SWISS‐MODEL and the Swiss‐Pdb Viewer: An environment for comparative protein modeling

Keywords

Workbench, Computer science, Software, Process (computing), Protein Data Bank (RCSB PDB)

References

• The Protein Data Bank: a computer-based archival file for macromolecular structures.恵子 宮北 — 1977
• The relation between the divergence of sequence and structure in proteins.C. Chothia, Arthur M. Lesk — 1986
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• Using known substructures in protein model building and crystallography.T. Alwyn Jones, Søren Thirup — 1986
• ProMod and Swiss-Model: Internet-based tools for automated comparative protein modelling.Manuel C. Peitsch — 1996
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• A NEW FORCE FIELD FOR MOLECULAR MECHANICAL SIMULATION OF NUCLEIC ACIDS AND PROTEINSScott J. Weiner, Peter A. Kollman, David A. Case — 1984
• The SWISS-PROT protein sequence data bank and its new supplement TREMBLAmos Bairoch — 1996
• Protein Modeling by E-mailManuel C. Peitsch — 1995
• Refined crystal structure of cytoplasmic malate dehydrogenase at 2.5-A resolution.Jens J. Birktoft, Gale Rhodes, Leonard Banaszak — 1989
• A time-efficient, linear-space local similarity algorithmXiaoqiu Huang, Webb Miller — 1991
• Analysis of six protein structures predicted by comparative modeling techniquesRobert W. Harrison, Devjani Chatterjee, Irene T. Weber — 1995
• Automated method for modeling seven-helix transmembrane receptors from experimental data.Pawel Herzyk, R.E. Hubbard — 1995
• A new generation of information retrieval tools for biologists: the example of the ExPASy WWW server.Ron D. Appel, Amos Bairoch, Denis F. Hochstrasser — 1994
• Improved tools for biological sequence comparison.William R. Pearson, David J. Lipman — 1988
• Knowledge-based prediction of protein structures and the design of novel moleculesTom L. Blundell, B. L. Sibanda, Michael J.E. Sternberg — 1987
• Refined crystal structure of mitochondrial malate dehydrogenase from porcine heart and the consensus structure for dicarboxylic acid oxidoreductases.William B. Gleason, Zhuji Fu, Jens J. Birktoft — 1994
• A comparison of the structures of apo dogfish M4 lactate dehydrogenase and its ternary complexes.Janice L. White, Marvin L. Hackert, Manfred Buehner — 1977
• Determinants of protein thermostability observed in the 1.9-A crystal structure of malate dehydrogenase from the thermophilic bacterium Thermus flavus.Clyde Kelly, Makoto Nishiyama, Yasuo Ohnishi — 1993
• Basic local alignment search tool.Stephen F. Altschul, Warren Gish, Webb Miller — 1990

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• Resistance of Hepatitis C Virus to Ns3–4A Protease Inhibitors: Mechanisms of Drug Resistance Induced by R155Q, A156T, D168A and D168V MutationsJérôme Courcambeck, Mourad Bouzidi, R. Perbost — 2005
• Applications of Structural Bioinformatics for the Structural Genomics EraMarián Novotný — 2007
• Multiple templates-based homology modeling and docking analysis of angiotensin II type 1 receptorYun-feng Xie, Yuren Jiang, Pan Ya-fei — 2012
• Computational and experimental studies of protein kinase-inhibitor interactionsShun Zhu — 2011
• Computational analysis and prediction of genome-wide protein targeting signals and localizationJianjun Hu, Jhih-Rong Lin — 2013
• Chemical Methods for the Structural Study of the Ribosome: Judgment DayПетр В. Сергиев, Olga А. Dontsova, Alexey A. Bogdanov — 2001
• Chromatin Insulators: Master Regulators of the Eukaryotic GenomeTodd A. Schoborg — 2013
• Structure and function prediction of the Brucella abortus P39 protein by comparative modeling with marginal sequence similarities.jan — 1999
• Structure-function relationships in yeast tubulins.Vanessa Chiaradia — 2000
• Expression of lymphotoxins and their receptor-Fc fusion proteins by baculovirus.James H. Russell, Bernard S. Covino, John W. Simmons — 2000
• Sls1p Stimulates Sec63p-Mediated Activation of Kar2p in a Conformation-Dependent Manner in the Yeast Endoplasmic Reticulum恒彦 杉木 — 2000
• Mimicking a conformational B cell epitope of the heat shock protein PfHsp70‐1 antigen of Plasmodium falciparum using a multiple antigenic peptideHelen Haste — 2000
• Crystal structure of cytochrome P450 14α-sterol demethylase (CYP51) from Mycobacterium tuberculosis in complex with azole inhibitorsH. Hannaert, R. Lopes Cardozo — 2001
• Angiogenesis Inhibitors Specific for Methionine Aminopeptidase 2 as Drugs for Malaria and LeishmaniasisMartínez Arce, María Dolores — 2002
• Isolation and Amino Acid Sequence of Two New PR-4 Proteins from WheatCarla Caruso, Monica Nobile, Luca Leonardi — 2001
• Rab-subfamily-specific regions of Ypt7p are structurally different from other RabGTPases.Alexandru-Tudor Constantinescu, Alexey Rak, Kirill Alexandrov — 2002
• Automated Protein Structure Modeling with SWISS-MODEL Workspace and the Protein Model PortalLorenza Bordoli, Torsten Schwede — 2012
• Computational Prediction and Analysis of the NAPP – DR6 Interaction: Implications for Alzheimer's ResearchJosheph Audie, Sergei Y. Ponomarev — 2010
• Structural features of prions explored by sequence analysis. II. A PrPSc modelAna Begoña Merino Gil — 2002

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