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, Jos ́e M; Filippis, Ioannis; Gough, Julian; +14 more...Jones, David T; Kelley, Lawrence A.; Kleywegt, Gerard J; Minneci, Federico; Mistry, Jaina; Murzin, AlexeyG.; Ochoa-Monta ̃no, 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. ISSN 0305-1048 [Article]

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Genome3D (http://www.genome3d.eu) is a collaborative resource that provides predicted domain an-notations and structural models for key sequences.Since introducing Genome3D in a previous NAR pa-per, 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 haveimproved 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.