| | This journal provides immediate access to some articles. Articles Fast and faster: A designed variant of the B-domain of protein A folds in 3 μsec Pooja Arora, Terrence G. Oas, and Jeffrey K. Myers PMCID: PMC2280057 Similar active sites in lysostaphins and D-Ala-D-Ala metallopeptidases Matthias Bochtler, Sergey G. Odintsov, Malgorzata Marcyjaniak, and Izabela Sabala PMCID: PMC2280044 Orientational potentials extracted from protein structures improve native fold recognition Nicolae-Viorel Buchete, John E. Straub, and Devarajan Thirumalai PMCID: PMC2280067 Biological functions of the disulfides in bovine pancreatic deoxyribonuclease Wei-Jung Chen, I-Shuan Lee, Ching-Ying Chen, and Ta-Hsiu Liao PMCID: PMC2280041 Prediction of functional sites by analysis of sequence and structure conservation Anna R. Panchenko, Fyodor Kondrashov, and Stephen Bryant PMCID: PMC2280064 Equilibrium thermal transitions of collagen model peptides Anton V. Persikov, Yujia Xu, and Barbara Brodsky PMCID: PMC2280063 Observation of a hybrid random ping-pong mechanism of catalysis for NodST: A mass spectrometry approach Na Pi, Yonghao Yu, Joseph D. Mougous, and Julie A. Leary PMCID: PMC2280043 Tyrosine phenol-lyase and tryptophan indole-lyase encapsulated in wet nanoporous silica gels: Selective stabilization of tertiary conformations Barbara Pioselli, Stefano Bettati, Tatyana V. Demidkina, Lyudmila N. Zakomirdina, Robert S. Phillips, and Andrea Mozzarelli PMCID: PMC2280055 Energy functions for protein design I: Efficient and accurate continuum electrostatics and solvation Navin Pokala and Tracy M. Handel PMCID: PMC2280065 Experimentally based topology models for E. coli inner membrane proteins Mikaela Rapp, David Drew, Daniel O. Daley, Johan Nilsson, Tiago Carvalho, Karin Melén, Jan-Willem De Gier, and Gunnar Von Heijne PMCID: PMC2280059 Molecular dynamics and free energy analysis of neuraminidase–ligand interactions Pascal Bonnet and Richard A. Bryce PMCID: PMC2280046 Intermediates and the folding of proteins L and G Scott Brown and Teresa Head-Gordon PMCID: PMC2280051 Substrate binding mode and reaction mechanism of undecaprenyl pyrophosphate synthase deduced from crystallographic studies Sing-Yang Chang, Tzu-Ping Ko, Annie P.-C. Chen, Andrew H.-J. Wang, and Po-Huang Liang PMCID: PMC2280048 Tissue transglutaminase acylation: Proposed role of conserved active site Tyr and Trp residues revealed by molecular modeling of peptide substrate binding Roberto A. Chica, Paul Gagnon, Jeffrey W. Keillor, and Joelle N. Pelletier PMCID: PMC2280066 Mimicking the action of folding chaperones in molecular dynamics simulations: Application to the refinement of homology-based protein structures Hao Fan and Alan E. Mark PMCID: PMC2280060 NMR structure of the noncytotoxic α-sarcin mutant Δ(7-22): The importance of the native conformation of peripheral loops for activity Ma Flor García-Mayoral, Lucia García-Ortega, Ma Pilar Lillo, Jorge Santoro, Álvaro Martínez Del Pozo, José G. Gavilanes, Manuel Rico, and Marta Bruix PMCID: PMC2280062 Conformational mapping of the N-terminal peptide of HIV-1 gp41 in lipid detergent and aqueous environments using 13C-enhanced Fourier transform infrared spectroscopy Larry M. Gordon, Patrick W. Mobley, William Lee, Sepehr Eskandari, Yiannis N. Kaznessis, Mark A. Sherman, and Alan J. Waring PMCID: PMC2280061 Inhibitor binding in a class 2 dihydroorotate dehydrogenase causes variations in the membrane-associated N-terminal domain Majbritt Hansen, Jérôme Le Nours, Eva Johansson, Torben Antal, Alexandra Ullrich, Monika Löffler, and Sine Larsen PMCID: PMC2280058 A new, structurally nonredundant, diverse data set of protein–protein interfaces and its implications Ozlem Keskin, Chung-Jung Tsai, Haim Wolfson, and Ruth Nussinov PMCID: PMC2280042 Trypsin specificity as elucidated by LIE calculations, X-ray structures, and association constant measurements 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 PMCID: PMC2280040 Alignment of protein sequences by their profiles Marc A. Marti-Renom, M.S. Madhusudhan, and Andrej Sali PMCID: PMC2280052 The response of internal dynamics to hydrophobic core mutations in the SH3 domain from the Fyn tyrosine kinase Anthony Mittermaier and Lewis E. Kay PMCID: PMC2280047 Heme as an optical probe of a conformational transition of ovine recPrP Christine Pato, Chantal Célier, Human Rezaei, Jeanne Grosclaude, and Michael C. Marden PMCID: PMC2280054 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 Alexander L. Perryman, Jung-Hsin Lin, and J. Andrew McCammon PMCID: PMC2280056 Sites of interaction between SecA and the chaperone SecB, two proteins involved in export Linda L. Randall, Jennine M. Crane, Gseping Liu, and Simon J.S. Hardy PMCID: PMC2280050 Factors involved in the stability of isolated β-sheets: Turn sequence, β-sheet twisting, and hydrophobic surface burial Clara M. Santiveri, Jorge Santoro, Manuel Rico, and M. Angeles Jiménez PMCID: PMC2280049 For the Record Solution structure of a novel calcium binding protein, MTH1880, from Methanobacterium thermoautotrophicum Chang-Hun Lee, Jin-Won Jung, Adelinda Yee, Cheryl H. Arrowsmith, and Weontae Lee PMCID: PMC2280053 An improved crystal form of Plasmodium falciparum peptide deformylase Mark A. Robien, Kiet T. Nguyen, Abhinav Kumar, Irwin Hirsh, Stewart Turley, Dehua Pei, and Wim G.J. Hol PMCID: PMC2280045 |
