Template-based Structure Modeling of Protein-Protein Interactions

Curr Opin Struct Biol. 2014 Feb;24:10-23. doi: 10.1016/j.sbi.2013.11.005. Epub 2013 Dec 11.

Abstract

The structure of protein-protein complexes can be constructed by using the known structure of other protein complexes as a template. The complex structure templates are generally detected either by homology-based sequence alignments or, given the structure of monomer components, by structure-based comparisons. Critical improvements have been made in recent years by utilizing interface recognition and by recombining monomer and complex template libraries. Encouraging progress has also been witnessed in genome-wide applications of template-based modeling, with modeling accuracy comparable to high-throughput experimental data. Nevertheless, bottlenecks exist due to the incompleteness of the protein-protein complex structure library and the lack of methods for distant homologous template identification and full-length complex structure refinement.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't
  • Review

MeSH terms

  • Amino Acid Sequence
  • Animals
  • Databases, Protein
  • Humans
  • Molecular Docking Simulation / methods*
  • Molecular Sequence Data
  • Protein Conformation
  • Protein Interaction Mapping / methods*
  • Proteins / chemistry
  • Proteins / metabolism*

Substances

  • Proteins