Format

Send to

Choose Destination
Nucleic Acids Res. 2017 Jul 3;45(W1):W291-W299. doi: 10.1093/nar/gkx366.

COFACTOR: improved protein function prediction by combining structure, sequence and protein-protein interaction information.

Author information

1
Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA.
2
Department of Biological Chemistry, University of Michigan, Ann Arbor, MI 48109, USA.

Abstract

The COFACTOR web server is a unified platform for structure-based multiple-level protein function predictions. By structurally threading low-resolution structural models through the BioLiP library, the COFACTOR server infers three categories of protein functions including gene ontology, enzyme commission and ligand-binding sites from various analogous and homologous function templates. Here, we report recent improvements of the COFACTOR server in the development of new pipelines to infer functional insights from sequence profile alignments and protein-protein interaction networks. Large-scale benchmark tests show that the new hybrid COFACTOR approach significantly improves the function annotation accuracy of the former structure-based pipeline and other state-of-the-art functional annotation methods, particularly for targets that have no close homology templates. The updated COFACTOR server and the template libraries are available at http://zhanglab.ccmb.med.umich.edu/COFACTOR/.

PMID:
28472402
PMCID:
PMC5793808
DOI:
10.1093/nar/gkx366
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Silverchair Information Systems Icon for PubMed Central
Loading ...
Support Center