3DCoffee@igs: a web server for combining sequences and structures into a multiple sequence alignment | Zendy

Olivier Poirot | Zendy; Karsten Suhre | Zendy; Chantal Abergel | Zendy; E. O'Toole | Zendy; Cédric Notredame | Zendy

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3DCoffee@igs: a web server for combining sequences and structures into a multiple sequence alignment

Author(s) -

Olivier Poirot,

Karsten Suhre,

Chantal Abergel,

E. O'Toole,

Cédric Notredame

Publication year - 2004

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/gkh382

Subject(s) - biology , web server , sequence (biology) , upload , identifier , sequence alignment , multiple sequence alignment , set (abstract data type) , pairwise comparison , structural alignment , documentation , computer science , web browser , computational biology , bioinformatics , the internet , peptide sequence , genetics , operating system , programming language , artificial intelligence , gene

This paper presents 3DCoffee@igs, a web-based tool dedicated to the computation of high-quality multiple sequence alignments (MSAs). 3D-Coffee makes it possible to mix protein sequences and structures in order to increase the accuracy of the alignments. Structures can be either provided as PDB identifiers or directly uploaded into the server. Given a set of sequences and structures, pairs of structures are aligned with SAP while sequence-structure pairs are aligned with Fugue. The resulting collection of pairwise alignments is then combined into an MSA with the T-Coffee algorithm. The server and its documentation are available from http://igs-server.cnrs-mrs.fr/Tcoffee/.

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