TM-Aligner: Multiple sequence alignment tool for transmembrane proteins with reduced time and improved accuracy.

ABSTRACT: Membrane proteins plays significant role in living cells. Transmembrane proteins are estimated to constitute approximately 30% of proteins at genomic scale. It has been a difficult task to develop specific alignment tools for transmembrane proteins due to limited number of experimentally validated protein structures. Alignment tools based on homology modeling provide fairly good result by recapitulating 70-80% residues in reference alignment provided all input sequences should have known template structures. However, homology modeling tools took substantial amount of time, thus aligning large numbers of sequences becomes computationally demanding. Here we present TM-Aligner, a new tool for transmembrane protein sequence alignment. TM-Aligner is based on Wu-Manber and dynamic string matchin

SUBMITTER: Bhat B 

PROVIDER: S-EPMC5624947 | biostudies-literature | 2017 Oct

REPOSITORIES: biostudies-literature