Journal Article

InterMap3D: predicting and visualizing co-evolving protein residues

Rodrigo Gouveia-Oliveira, Francisco S. Roque, Rasmus Wernersson, Thomas Sicheritz-Ponten, Peter W. Sackett, Anne Mølgaard and Anders G. Pedersen

in Bioinformatics

Volume 25, issue 15, pages 1963-1965
Published in print August 2009 | ISSN: 1367-4803
Published online June 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp335
InterMap3D: predicting and visualizing co-evolving protein residues

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Summary: InterMap3D predicts co-evolving protein residues and plots them on the 3D protein structure. Starting with a single protein sequence, InterMap3D automatically finds a set of homologous sequences, generates an alignment and fetches the most similar 3D structure from the Protein Data Bank (PDB). It can also accept a user-generated alignment. Based on the alignment, co-evolving residues are then predicted using three different methods: Row and Column Weighing of Mutual Information, Mutual Information/Entropy and Dependency. Finally, InterMap3D generates high-quality images of the protein with the predicted co-evolving residues highlighted.

Availability: http://www.cbs.dtu.dk/services/InterMap3D/

Contact: gorm@cbs.dtu.dk

Journal Article.  1563 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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