XDOM, a graphical tool to analyse domain arrangements
in any set of protein sequences

CABIOS Vol. 13 no 6 1997 pages 601-608

GOUZY J.1, EUGENE P. 1, GREENE E.A. 1, KAHN D. 1 and CORPET F. 2*


1Laboratoire de Biologie Moléculaire des Relations Plantes-Microoorganismes, I.N.R.A./C.N.R.S., BP27, F-31326 Castanet-Tolosan Cedex, France

2Laboratoire de Génétique Cellulaire,
I.N.R.A., BP27, F-31326 Castanet-Tolosan Cedex, France
* to whom correspondence should be addressed.

Running title: Graphical tool for domain families.

Structured Abstract

Motivation: To extract the maximal possible information from a set of protein sequences, its modular organisation must be known and clearly displayed. This is important both for structural and functional analysis.

Results: The paper presents an algorithm and a graphical interface called xdom which performs a systematic analysis of the modular organisation of any set of protein sequences. The algorithm is an automatic method to identify putative domains from sequence comparisons. The graphical tool displays the proteins as a set of linked boxes, corresponding to its domains. The method has been tested on a family of bacterial proteins and on whole genomes. It is currently applied to the complete swiss-prot database to build the ProDom database.

Availability: xdom is available free of charge by anonymous ftp. The ProDom database can be consulted here .

  Download and install programs

How to use mkdom and xdom

References