Tools for comparative protein structure modeling and analysis.

Narayanan Eswar; Bino John; Nebojsa Mirkovic; Andras Fiser; Valentin A Ilyin; Ursula Pieper; Ashley C Stuart; Marc A Marti-Renom; M S Madhusudhan; Bozidar Yerkovich; Andrej Sali

doi:10.1093/nar/gkg543

PubMed · 12824331

Tools for comparative protein structure modeling and analysis.

Narayanan Eswar·Bino John·Nebojsa Mirkovic·Andras Fiser·Valentin A Ilyin·Ursula Pieper·Ashley C Stuart·Marc A Marti-Renom·M S Madhusudhan·Bozidar Yerkovich·Andrej Sali

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Abstract

The following resources for comparative protein structure modeling and analysis are described (http://salilab.org): MODELLER, a program for comparative modeling by satisfaction of spatial restraints; MODWEB, a web server for automated comparative modeling that relies on PSI-BLAST, IMPALA and MODELLER; MODLOOP, a web server for automated loop modeling that relies on MODELLER; MOULDER, a CPU intensive protocol of MODWEB for building comparative models based on distant known structures; MODBASE, a comprehensive database of annotated comparative models for all sequences detectably related to a known structure; MODVIEW, a Netscape plugin for Linux that integrates viewing of multiple sequences and structures; and SNPWEB, a web server for structure-based prediction of the functional impact of a single amino acid substitution.

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Internet Models, Molecular Protein Folding Proteins Reproducibility of Results Sequence Alignment Sequence Homology, Amino Acid Software Structural Homology, Protein Systems Integration Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, P.H.S.

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Narayanan Eswar, Bino John, Nebojsa Mirkovic, Andras Fiser, Valentin A Ilyin, Ursula Pieper, Ashley C Stuart, Marc A Marti-Renom, M S Madhusudhan, Bozidar Yerkovich, Andrej Sali. 2003-07-01. Tools for comparative protein structure modeling and analysis.. https://doi.org/10.1093/nar%2Fgkg543

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