Nucleic Acids Res. 2010 Jul;38(Web Server issue):W19-22. Epub 2010 May 23.

DIALIGN-TX and multiple protein alignment using secondary structure information at GOBICS.

Subramanian AR, Hiran S, Steinkamp R, Meinicke P, Corel E, Morgenstern B.

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Wilhelm-Schickard-Institut für Informatik, University of Tübingen, Sand 13, 72076 Tübingen, Germany.

Abstract

We introduce web interfaces for two recent extensions of the multiple-alignment program DIALIGN. DIALIGN-TX combines the greedy heuristic previously used in DIALIGN with a more traditional 'progressive' approach for improved performance on locally and globally related sequence sets. In addition, we offer a version of DIALIGN that uses predicted protein secondary structures together with primary sequence information to construct multiple protein alignments. Both programs are available through 'Göttingen Bioinformatics Compute Server' (GOBICS).

PMID:: 20497995; [PubMed - indexed for MEDLINE]
PMCID: PMC2896137

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