ConSole: using modularity of contact maps to locate solenoid domains in protein structures.

ABSTRACT:

Background

Periodic proteins, characterized by the presence of multiple repeats of short motifs, form an interesting and seldom-studied group. Due to often extreme divergence in sequence, detection and analysis of such motifs is performed more reliably on the structural level. Yet, few algorithms have been developed for the detection and analysis of structures of periodic proteins.

Results

ConSole recognizes modularity in protein contact maps, allowing for precise identification of repeats in solenoid protein structures, an important subgroup of periodic proteins. Tests on benchmarks show that ConSole has higher recognition accuracy as compared to Raphael, the only other publicly available solenoid structure detection tool. As a next step of ConSole analysis, we show how det

SUBMITTER: Hrabe T 

PROVIDER: S-EPMC4021314 | biostudies-literature | 2014 Apr

REPOSITORIES: biostudies-literature