3DCoffeeιgs

A web server for combining sequences and structures into a multiple sequence alignment

Oliver Poirot, Karsten Suhre, Chantal Abergel, Eamonn O'Toole, Cedric Notredame

Research output: Contribution to journalArticle

129 Citations (Scopus)

Abstract

This paper presents 3DCoffeeιgs, 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/.

Original languageEnglish
JournalNucleic Acids Research
Volume32
Issue numberWEB SERVER ISS.
DOIs
Publication statusPublished - 1 Jul 2004
Externally publishedYes

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Sequence Alignment
Coffee
Documentation
Proteins

ASJC Scopus subject areas

  • Genetics

Cite this

3DCoffeeιgs : A web server for combining sequences and structures into a multiple sequence alignment. / Poirot, Oliver; Suhre, Karsten; Abergel, Chantal; O'Toole, Eamonn; Notredame, Cedric.

In: Nucleic Acids Research, Vol. 32, No. WEB SERVER ISS., 01.07.2004.

Research output: Contribution to journalArticle

Poirot, Oliver ; Suhre, Karsten ; Abergel, Chantal ; O'Toole, Eamonn ; Notredame, Cedric. / 3DCoffeeιgs : A web server for combining sequences and structures into a multiple sequence alignment. In: Nucleic Acids Research. 2004 ; Vol. 32, No. WEB SERVER ISS.
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