Branch Mathematics and Statistics Faculty and Staff Publications

Document Type

Article

Publication Date

5-16-2011

Abstract

The FALC-Loop web server provides an online interface for protein loop modeling by employing an ab initio loop modeling method called FALC (fragment assembly and analytical loop closure). The server may be used to construct loop regions in homology modeling, to refine unreliable loop regions in experimental structures or to model segments of designed sequences. The FALC method is computationally less expensive than typical ab initio methods because the conformational search space is effectively reduced by the use of fragments derived from a structure database. The analytical loop closure algorithm allows efficient search for loop conformations that fit into the protein framework starting from the fragment-assembled structures. The FALC method shows prediction accuracy comparable to other state-of-the-art loop modeling methods. Top-ranked model structures can be visualized on the web server, and an ensemble of loop structures can be downloaded for further analysis. The web server can be freely accessed at http://falc-loop.seoklab.org/.

Publisher

Oxford University Press

Publication Title

Nucleic Acids Research

ISSN

0305-1048

Volume

39

First Page

210

Last Page

214

Language (ISO)

English

Keywords

protein loops

Comments

Article author is part of the Main Campus Math Department.

Download

Included in

Mathematics Commons

Share

COinS