus Diproline Kantharaju,1
 

Summary:  ­34 This is a consequence of the fact that the dihedral angle / is con- strained to the right value for a 310/a -helix... and the amino ter- minus residues (two residues for a 310-helix and three residues for an a-helix... . Peptide 5 Piv-Pro-CPro-Aib- Leu-Aib-Phe-OMe was prepared by the ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine


Page:   2  3  4  5 
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21 Order through Disorder: Hyper-Mobile C-Terminal Residues Stabilize the Folded State of a Helical Peptide.
 

Summary:  and is replaced with an a-helix which persists for the remaining of the simulation. The speed with which the 310... with the states being a-helix (mauve), 310-helix (red), turn regions (cyan), coil (white). doi:10.1371/journal... ) Transformation of an alpha-helix peptide into a beta-hairpin induced by addition of a ...

  

Source: Glykos, Nikolaos - Department of Molecular Biology and Genetics, Democritus University of Thrace

 

Collection: Biology and Medicine

 
22 Gregg B. Fields13 Janelle L. Lauer13
 

Summary:  , the pep- tide head group incorporated a cell binding se-protein fragments (peptides), which incorporate... are blocked with tide-amphiphiles are (A) triple-helix and (B) a-helix. Tris by incubating the beads in 1M... was used to ing an a-helix, it is realized only in the amphiphilic study melanoma cell ...

  

Source: Fields, Gregg B. - Department of Chemistry and Biochemistry, Florida Atlantic University

 

Collection: Chemistry ; Biology and Medicine

 
23 J. Mol. Biol. (1992) 223. 1121-1138 Molecular Dynamics Simulations of Helix Denaturation
 

Summary:  was chosen for this study because it is "the simplest peptide that is able to adopt the a-helix conforma... of the overall motion of the peptide. The end-to-end distance of an ideal a-helix of this length would be -20 8... 1991) An understanding of the structural transitions that an ...

  

Source: Levitt, Michael - Department of Structural Biology, Stanford University

 

Collection: Biology and Medicine ; Biotechnology

 
24 Structure and Alignment of the Membrane-Associated Peptaibols Ampullosporin A and Alamethicin by Oriented 15
 

Summary:  -mer peptaibol whose x-ray structure exhibits a largely regular a-helix starting from the acetylated N... regions are considered the length of the AmpA helix (residues 1 to 10) is 13.5 A° and that of the anti... ) of the full-length peptide and fragments thereof (Fig. 1). The high ...

  

Source: O'Neil, Joe - Department of Chemistry, University of Manitoba

 

Collection: Biology and Medicine ; Chemistry

 
25 Two Types of Alzheimer's b-Amyloid (140) Peptide Membrane Interactions: Aggregation Preventing
 

Summary:  -structures steeply increased, starting from 25% to over 60%. The a-helix content of the Ab1 ­ 40 peptide remains... values, typical for a-helix, this being most pronounced in the system containing 100% charged DMPG lipids... ., Arispe, N. & Rojas, E. (2000). Alzheimer's b-amyloid, human islet amylin, and prion ...

  

Source: Watts, Anthony - Biomembrane Structure Unit, Department of Biochemistry, University of Oxford

 

Collection: Biology and Medicine

 
26 Hypothesis: spring-loaded boomerang mechanism of influenza hemagglutinin-mediated membrane fusion
 

Summary:  are characterized by a well-defined N-terminal a-helix that extends from residue 2 to residue 10. Residues 11, 12... between the N-terminal a-helix and the membrane plane. This angle is 23j at pH 7 and 38j at pH 5. The 38j... are helical in bilayers of the zwitterionic lipid DMPC. More a- helix (up to 27 ...

  

Source: Tamm, Lukas K. - Department of Molecular Physiology and Biological Physics, University of Virginia

 

Collection: Biology and Medicine

 
27 Tryptophan-containing peptide helices: interactions
 

Summary:  (56) Boc-Aib-Trp-(Leu-Aib-Ala)2-Phe-Aib-OMe 310/a-helix Trp(2)Ne1H...OCAib(10) HICKEJ (57) Boc... -Ala-Aib-Ile-Val-Aib-Leu-Aib-Pro-OMe P21 (polymorph) 310/a-helix Trp(1)Ne1H...OCAib(9) Trp(1)Ne1H...OCPro(10) ­a (58) P1 (polymorph) 310... /a-helix Trp(1)Ne1H...OCLeu(8) Trp(1)Ne1H...OCAib(9) ­a (59) Ac-Trp-Ile

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
28 P E R S P E C T I V E www.rsc.org/obc
 

Summary:  antimicrobial peptide LL-37 is an amphi- pathic a-helix that embeds in the bilayer in the region... surface to form an a-helix that is aligned in the plane of the membrane. Studies on magainin, a peptide... , that the transmembrane a-helix was described. It is still the case that membrane ...

  

Source: Dholakia, Kishan - School of Physics and Astronomy, University of St Andrews

 

Collection: Physics

 
29 Biochemistry 1994, 33, 5539-5544 5539 Glycophorin A Helical Transmembrane Domains Dimerize in Phospholipid
 

Summary:  . substitutionin the singletransmembrane a-helix of the proto- oncogene may stabilize the interaction (Cao et al... ., 1992; Sternberg & Gullick, 1990). A singletransmembrane a-helix also directs the dimerization... . Resonance energy transfer between labeled GpATM peptides has been used to observe dimerization of Gp

  

Source: Engelman, Donald M.- Department of Molecular Biophysics and Biochemistry, Yale University

 

Collection: Biology and Medicine

 
30 PROTEINS Structure, Function, and Genetics 12:324-330 (1992) Helix Packing of Leucine-Rich Peptides: A Parallel
 

Summary:  A in ref. ') forms an almost ideal a-helix with seven Et;.l hydrogen bonds. A least-squares fit of all... ", -33") is associated with a kink in the a-helix and with a long N . . . 0 dis- tance of 3... +1 (a-helix) N(4) N(5) N(6) N(7) N(8) 4-+ l(3,,-helix) N(9) NrlO) N . . .O, A 3.007 2.868 3.060 3.121 3

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
31 Biochemistry of Proteins 2.463 March 4, 1999 Mid-Term Test
 

Summary:  . It is worth 12 marks. 2. Describe in detail an a-helix and a 310 helix remarking on the differences between... the peptide Lys-Leu and label all the dihedral angles with Greek letters or names. Answer questions 2... peptide hydrolysis by strong acid or base. Answer question 4. It is worth 15 marks. 5. Explain the process

  

Source: O'Neil, Joe - Department of Chemistry, University of Manitoba

 

Collection: Biology and Medicine ; Chemistry

 
32 Circular Dichroism Studies of a-Aminoisobutyric Acid-Containing Peptides: Chain Length and
 

Summary:  in short peptides up to five residues in length.2-15 In longer sequences, an a-helix has been observed... fragment of suzukacillin have established that aggregation of Aib peptides is insignificant at concentra... spectra may be fitted to structures containing -27-29% a-helix, G8% ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
33 J. A m Cl7em. Soc. 1995, 117, 6287-6291 6287 Design and Synthesis of a New Peptide Recognizing a Specific
 

Summary:  an a-helix as it recognizes the half-site of the dimer binding site. The a-helix of the protein... , it changes to a-helix when hound to the specific site of DNA.22." We use gel retardation and footprinting... allows binding to only the major groove. Case 1 is much easier to design than case 2 because an ...

  

Source: Goddard III, William A. - Materials and Process Simulation Center & Department of Chemistry, California Institute of Technology

 

Collection: Materials Science

 
34 PROTEINS: Structure, Function, and Genetics 7:62-73 (1990) Apolar Peptide Models for Conformational
 

Summary:  analog peptide containing three different structural features: 3,?- helix, a-helix, and P-bend ribbon... of the VALU-7 conformers oc- curs as a normal a-helix,whereas in the other, the N(7)--0(3) a-type hydrogen... deviation of 0.09 A for the backbone atoms. Beginning with C"(5), the a-helix present in ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
35 Dissociation channel dependence on peptide size observed in electron capture dissociation of tryptic
 

Summary:  sized peptides, the effect of peptide size on ECD fragments using a complete set of ECD spectra from... are favored for small peptide sizes and that average fragment size shows a linear relationship to parent... peptide size for most fragment ...

  

Source: Ecole Polytechnique, Centre de mathématiques

 

Collection: Mathematics

 
36 Translocation of a thioether-bridged azurin peptide fragment via the Sec pathway in Lactococcus lactis
 

Summary:  Translocation of a thioether-bridged azurin peptide fragment via the Sec pathway in Lactococcus... (229) via binding to the tumor- suppressor protein p53 (3). The azurin peptide fragment p28, containing... proliferation (197). Importantly, novel cancer treatments can be based on azurin ...

  

Source: Groningen, Rijksuniversiteit - Centre for Ecological and Evolutionary Studies, Department of Marine Benthic Ecology and Evolution,

 

Collection: Biology and Medicine ; Environmental Sciences and Ecology

 
37 nature structural biology volume 6 number 5 may 1999 417 Solution structure of the
 

Summary:  dimensional conformations7,14­16. The C-terminal peptides bind to a groove formed by the principal a- helix (a... peptide fragments at the very C- terminus of target proteins7,8. Additionally, PDZ domains have been shown... to form hetero-dimers9­11, and to interact with inter- nal ...

  

Source: Mandal, Pravat K. - National Brain Research Centre (India)

 

Collection: Biology and Medicine

 
38 356 Acc. Chem. Res. 1981, 14, 356-362 Alamethicin, a Transmembrane Channel
 

Summary:  on enkephalins61p62and other active peptides.lg Conformation of Alamethicin Fragments Intramolecularly hydrogen... close to the values expected for Clo (310helix) and C13 (a-helix) conformations. A distinction between... of the 1-6 and 1-13 fragments suggests that helical folding is maintained in the larger ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
39 Accommodation of a D-Phe Residue into a Right-Handed 310-Helix:Structure of Boc-D-Phe-(Aib),-Cly-L-Leu-
 

Summary:  of a 310-helix,rather than an a- helix or mixed 310/a-helix, in a 9-residue peptide containing six Aib... the Leu residue. In peptide 111, however, folded into an a-helix, the average values are @ = -62" k 8... - Phe. Peptide 111,which forms an ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
40 RapidCommunications The extent of helix induction by TFE in water-soluble
 

Summary:  to be a very useful solvent system for dissolution of large insoluble peptide fragments.29 Interestingly, Bal... -methylglutamate in HFPD effects a conformational transition to a a-helix, beyond a mole ratio of 1:0.6 (HFPD:H2O).30... RapidCommunications The extent of helix induction by TFE in water-soluble ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine


Page:   1  2  3  4  5 
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41 Evidence from peptidomic analysis of skin secretions that the red-legged frogs, Rana aurora draytonii and
 

Summary:  -23 structure illustrates the amphipathic nature of this a-helix, with the Arg1 Arg8 , Lys11 , and Lys... Al-Ain, United Arab Emirates b European Institute for Peptide Research, CNRS, University of Rouen... peptides Rana aurora Rana draytonii Skin secretions a b s t r a c t The northern red-legged frog Rana

  

Source: Davidson, Carlos - Environmental Studies Program, San Francisco State University

 

Collection: Environmental Sciences and Ecology

 
42 Features of a twin-arginine signal peptide required for recognition by a Tat proofreading chaperone
 

Summary:  peptide (co- dons 1­42) and the T18 fragment of Bordetella pertussis toxin Abbreviations: Tat, twin... if plotted as a canonical a-helix (Fig. 5A), or a neater interacting face if plotted as a coiled-coil (Fig. 5... residue (equivalent to N7 of the Sh. massilia TorD) is located at the beginning of the first ...

  

Source: Palmer, Tracy - Division of Molecular Microbiology, University of Dundee

 

Collection: Biology and Medicine

 
43 Folding Very Short Peptides Using Molecular Dynamics
 

Summary:  of America Peptides often have conformational preferences. We simulated 133 peptide 8-mer fragments from six... in protein-structure prediction methods that utilize the assembly of peptide fragments. Citation: Ho BK, Dill... .1371/journal.pcbi.0020027 Introduction ...

  

Source: Dill, Ken A. - Department of Pharmaceutical Chemistry, University of California at San Francisco

 

Collection: Biotechnology ; Biology and Medicine

 
44 Modeling peptide fragmentation with dynamic Bayesian networks for peptide identification
 

Summary:  Modeling peptide fragmentation with dynamic Bayesian networks for peptide identification Aaron A... Bayesian networks: modeling sequential data ­ Tandem mass spectrometry (MS/MS) and peptide fragmentation... Modeling peptide fragmentation with ...

  

Source: Valtorta, Marco - Department of Computer Science and Engineering, University of South Carolina

 

Collection: Computer Technologies and Information Sciences

 
45 The a-Helical Propensity of the Cytoplasmic Domain of Phospholamban: A Molecular Dynamics Simulation of the Effect of Phosphorylation
 

Summary:  as provided by the GROMOS96 force field. The starting conformation of PLB1­21 was an ideal a-helix (f ¼ ÿ65... Biophysical Journal 88(5) 3243­3251 #12;a-helix from residue 2­16, followed by b-IV type turn from 17 to 21... cap that connects to the hydrophobic face of the a-helix spanning residues 3­15. The carboxyl

  

Source: Thomas, David D. - Departments of Biochemistry, Molecular Biology, & Biophysics, University of Minnesota

 

Collection: Biology and Medicine

 
46 PROTEINS Structure,Function, and Genetics 18262-266 (1994) Hydrogen Bond Strength and g-SheetPropensities
 

Summary:  with peptide group H-bondingto water in the random coil and not in the p conformation. In- trinsic a-helix... , the contribution to a-helix propensities is obscured especially by large context-dependent effects. These issues... calibration of the side chain effect on hydrogen bond energy. a-HelixStabilization ...

  

Source: Englander, S. Walter - Department of Biochemistry and Biophysics, University of Pennsylvania

 

Collection: Chemistry ; Biology and Medicine

 
47 Abstract Amyloidogenic proteins (Ab peptide) in Alzheimer's disease (AD) and alpha-synuclein (a-Syn)
 

Summary:  - tinct domains: a highly conserved amino terminal lipid- binding a-helix (residues 1­61) domain... ]. It has been suggested that there are two structurally distinct populations of a-Syn in cells, an a-helix... envi- ronment exists as a random coil (residues 1­14), a-helix-I (residues 15­23), kink 25­29 and ...

  

Source: Mandal, Pravat K. - National Brain Research Centre (India)

 

Collection: Biology and Medicine

 
48 THEJOURNALOF BIOLOGICALCHEMISTRY Vol. 266, No.11, Issue of April 15, pp. 7306-7311, 1991 Printed in U.S.A.
 

Summary:  structure consists of a short,irregular two-stranded antiparallel @-sheet,followed by an a-helix. Several... -Residue Double Zinc Finger Peptide from a Human Enhancer Binding Protein* (Received for publication... of Health, Bethesda, Maryland20892 Two 57-residue peptides containing onepair of "zinc fingers" froma human

  

Source: Clore, G. Marius - Laboratory of Chemical Physics. National Institutes of Health

 

Collection: Biology and Medicine

 
49 M I N I R E V I E W Pathndersandtrailblazers:a prokaryotic targetingsystemfor
 

Summary:  to be structurally related, each comprising a single N-terminal transmembrane a-helix with a predicted N... topologies of the Escherichia coli TatA protein. (a) TatA with a single N-terminal transmembrane a-helix (TMH... ) followed by an amphipathic a-helix (APH) at the cytoplasmic side of the membrane. (b) An identical Tat

  

Source: Palmer, Tracy - Division of Molecular Microbiology, University of Dundee

 

Collection: Biology and Medicine

 
50 FOR THE RECORD Helicity of short E-R/K peptides
 

Summary:  , and type of side chain interactions makes them an important consideration in peptide design. Keywords: a-helix... ) The mechanism of a-helix formation by peptides. Annu Rev Biomol Struct 21:95­118. 7. Marqusee S, Robbins VH... FOR THE RECORD Helicity of short E-R/K peptides Ruth F. ...

  

Source: Spudich, James A. - Department of Biochemistry, Stanford University

 

Collection: Biology and Medicine

 
51 Structural Basis for Signal-Sequence RecognitionbytheTranslocaseMotorSecA
 

Summary:  translocase. Upon encounter, the signal peptide forms an a-helix that inserts into a flexible and elongated... complex demonstrates that the peptide forms an a-helix and binds by using both its hydrophobic and charged... of the groove. The face of the peptide a-helix ...

  

Source: Foundation of Research and Technology, Hellas, Institute of Applied and Computational Mathematics, Regional Analysis Division

 

Collection: Engineering ; Computer Technologies and Information Sciences

 
52 Three types of proteins on the surface of an antigen-presenting cell involved in activating a T cell
 

Summary:  to form a groove that binds peptide fragments of foreign proteins and presents them to T cells Class I... a T cell #12;Cytotoxic T cells recognize foreign peptides in association with class I MHC proteins Helper... T cells recognize foreign peptides in association with class II MHC proteins In both cases ...

  

Source: Morante, Silvia - Dipartimento di Fisica, Università di Roma Tor Vergata

 

Collection: Chemistry ; Physics

 
53 J. Mol. Biol. (1977) 114, 181-293 Automatic Identification of Secondary Structure in Globular
 

Summary:  are more regular than this one. They indicate a-helix for peptides 3 to 7 and 48 to 56, and antiparallel p... to identify the regions of a-helix, p-sheet and reverse-turn secondary structure. Several different criteria... objective and consistent compilation of a-helix, p-sheet and reverse-turn secondary ...

  

Source: Levitt, Michael - Department of Structural Biology, Stanford University

 

Collection: Biology and Medicine ; Biotechnology

 
54 Protein Science (1996), 5:1655-1661. Cambridge University Press. Printed in the USA. Copyright 0 1996 The Protein Society
 

Summary:  was not observed and conversion from a-helix back to 0-sheet, as inferred from the solid-state NMR spectra... -sheet conformation differ by as much as 8 ppm from those in an a-helix (Saito, 1986). Similarly strong correlations... of the literature values of the chemical shifts for a particular residue in an a-helix andin a ...

  

Source: Pines, Alexander - Department of Chemistry, University of California at Berkeley

 

Collection: Chemistry

 
55 Stereochemistry of a-AminoisobutyricAcid Protected Decapeptides with Repeating Aib-L-Ala
 

Summary:  basisof their intramolecular hydrogen-bonding patterns (a-helix 5-1,C13,3lo-helix4 -1,C'O).~While crystal... -L-Val Sequences Peptides in Solution: Helical Conformations of E. K. S.VIJAYAKUMAR and P. BALARAM... radical. Both peptides have eight solvent-shielded NH groups, suggesting that dlo

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
56 Biophysical Journal Volume 70 April 1996 1728-1736 Fourier Transform Infrared Spectroscopy and Site-Directed Isotope
 

Summary:  Fragment has a net a-helix orientation that is predominantly per- pendicular to the membrane plane. Fig. 2... of 2 cm-' and consisted of a minimum of 4000 scans. Calculation of a-helix orientation from... transmission FTIR and ATR-FTIR dichroism The net a-helix orientation, defined by the tilt angle 0 of the ...

  

Source: Engelman, Donald M.- Department of Molecular Biophysics and Biochemistry, Yale University

 

Collection: Biology and Medicine

 
57 Biochimica et Biophysica Acta, 997 (1989) 55-64 BBAPRO 33394
 

Summary:  that of the peptide in its native and natural state. It shows no a-helix or/t-sheet characteristics; its specific... and AB2, were determined using automated sequencing, and compositional analyses of peptide fragments from... The antifreeze peptides and peptide ...

  

Source: Cheng, Chi-Hing Christina - Department of Animal Biology, University of Illinois at Urbana-Champaign

 

Collection: Environmental Sciences and Ecology

 
58 APPLICATION NOTE SILVER Helps Assign Peptides to Tandem
 

Summary:  . [4]. In this method, a large training set of peptide, fragment, and peak-intensity properties... predicted fragment ion of a candidate peptide and its corresponding observed spectral peak intensity... of the peptide and fragment ion. Two trees, trained respectively ...

  

Source: Roth, Frederick - Department of Biological Chemistry and Molecular Pharmacology, Harvard University

 

Collection: Biotechnology ; Biology and Medicine

 
59 Connecting Peptide Physicochemical and Antimicrobial Properties by a Rational Prediction Model
 

Summary:  parameters: isoelectric point (pI), peptide length, a-helix, b-sheet and turn structure propensity, in vivo... . In contrast, non-AMPs display a high proclivity to adopt a-helix or b- sheet structure (Figure 2... ) length, (C) a-helix propensity, (D) b-sheet propensity, (E) turn propensity, (F) in vitro ...

  

Source: Pompeu Fabra, Universitat - Departament de Ciències Experimentals i de la Salut, Proteomics and Protein Chemistry Unit

 

Collection: Biotechnology

 
60 DNA-Peptid-Komplexe Einzelmoleklexperimente in der synthetischen
 

Summary:  -terminales viersträngiges b-Faltblatt (b1 -b2 -b3 -b4 ), eine a-Helix (a1 ), die durch eine kurze b-Faltblatt-Einheit (b5... ) mit einer weiteren a- Helix (a2 ) verbunden ist, gefolgt von einer dritten a-Helix (a3 ) und einer b... jüngst in Frage gestellt wurde, ob kurze Peptidse- quenzen mit nur einer ...

  

Source: Bielefeld, Universität - Fakultät für Physik, Experimental Biophysics and Applied Nanosciences

 

Collection: Physics ; Materials Science


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61 FEBS Letters 338 (1994) 93-97 Mapping the binding surface of interleukin-8 complexed with an
 

Summary:  addition results in a IL8-rl peptide to IL-8 monomer ratio of 1.25:1. 3. Results A fragment of the IL-8... (Ser"), the C-terminal a-helix (Va16'),and the irregular N-terminal loop region (Thr'*, Lys", Phe", His... interacting with peptide fragments derived from other extracellular seg- ...

  

Source: Clore, G. Marius - Laboratory of Chemical Physics. National Institutes of Health

 

Collection: Biology and Medicine

 
62 Helix Aggregation in Peptide Crystals: Occurrence of Either All Parallel or Antiparallel Packing Motifs for a-Helices
 

Summary:  -chain interactions or solvation. The a-helix of the peptide in crystal A has seven 5 + 1 hydrogen bonds; the helix... to tail 31n-Helix a-Helix Solvent to peptide (A) Peptide CH30H 2.939 2.976 3.067 3.102 3.154 3.004 2.992 3... in crystal B is a mixed 310/a-helix. ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
63 Folding of bbb-Sheet Membrane Proteins: A Hydrophobic Hexapeptide Model
 

Summary:  -phase aggregation of b-amyloid peptide fragment (25-35), but was easily adapted to mem- brane aggregation by using P... membranes from the aqueous phase where the peptide is strictly monomeric and random coil. The aggregates... are formed by the aggregates, but they do induce graded leakage of vesicle contents at very high ...

  

Source: White, Stephen - Department of Physiology and Biophysics, University of California, Irvine

 

Collection: Biology and Medicine

 
64 Aromatic interactions in tryptophan-containing
 

Summary:  transition between 310- and a-helix: structures of 8-, 9-, and 10-residue peptides containing the... Aromatic interactions in tryptophan-containing peptides: crystal structures of model tryptophan... peptides and phenylalanine analogs* A. Sengupta R. Mahalakshmi N. Shamala P. Balaram Authors' affiliations

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
65 Molecular Dynamics Simulation of Amyloid b Dimer Formation B. Urbanc,* L. Cruz,* F. Ding,*y
 

Summary:  peptide model as a function of temperature: (a) mostly a-helix conformation at T ¼ 0.100 with two a... -strand monomer peptide. This prediction of our model, a change from an a-helix-rich to a b-strand-rich monomer... from a predominantly a-helix conformation into a b-strand conformation ...

  

Source: Dokholyan, Nikolay V. - Department of Biochemistry and Biophysics, University of North Carolina at Chapel Hill; Stanley, H. Eugene - Department of Physics, Boston University

 

Collection: Biology and Medicine ; Computer Technologies and Information Sciences ; Materials Science ; Physics

 
66 Structural Basis for Signal-Sequence RecognitionbytheTranslocaseMotorSecA
 

Summary:  translocase. Upon encounter, the signal peptide forms an a-helix that inserts into a flexible and elongated... complex demonstrates that the peptide forms an a-helix and binds by using both its hydrophobic and charged... of the groove. The face of the peptide a-helix ...

  

Source: Economou, Tassos - Institute of Molecular Biology and Biotechnology, Foundation of Research and Technology, Hellas; Kalodimos, Charalampos "Babis" - Department of Chemistry and Chemical Biology, Rutgers University

 

Collection: Biology and Medicine ; Chemistry

 
67 Mutations in the Substrate Binding Domain of the Escherichia coli 70 kDa Molecular Chaperone, DnaK,
 

Summary:  451K, are located at the edge of the b-sandwich domain near a-helix A. The K414I mutant binds peptide... aspect of the known peptide binding site. If a-helix B forms a ¯exible hinge based on the rigidity... of loop 4/5, then this region may in¯uence how a-helix-B covers the bound ...

  

Source: Morimoto, Richard - Department of Biochemistry, Molecular Biology, and Cell Biology, Northwestern University

 

Collection: Biology and Medicine

 
68 4448 Biochemistry 1995,34, 4448-4456 Secondary Structure and Orientation of Phospholamban Reconstituted in Supported
 

Summary:  . The fraction of a-helix in native PLB was 64-67% (33-35 residues), and the transmembrane peptide PLB26... -PLB, and Their Fragments under Different Conditions contentf molecule conditions method a-helix /3-strand random reference... as its 27-residue carboxy-terminal transmembrane segment (PLB26-52). The ...

  

Source: Stokes, David L. - Skirball Institute of Biomolecular Medicine & Department of Cell Biology, New York University

 

Collection: Biology and Medicine

 
69 Synthetic Peptide Helices in Crystals: Structure and Antiparallel and Skewed Packing Motifs for a-Helices
 

Summary:  (5+ 1) Water to peptide Head to tail 310-Helix(4 + 1) a-Helix (5+ 1) Water to peptide Donor Peptide I... residue can readily replace an apolar residue or vice versa,without disturbingthe a-helix. The Boc... of an occasional helix reversal. The torsional values for those Aib residues ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
70 The Role of Structure in Antibody Cross-reactivity Between Peptides and Folded Proteins
 

Summary:  The Role of Structure in Antibody Cross-reactivity Between Peptides and Folded Proteins Lisa Craig1... of Molecular Biology and Biochemistry Simon Fraser University Burnaby, BC, Canada V5A 1S6 Peptides have... antibodies against native proteins are used to screen peptide libraries, most of the peptides ...

  

Source: Kuhn, Leslie A.- Department of Biochemistry and Molecular Biology, Michigan State University

 

Collection: Biology and Medicine

 
71 Role of PeptidePeptide Interactions in Stabilizing Peptide-Wrapped Single-Walled Carbon Nanotubes: A Molecular Dynamics Study
 

Summary:  position. The a and d positions form the hydrophobic face of the a-helix, whereas the b,c,e,f,g positions... . However, nano-1 was designed not only to form an amphiphilic a-helix at the water/ SWNT interface... angle is defined as the angle between the a-helix axis and the nanotube long axis. The a-helix ...

  

Source: Nielsen, Steven O. - Department of Chemistry, University of Texas at Dallas

 

Collection: Chemistry

 
72 Modeling Mass Spectrometry-Based Protein Analysis Jan Eriksson and David Feny
 

Summary:  and the intensity of peptide ions and their fragments. To identify proteins and to characterize... and are subjected to fragmentation. The masses of the proteolytic peptides and their fragments are measured, making... of the fragment ions observed upon inducing ...

  

Source: Chait, Brian T. - Laboratory of Mass Spectrometry and Gaseous Ion Chemistry, Rockefeller University

 

Collection: Biology and Medicine

 
73 Probing the self-assembly on a hydrophobic surface and structural changes of
 

Summary:  , which is a part of the predicted 2nd loop, might form an amphipathic a-helix with hydrophobic residues... on one face and hydrophilic or small residues on the opposite face of the helix. This amphipathic a-helix... digested by endoproteinase Asp-N, and the peptides with high hydrophobic-surface binding affinities could

  

Source: Groningen, Rijksuniversiteit - Centre for Ecological and Evolutionary Studies, Department of Marine Benthic Ecology and Evolution,

 

Collection: Biology and Medicine ; Environmental Sciences and Ecology

 
74 An Unusual Helix Turn Helix Motif in the Catalytic Core of HIV-1 Integrase Binds Viral DNA and LEDGF
 

Summary:  was subtracted from that of the complex. Recall that in a simple random coil ­ a helix equilibrium, the a-helix... of two peptide fragments by CD, Fourier-transform infrared and NMR. Eur J Biochem 235: 699­712. 66... synthetic peptide. This displays features of the protein motif structure thanks to the ...

  

Source: Ecole Polytechnique, Centre de mathématiques

 

Collection: Mathematics

 
75 J. Med. Chem. 1992,35, 3885-3889 3886 Differences in Hydration and Association of Helical
 

Summary:  .; Flippen-Anderson, J. L.; Uma, K.; Balaram, H.; Balaram, P. a-Helix and mixed 3lda... Helix. Themoleculefoldsintoanalmostcomplete a-helix with eleven 5-1 hydrogen bonds in the crystal form I from 2-propanol-H20. The 5... a conventional solution-phase procedure by a fragment condensation approach.% After purifying the ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
76 Prediction of Local Structure in Proteins Using a Library of Sequence-Structure Motifs
 

Summary:  approach. The test set is broken down into (A) eight all-a-helix proteins, (B) six all- b-sheet proteins... , and (C) 41 others. PHD performed best on a-helix proteins, while I-sites did better on b-sheet proteins... there are ®ve polar positions in a row, precluding the stable for- mation of either a-helix or b-sheet. A short

  

Source: Baker, David - Center for Nanotechnology and NanoTechnology & Department of Biochemistry, University of Washington at Seattle; Bystroff, Chris - Department of Biology, Rensselaer Polytechnic Institute

 

Collection: Biology and Medicine ; Biotechnology ; Chemistry

 
77 Biochemistry 1990, 29, 8771-8779 8771 van Dorp, D. A. (1977) Biochim. Biophys. Acta 487,
 

Summary:  agreement with spectra of poly(L-lysine) in the a-helix, 6-sheet, and undefined conformations. The results... with this method is 4.8%for the a-helix, 3.7%for the 6-sheet, and 5.1%for the undefined structure, whereas... of secondarystructure of polypeptides such as a-helix, @sheet, turns, and undefined structure. Since the ...

  

Source: Pezolet, Michel - Département de Chimie, Université Laval

 

Collection: Chemistry

 
78 Identification of Low Molecular Weight Gel Separated Proteins by MALDI MS and MALDI-QqTOF MS.
 

Summary:  the most abundant peptide ion (Figure 1B). 34 masses of peptide fragment ions and the mass of the intact... Shevchenko* , Alexander Loboda# , Werner Ens# , Kenneth G. Standing# and Andrej Shevchenko* * Peptide... proteins by high mass accuracy MALDI peptide mapping has become a powerful ...

  

Source: Ens, Werner - Department of Physics and Astronomy, University of Manitoba

 

Collection: Physics

 
79 Measuring the Strength of Interaction between the Ebola Fusion Peptide and Lipid Rafts: Implications for
 

Summary:  to the secondary structure of proteins and serves as an indicator of a-helix, b-sheet, turn and random conformation... . The a- helix is observed in the interaction with membranes in the absence of Ca2+ . This structure... Measuring the Strength of Interaction between the Ebola Fusion Peptide and Lipid Rafts

  

Source: Lippincott-Schwartz, Jennifer - Cell Biology and Metabolism Branch, National Institute of Child Health and Human Development

 

Collection: Biology and Medicine

 
80 Proc. Natl. Acad. Sci. USA Vol. 86, pp. 765-769, February 1989
 

Summary:  Proc. Natl. Acad. Sci. USA Vol. 86, pp. 765-769, February 1989 Chemistry a-Helix and mixed 310/a-helix... conformation. The second molecule has a mixed 310/a-helix conformation with three 4-1 hydrogen bonds and four 5... -Trp-Ile-Ala-Aib-Ile- Val-Aib-Leu-Aib-Pro-OMe (where Boc is t-butoxycarbonyl) showed predominantly ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine


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81 Volume 157, number 1 A helix dipole model for
 

Summary:  ,121 antibiotics, fragments and model peptides [11,131 have demonstrated that the chan- nel formers are largely... in all the peptides. This residue has been shown to stabilize aggregates of suzukacillin fragments in CHC... to 3.5 D per 1.5 A of an a-helix [30,3 11. The dipole moment of ...

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
82 RAPID COMMUNICATIONS IN MASS SPECTROMETRY Rapid Commun. Mass Spectrom. 2004; 18: 30193027
 

Summary:  between N- and C-terminal fragments in tandem mass spectra of multiply protonated peptides by comparing... -termini of peptides. The derivatized peptides underwent facile fragmentation under MALDI post-source decay (PSD... sulfonated peptides to be differentiated from ...

  

Source: Chang, Sukbok - Department of Chemistry, Korea Advanced Institute of Science and Technology

 

Collection: Chemistry

 
83 Published: December 22, 2010 r 2010 American Chemical Society 790 dx.doi.org/10.1021/ac102272r |Anal. Chem. 2011, 83, 790796
 

Summary:  of peptide fragmentation spectra and found that they are more accurate than the ad-hoc models generally used... ). These results provide evidence that, in terms of accuracy of modeling, predicted peptide fragmentation spectra... accurate than MassAnalyzer (an approach based on a kinetic model for ...

  

Source: Radivojac, Predrag - School of Informatics, Indiana University

 

Collection: Computer Technologies and Information Sciences

 
84 Influence of Basic Residue Content on Fragment Ion Peak Intensities in Low-Energy
 

Summary:  arginine and lysine residues. Tryptic peptides fragment in ion trap tandem mass spectrometry to produce... fragmentation. By characterizing the influence of basic residues on gas-phase fragmentation of peptides... , this research makes possible more accurate ...

  

Source: Wysocki, Vicki H. - Department of Chemistry and Biochemistry, University of Arizona

 

Collection: Chemistry

 
85 Helix-stabilized Fv (hsFv) Antibody Fragments: Substituting the Constant Domains of a Fab Fragment
 

Summary:  compared in this study. (a) Helix-stabilized Fv fragment (hsFv). In the ®nal construct, the VH domain (blue... , in a peptide folded as a b-strand about 3.06 AÊ , and 0.70 AÊ in a peptide chain folded as a-helix. Thus... a peptide linker to ...

  

Source: Arndt, Katja - Institut für Biologie III, Albert-Ludwigs-Universität Freiburg; Müller, Kristian - Institut für Biologie III, Albert-Ludwigs-Universität Freiburg

 

Collection: Biology and Medicine ; Biotechnology

 
86 Ubiquitin folds through a highly polarized transition state
 

Summary:  -values. In the TSE, the main a-helix appears to be fully formed (two f-values which specifically probe helical... ­condensation mechanism in which there is a highly polarized folding nuc- leus comprising the first b-hairpin and the a-helix... !Val23 or Ile!Ala23 probe mainly tertiary interactions formed between the a-helix and ...

  

Source: Jackson, Sophie - Department of Chemistry, University of Cambridge

 

Collection: Chemistry ; Biology and Medicine

 
87 funded by the German Federal Ministry for Education and Research Protein Identification
 

Summary:  #12;Clemens Gröpl, 4.2.2008 Single Stage MS MS #12;Clemens Gröpl, 4.2.2008 Peptide Fragmentation H... (addition of a proton) #12;Clemens Gröpl, 4.2.2008 Peptide Fragmentation H...-HN-CH-CO NH... -acids arranged in a linear backbone. H+ Fragmented peptide C-terminus ...

  

Source: Spang, Rainer - Computational Molecular Biology Group, Max-Planck-Institut für molekulare Genetik

 

Collection: Computer Technologies and Information Sciences ; Biotechnology ; Biology and Medicine

 
88 Role of the AP2 b-Appendage Hub in Recruiting Partners for Clathrin-Coated
 

Summary:  , the peptide forms one turn of a- helix before the density fades. There were two b-appendage molecules... ]xn[F/L]xDF, where n .3. Folding of b-Arrestin C-Terminal Peptide into an a-Helix on Interaction with the b... -appendage crystal structure the b-arrestin peptide ...

  

Source: McMahon, Harvey - Laboratory of Molecular Biology, MRC

 

Collection: Biology and Medicine

 
89 Expanding the polypeptide backbone: hydrogen-bonded conformations in hybrid
 

Summary:  hydrogen-bonded ring could be considered as an alternative to Pauling's a-helix, which is J. R. Soc... -handed a-helix), aL (left-handed a-helix), 310 (310-helix), two upward arrows (parallel b-sheet), left up... and all a-polypeptides such as the a-helix, b-sheet, b-turns and g-turns. Curiously, the a

  

Source: Balaram , P. - Molecular Biophysics Unit, Indian Institute of Science, Bangalore

 

Collection: Biology and Medicine

 
90 Molecular dynamics simulations of peptides on a hydrophilic-
 

Summary:  the aggregation of intact SC3. For this reason we have chosen to study three small peptide fragments taken from SC... of action of IAPP fragments that maintain the characteristics of the parent peptide. It has been shown... Chapter 4 Molecular dynamics simulations of peptides on a ...

  

Source: Groningen, Rijksuniversiteit - Centre for Ecological and Evolutionary Studies, Department of Marine Benthic Ecology and Evolution,

 

Collection: Biology and Medicine ; Environmental Sciences and Ecology

 
91 BIOINFORMATICS Vol. 1 no. 1 2001
 

Summary:  . Since pep- tides typically break a peptide-bond when they fragment by CID, the resulting spectrum... contains information about the constituent amino-acids of the peptide. The fragmentation of the peptide... experiment, many charged fragments are formed by CID of ...

  

Source: Bafna, Vineet - Department of Computer Science and Engineering, University of California at San Diego

 

Collection: Computer Technologies and Information Sciences

 
92 An Amphipathic aaa-Helix at a Membrane Interface: A Structural Study using a Novel X-ray
 

Summary:  Unit University of Alabama Medical Center, Birmingham AL 35294, USA The amphipathic a-helix... The amphipathic a-helix structural motif is fre- quently encountered in membrane proteins (Deisenhofer et al... of lipid reveals a pseudo-continuous amphipathic a-helix that is punctuated by proline residues

  

Source: White, Stephen - Department of Physiology and Biophysics, University of California, Irvine

 

Collection: Biology and Medicine

 
93 BIOINFORMATICS Vol. 1 no. 1 2001
 

Summary:  . Since pep- tides typically break a peptide-bond when they fragment by CID, the resulting spectrum... contains information about the constituent amino-acids of the peptide. The fragmentation of the peptide... experiment, many charged fragments are formed by CID of ...

  

Source: Edwards, Nathan - Center for Bioinformatics and Computational Biology, University of Maryland at College Park

 

Collection: Mathematics ; Computer Technologies and Information Sciences ; Biotechnology

 
94 Mutations that Reduce Aggregation of the Alzheimer's Ab42 Peptide: an Unbiased Search for the Sequence
 

Summary:  6 is approximately 18­23% a-helix, 30­32% b-sheet, 20­22% turn, and 28­35% random coil... ) In the context of a peptide fragment corre- sponding to residues 25­35 of Ab, mutation of either Ile31 or Ile32... as approximately 18­23% a-helix, 30­32% b-sheet, 20­22% turn and 28­35% "random". 1286 ...

  

Source: Hecht, Michael H. - Departments of Chemistry & Molecular Biology, Princeton University

 

Collection: Chemistry ; Biotechnology

 
95 Q 1992 by The AmericanSociety for Biochemistry and MolecularBiology, Inc. OFBIOLOGICAL CHEMISTRY Vol. 267, No. 11, Issue of April 15,pp. 7683-7689,1992
 

Summary:  . In our initial applicationwe study thesingle transmembrane a-helix ofhuman glycophorin A (GpA), thought... at avaline on a different faceof the a-helix disrupt dimerization, suggesting ahighdegree of specificity... ), and further from two syn- thetic helical transmembrane peptides plus the five-helix chymotryptic ...

  

Source: Engelman, Donald M.- Department of Molecular Biophysics and Biochemistry, Yale University

 

Collection: Biology and Medicine

 
96 Structure of the ubiquitin-binding zinc finger domain of human DNA Y-polymerase Z
 

Summary:  to the a-helix of the UBZ domain and the canonical hydrophobic surface of ubiquitin defined by residues L8... , I44 and V70. Although the UBZ domain binds ubiquitin through a single a-helix, in a manner similar... -strands formed by residues 632­634 and 641­643, respectively, and a carboxy-terminal a-helix spanning residues

  

Source: Zhou, Pei - Departments of Chemistry & Biochemistry, Duke University

 

Collection: Chemistry ; Biology and Medicine

 
97 DOI: 10.1002/cphc.201000205 Glycosylation Enhances Peptide Hydrophobic Collapse by
 

Summary:  of N-glycosylation on the energetics and structure of a coiled unfolded peptide, namely a fragment... be explained by previ- ous experimental studies which showed that the N-terminal a- helix of RNase A (residues... DOI: 10.1002/cphc.201000205 Glycosylation Enhances Peptide Hydrophobic ...

  

Source: Gräter, Frauke - Institute for Computational Biology, Shanghai Institutes for Biological Sciences

 

Collection: Biology and Medicine

 
98 Tilt and Rotation Angles of a Transmembrane Model Peptide as Studied by Fluorescence Spectroscopy
 

Summary:  of the peptide based on an ideal a-helix model. For WALP23 inserted in dioleoylphosphatidylcholine (DOPC... , the WALP23 peptide is modeled as an ideal a-helix. We also assume that the peptide tilt and rotation angle... ,31). Similarly, for WALP23 peptides in much too ...

  

Source: Gelb, Michael - Departments of Chemistry & Biochemistry, University of Washington at Seattle; Hemminga, Marcus A. - Department of Molecular Physics, Wageningen Universiteit

 

Collection: Biology and Medicine ; Chemistry ; Physics

 
99 Quantitative analysis of low-abundance peptides in HeLa cell cytoplasm by targeted liquid chromatography/
 

Summary:  to new strategies to analyse lower intensity peptide fragments. An in silico analysis of the human... fragmented peptides that generate the most intense signal at a given time. It is a limiting factor which... -abundance peptides which are either not intense enough at any time to generate ...

  

Source: Swain, Peter - Centre for Systems Biology at Edinburgh, University of Edinburgh

 

Collection: Physics ; Biology and Medicine

 
100 Identification of a Novel Effector Domain of BIN1 for Cancer Suppression
 

Summary:  peptide fragment retains a folded structure by which the peptide could be protected from limited tryptic... that lysine146 (Fig. 3A, sharp symbol) is located in the middle of an a-helix (Fig. 3A, rectangle). The COILS... within the 15-kDa peptide fragment of BIN1 ...

  

Source: Kihara, Daisuke - Department of Biological Sciences, Purdue University

 

Collection: Biology and Medicine ; Biotechnology


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