Tools for Comparative Protein Structure Modeling and Analysis

Nucleic Acids Res. 2003 Jul 1;31(13):3375-80. doi: 10.1093/nar/gkg543.

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.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Internet
  • Models, Molecular
  • Protein Folding
  • Proteins / chemistry
  • Reproducibility of Results
  • Sequence Alignment
  • Sequence Homology, Amino Acid
  • Software*
  • Structural Homology, Protein*
  • Systems Integration

Substances

  • Proteins