AIDA: ab initio domain assembly for automated multi-domain protein structure prediction and domain-domain interaction prediction.

ABSTRACT:

Motivation

Most proteins consist of multiple domains, independent structural and evolutionary units that are often reshuffled in genomic rearrangements to form new protein architectures. Template-based modeling methods can often detect homologous templates for individual domains, but templates that could be used to model the entire query protein are often not available.

Results

We have developed a fast docking algorithm ab initio domain assembly (AIDA) for assembling multi-domain protein structures, guided by the ab initio folding potential. This approach can be extended to discontinuous domains (i.e. domains with 'inserted' domains). When tested on experimentally solved structures of multi-domain proteins, the relative domain positions were accurately found among top 5000 m

SUBMITTER: Xu D 

PROVIDER: S-EPMC4481839 | biostudies-literature | 2015 Jul

REPOSITORIES: biostudies-literature