GalaxyHomomer: a web server for protein homo-oligomer structure prediction from a monomer sequence or structure.

Abstract:

:Homo-oligomerization of proteins is abundant in nature, and is often intimately related with the physiological functions of proteins, such as in metabolism, signal transduction or immunity. Information on the homo-oligomer structure is therefore important to obtain a molecular-level understanding of protein functions and their regulation. Currently available web servers predict protein homo-oligomer structures either by template-based modeling using homo-oligomer templates selected from the protein structure database or by ab initio docking of monomer structures resolved by experiment or predicted by computation. The GalaxyHomomer server, freely accessible at http://galaxy.seoklab.org/homomer, carries out template-based modeling, ab initio docking or both depending on the availability of proper oligomer templates. It also incorporates recently developed model refinement methods that can consistently improve model quality. Moreover, the server provides additional options that can be chosen by the user depending on the availability of information on the monomer structure, oligomeric state and locations of unreliable/flexible loops or termini. The performance of the server was better than or comparable to that of other available methods when tested on benchmark sets and in a recent CASP performed in a blind fashion.

journal_name

Nucleic Acids Res

journal_title

Nucleic acids research

authors

Baek M,Park T,Heo L,Park C,Seok C

doi

10.1093/nar/gkx246

subject

Has Abstract

pub_date

2017-07-03 00:00:00

pages

W320-W324

issue

W1

eissn

0305-1048

issn

1362-4962

pii

3111111

journal_volume

45

pub_type

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