Fr-TM-align: a new protein structural alignment method based on fragment alignments and the TM-score.

ABSTRACT:

Background

Protein tertiary structure comparisons are employed in various fields of contemporary structural biology. Most structure comparison methods involve generation of an initial seed alignment, which is extended and/or refined to provide the best structural superposition between a pair of protein structures as assessed by a structure comparison metric. One such metric, the TM-score, was recently introduced to provide a combined structure quality measure of the coordinate root mean square deviation between a pair of structures and coverage. Using the TM-score, the TM-align structure alignment algorithm was developed that was often found to have better accuracy and coverage than the most commonly used structural alignment programs; however, there were a number of situations whe

SUBMITTER: Pandit SB 

PROVIDER: S-EPMC2628391 | biostudies-literature | 2008 Dec

REPOSITORIES: biostudies-literature