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.

Original languageEnglish (US)
Pages (from-to)3375-3380
Number of pages6
JournalNucleic acids research
Volume31
Issue number13
DOIs
Publication statusPublished - Jul 1 2003

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ASJC Scopus subject areas

  • Genetics

Cite this

Eswar, N., John, B., Mirkovic, N., Fiser, A., Ilyin, V. A., Pieper, U., ... Sali, A. (2003). Tools for comparative protein structure modeling and analysis. Nucleic acids research, 31(13), 3375-3380. https://doi.org/10.1093/nar/gkg543