ARTICLES:

Pooja Arora, Terrence G. Oas, and Jeffrey K. Myers

Fast and faster: A designed variant of the B-domain of protein A folds in 3 µsec
Protein Sci 2004 13: 847-853. [Abstract] [Full Text]  

Matthias Bochtler, Sergey G. Odintsov, Malgorzata Marcyjaniak, and Izabela Sabala

Similar active sites in lysostaphins and D-Ala-D-Ala metallopeptidases
Protein Sci 2004 13: 854-861. [Abstract] [Full Text]  

Nicolae-Viorel Buchete, John E. Straub, and Devarajan Thirumalai

Orientational potentials extracted from protein structures improve native fold recognition
Protein Sci 2004 13: 862-874. [Abstract] [Full Text]  

Wei-Jung Chen, I-Shuan Lee, Ching-Ying Chen, and Ta-Hsiu Liao

Biological functions of the disulfides in bovine pancreatic deoxyribonuclease
Protein Sci 2004 13: 875-883. [Abstract] [Full Text]  

Anna R. Panchenko, Fyodor Kondrashov, and Stephen Bryant

Prediction of functional sites by analysis of sequence and structure conservation
Protein Sci 2004 13: 884-892. Published in Advance March 9, 2004, 10.1110/ps.03465504 [Abstract] [Full Text]  

Anton V. Persikov, Yujia Xu, and Barbara Brodsky

Equilibrium thermal transitions of collagen model peptides
Protein Sci 2004 13: 893-902. Published in Advance March 9, 2004, 10.1110/ps.03501704 [Abstract] [Full Text]  

Na Pi, Yonghao Yu, Joseph D. Mougous, and Julie A. Leary

Observation of a hybrid random ping-pong mechanism of catalysis for NodST: A mass spectrometry approach
Protein Sci 2004 13: 903-912. [Abstract] [Full Text]  

Barbara Pioselli, Stefano Bettati, Tatyana V. Demidkina, Lyudmila N. Zakomirdina, Robert S. Phillips, and Andrea Mozzarelli

Tyrosine phenol-lyase and tryptophan indole-lyase encapsulated in wet nanoporous silica gels: Selective stabilization of tertiary conformations
Protein Sci 2004 13: 913-924. [Abstract] [Full Text]  

Navin Pokala and Tracy M. Handel

Energy functions for protein design I: Efficient and accurate continuum electrostatics and solvation
Protein Sci 2004 13: 925-936. Published in Advance March 9, 2004, 10.1110/ps.03486104 [Abstract] [Full Text] [Supplemental Research Data]  

Mikaela Rapp, David Drew, Daniel O. Daley, Johan Nilsson, Tiago Carvalho, Karin Melén, Jan-Willem De Gier, and Gunnar Von Heijne

Experimentally based topology models for E. coli inner membrane proteins
Protein Sci 2004 13: 937-945. [Abstract] [Full Text] [Supplemental Research Data]  

Pascal Bonnet and Richard A. Bryce

Molecular dynamics and free energy analysis of neuraminidase–ligand interactions
Protein Sci 2004 13: 946-957. [Abstract] [Full Text]  

Scott Brown and Teresa Head-Gordon

Intermediates and the folding of proteins L and G
Protein Sci 2004 13: 958-970. [Abstract] [Full Text]  

Sing-Yang Chang, Tzu-Ping Ko, Annie P.-C. Chen, Andrew H.-J. Wang, and Po-Huang Liang

Substrate binding mode and reaction mechanism of undecaprenyl pyrophosphate synthase deduced from crystallographic studies
Protein Sci 2004 13: 971-978. [Abstract] [Full Text] [Supplemental Research Data]  

Roberto A. Chica, Paul Gagnon, Jeffrey W. Keillor, and Joelle N. Pelletier

Tissue transglutaminase acylation: Proposed role of conserved active site Tyr and Trp residues revealed by molecular modeling of peptide substrate binding
Protein Sci 2004 13: 979-991. Published in Advance March 9, 2004, 10.1110/ps.03433304 [Abstract] [Full Text]  

Hao Fan and Alan E. Mark

Mimicking the action of folding chaperones in molecular dynamics simulations: Application to the refinement of homology-based protein structures
Protein Sci 2004 13: 992-999. Published in Advance March 9, 2004, 10.1110/ps.03449904 [Abstract] [Full Text]  

M^a Flor García-Mayoral, Lucia García-Ortega, M^a Pilar Lillo, Jorge Santoro, Álvaro Martínez Del Pozo, José G. Gavilanes, Manuel Rico, and Marta Bruix

NMR structure of the noncytotoxic -sarcin mutant (7-22): The importance of the native conformation of peripheral loops for activity
Protein Sci 2004 13: 1000-1011. [Abstract] [Full Text]  

Larry M. Gordon, Patrick W. Mobley, William Lee, Sepehr Eskandari, Yiannis N. Kaznessis, Mark A. Sherman, and Alan J. Waring

Conformational mapping of the N-terminal peptide of HIV-1 gp41 in lipid detergent and aqueous environments using ¹³C-enhanced Fourier transform infrared spectroscopy
Protein Sci 2004 13: 1012-1030. [Abstract] [Full Text] [Supplemental Research Data]  

Majbritt Hansen, Jérôme Le Nours, Eva Johansson, Torben Antal, Alexandra Ullrich, Monika Löffler, and Sine Larsen

Inhibitor binding in a class 2 dihydroorotate dehydrogenase causes variations in the membrane-associated N-terminal domain
Protein Sci 2004 13: 1031-1042. [Abstract] [Full Text]  

Ozlem Keskin, Chung-Jung Tsai, Haim Wolfson, and Ruth Nussinov

A new, structurally nonredundant, diverse data set of protein–protein interfaces and its implications
Protein Sci 2004 13: 1043-1055. [Abstract] [Full Text] [Supplemental Research Data]  

Hanna-Kirsti Schrøder Leiros, Bjørn Olav Brandsdal, Ole Andreas Andersen, Vibeke Os, Ingar Leiros, Ronny Helland, Jacek Otlewski, Nils Peder Willassen, and Arne O. Smalås

Trypsin specificity as elucidated by LIE calculations, X-ray structures, and association constant measurements
Protein Sci 2004 13: 1056-1070. [Abstract] [Full Text]  

Marc A. Marti-Renom, M.S. Madhusudhan, and Andrej Sali

Alignment of protein sequences by their profiles
Protein Sci 2004 13: 1071-1087. [Abstract] [Full Text]  

Anthony Mittermaier and Lewis E. Kay

The response of internal dynamics to hydrophobic core mutations in the SH3 domain from the Fyn tyrosine kinase
Protein Sci 2004 13: 1088-1099. [Abstract] [Full Text]  

Christine Pato, Chantal Célier, Human Rezaei, Jeanne Grosclaude, and Michael C. Marden

Heme as an optical probe of a conformational transition of ovine recPrP
Protein Sci 2004 13: 1100-1107. Published in Advance March 9, 2004, 10.1110/ps.03409304 [Abstract] [Full Text]  

Alexander L. Perryman, Jung-Hsin Lin, and J. Andrew McCammon

HIV-1 protease molecular dynamics of a wild-type and of the V82F/I84V mutant: Possible contributions to drug resistance and a potential new target site for drugs
Protein Sci 2004 13: 1108-1123. [Abstract] [Full Text] [Supplemental Research Data]  

Linda L. Randall, Jennine M. Crane, Gseping Liu, and Simon J.S. Hardy

Sites of interaction between SecA and the chaperone SecB, two proteins involved in export
Protein Sci 2004 13: 1124-1133. Published in Advance March 9, 2004, 10.1110/ps.03410104 [Abstract] [Full Text]  

Clara M. Santiveri, Jorge Santoro, Manuel Rico, and M. Angeles Jiménez

Factors involved in the stability of isolated -sheets: Turn sequence, -sheet twisting, and hydrophobic surface burial
Protein Sci 2004 13: 1134-1147. [Abstract] [Full Text] [Supplemental Research Data]  

FOR THE RECORD:

Chang-Hun Lee, Jin-Won Jung, Adelinda Yee, Cheryl H. Arrowsmith, and Weontae Lee

Solution structure of a novel calcium binding protein, MTH1880, from Methanobacterium thermoautotrophicum
Protein Sci 2004 13: 1148-1154. [Abstract] [Full Text]  

Mark A. Robien, Kiet T. Nguyen, Abhinav Kumar, Irwin Hirsh, Stewart Turley, Dehua Pei, and Wim G.J. Hol

An improved crystal form of Plasmodium falciparum peptide deformylase
Protein Sci 2004 13: 1155-1163. Published in Advance March 9, 2004, 10.1110/ps.03456404 [Abstract] [Full Text]  

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