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

Template-based structure modeling of protein-protein interactions.

Author information

1
Institute of Enzymology, Research Centre for Natural Sciences, Hungarian Academy of Sciences, Karolina út 29, Budapest 1113, Hungary.
2
Department of Computational Medicine & Bioinformatics, The University of Michigan, 100 Washtenaw Avenue, 2035B, Ann Arbor, MI 48109-2218, USA; Department of Biological Chemistry, The University of Michigan, 100 Washtenaw Avenue, 2035B, Ann Arbor, MI 48109-2218, USA. Electronic address: zhng@umich.edu.

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.

PMID:
24721449
PMCID:
PMC3984454
DOI:
10.1016/j.sbi.2013.11.005
[Indexed for MEDLINE]
Free PMC Article
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