A protein structure prediction server focusing on remote homologue identification. The design of [email protected] is based on the observation that a structural template, especially for remote homologous proteins, consists of conserved regions interweaved with highly-variable regions. The highly-variable regions lead to vague alignments in threading approaches. Thus, [email protected] first extracts conserved regions from each template and then aligns a query protein with conserved regions only rather than the full-length template directly. This helps avoid the vague alignments rooted in highly-variable regions, improving remote homologue identification.
This study was funded by National Basic Research Program of China under Grant 2012CB316502, National Nature Science Foundation of China under Grants 11175224, 11121403, 31270834, 61272318, 30870572, and 61303161, and National Institutes of Health of USA under Grants R21/R33-GM078601 and R01-GM100701.