Genome3D: exploiting structure to help users understand their sequences

Lewis, Tony E., Sillitoe, Ian, Andreeva, Antonina, Blundell, Tom L., Buchan, Daniel W.A., Chothia, Cyrus, Cozzetto, Domenico, Dana, José M, Filippis, Ioannis, Gough, Julian, Jones, David T., Kelley, Lawrence A., Kleywegt, Gerard J., Minneci, Federico, Mistry, Jaina, Murzin, Alexey G., Ochoa-Montaño, Bernardo, Oates, Matt E., Punta, Marco, Rackham, Owen J.L., Stahlhacke, Jonathan, Sternberg, Michael J.E., Velankar, Sameer and Orengo, Christine (2015) Genome3D: exploiting structure to help users understand their sequences. Nucleic Acids Research, 43 (D1), D382-D386. (doi:10.1093/nar/gku973).

Abstract

Genome3D (http://www.genome3d.eu) is a collaborative resource that provides predicted domain annotations and structural models for key sequences. Since introducing Genome3D in a previous NAR paper, we have substantially extended and improved the resource. We have annotated representatives from Pfam families to improve coverage of diverse sequences and added a fast sequence search to the website to allow users to find Genome3D-annotated sequences similar to their own. We have improved and extended the Genome3D data, enlarging the source data set from three model organisms to 10, and adding VIVACE, a resource new to Genome3D. We have analysed and updated Genome3D's SCOP/CATH mapping. Finally, we have improved the superposition tools, which now give users a more powerful interface for investigating similarities and differences between structural models.

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Contributors

Author: Owen J.L. Rackham

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