title: Genome3D: exploiting structure to help users understand their sequences.
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.
authors.affiliation: Institute of Structural and Molecular Biology, UCL, 636 Darwin Building, Gower Street, London, WC1E 6BT, UK.
authors.forename: Tony E
authors.initials: TE
authors.lastname: Lewis
authors.affiliation: Institute of Structural and Molecular Biology, UCL, 636 Darwin Building, Gower Street, London, WC1E 6BT, UK i.sillitoe@ucl.ac.uk.
authors.forename: Ian
authors.initials: I
authors.lastname: Sillitoe
authors.affiliation: MRC Laboratory of Molecular Biology, Hills Road, Cambridge, CB2 0QH, UK.
authors.forename: Antonina
authors.initials: A
authors.lastname: Andreeva
authors.affiliation: Department of Biochemistry, University of Cambridge, Old Addenbrooke's Site, 80 Tennis Court Road, Cambridge, CB2 1GA, UK.
authors.forename: Tom L
authors.initials: TL
authors.lastname: Blundell
authors.affiliation: Department of Computer Science, UCL, Gower Street, London, WC1E 6BT, UK.
authors.forename: Daniel W A
authors.initials: DW
authors.lastname: Buchan
authors.affiliation: MRC Laboratory of Molecular Biology, Hills Road, Cambridge, CB2 0QH, UK.
authors.forename: Cyrus
authors.initials: C
authors.lastname: Chothia
authors.affiliation: Department of Computer Science, UCL, Gower Street, London, WC1E 6BT, UK.
authors.forename: Domenico
authors.initials: D
authors.lastname: Cozzetto
authors.affiliation: European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK.
authors.forename: José M
authors.initials: JM
authors.lastname: Dana
authors.affiliation: Centre for Bioinformatics, Department of Life Sciences, Imperial College London, London, SW7 2AZ, UK.
authors.forename: Ioannis
authors.initials: I
authors.lastname: Filippis
authors.affiliation: Department of Computer Science, University of Bristol, Merchant Venturers Building, Woodland Road, Bristol, BS8 1UB, UK.
authors.forename: Julian
authors.initials: J
authors.lastname: Gough
authors.affiliation: Institute of Structural and Molecular Biology, UCL, 636 Darwin Building, Gower Street, London, WC1E 6BT, UK Department of Computer Science, UCL, Gower Street, London, WC1E 6BT, UK.
authors.forename: David T
authors.initials: DT
authors.lastname: Jones
authors.affiliation: Centre for Bioinformatics, Department of Life Sciences, Imperial College London, London, SW7 2AZ, UK.
authors.forename: Lawrence A
authors.initials: LA
authors.lastname: Kelley
authors.affiliation: European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK.
authors.forename: Gerard J
authors.initials: GJ
authors.lastname: Kleywegt
authors.affiliation: Department of Computer Science, UCL, Gower Street, London, WC1E 6BT, UK.
authors.forename: Federico
authors.initials: F
authors.lastname: Minneci
authors.affiliation: European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK.
authors.forename: Jaina
authors.initials: J
authors.lastname: Mistry
authors.affiliation: MRC Laboratory of Molecular Biology, Hills Road, Cambridge, CB2 0QH, UK.
authors.forename: Alexey G
authors.initials: AG
authors.lastname: Murzin
authors.affiliation: Department of Biochemistry, University of Cambridge, Old Addenbrooke's Site, 80 Tennis Court Road, Cambridge, CB2 1GA, UK.
authors.forename: Bernardo
authors.initials: B
authors.lastname: Ochoa-Montaño
authors.affiliation: Department of Computer Science, University of Bristol, Merchant Venturers Building, Woodland Road, Bristol, BS8 1UB, UK.
authors.forename: Matt E
authors.initials: ME
authors.lastname: Oates
authors.affiliation: European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK.
authors.forename: Marco
authors.initials: M
authors.lastname: Punta
authors.affiliation: MRC Clinical Sciences Centre, Hammersmith Hospital Campus, Du Cane Road, London, W12 0NN, UK.
authors.forename: Owen J L
authors.initials: OJ
authors.lastname: Rackham
authors.affiliation: Department of Computer Science, University of Bristol, Merchant Venturers Building, Woodland Road, Bristol, BS8 1UB, UK.
authors.forename: Jonathan
authors.initials: J
authors.lastname: Stahlhacke
authors.affiliation: Centre for Bioinformatics, Department of Life Sciences, Imperial College London, London, SW7 2AZ, UK.
authors.forename: Michael J E
authors.initials: MJ
authors.lastname: Sternberg
authors.affiliation: European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK.
authors.forename: Sameer
authors.initials: S
authors.lastname: Velankar
authors.affiliation: Institute of Structural and Molecular Biology, UCL, 636 Darwin Building, Gower Street, London, WC1E 6BT, UK.
authors.forename: Christine
authors.initials: C
authors.lastname: Orengo
mesh_terms: D000465:Algorithms; D030562:Databases, Protein; D023281:Genomics; D020407:Internet; D008958:Models, Molecular; D058977:Molecular Sequence Annotation; D017434:Protein Structure, Tertiary / Q000235:genetics; D020539:Sequence Analysis, Protein