Abstract:
:The PSI/TM-Coffee web server performs multiple sequence alignment (MSA) of proteins by combining homology extension with a consistency based alignment approach. Homology extension is performed with Position Specific Iterative (PSI) BLAST searches against a choice of redundant and non-redundant databases. The main novelty of this server is to allow databases of reduced complexity to rapidly perform homology extension. This server also gives the possibility to use transmembrane proteins (TMPs) reference databases to allow even faster homology extension on this important category of proteins. Aside from an MSA, the server also outputs topological prediction of TMPs using the HMMTOP algorithm. Previous benchmarking of the method has shown this approach outperforms the most accurate alignment methods such as MSAProbs, Kalign, PROMALS, MAFFT, ProbCons and PRALINE™. The web server is available at http://tcoffee.crg.cat/tmcoffee.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Floden EW,Tommaso PD,Chatzou M,Magis C,Notredame C,Chang JMdoi
10.1093/nar/gkw300subject
Has Abstractpub_date
2016-07-08 00:00:00pages
W339-43issue
W1eissn
0305-1048issn
1362-4962pii
gkw300journal_volume
44pub_type
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