Format

Send to

Choose Destination
Nucleic Acids Res. 2015 Jan;43(Database issue):D382-6. doi: 10.1093/nar/gku973. Epub 2014 Oct 27.

Genome3D: exploiting structure to help users understand their sequences.

Author information

1
Institute of Structural and Molecular Biology, UCL, 636 Darwin Building, Gower Street, London, WC1E 6BT, UK.
2
Institute of Structural and Molecular Biology, UCL, 636 Darwin Building, Gower Street, London, WC1E 6BT, UK i.sillitoe@ucl.ac.uk.
3
MRC Laboratory of Molecular Biology, Hills Road, Cambridge, CB2 0QH, UK.
4
Department of Biochemistry, University of Cambridge, Old Addenbrooke's Site, 80 Tennis Court Road, Cambridge, CB2 1GA, UK.
5
Department of Computer Science, UCL, Gower Street, London, WC1E 6BT, UK.
6
European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK.
7
Centre for Bioinformatics, Department of Life Sciences, Imperial College London, London, SW7 2AZ, UK.
8
Department of Computer Science, University of Bristol, Merchant Venturers Building, Woodland Road, Bristol, BS8 1UB, UK.
9
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.
10
MRC Clinical Sciences Centre, Hammersmith Hospital Campus, Du Cane Road, London, W12 0NN, UK.

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.

PMID:
25348407
PMCID:
PMC4384030
DOI:
10.1093/nar/gku973
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Silverchair Information Systems Icon for PubMed Central
Loading ...
Support Center