Nucleic Acids Research, 2004, Vol. 32, Database issue D138-D141
© 2004 Oxford University Press
The Pfam protein families database
Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK, 1 Center for Genomics and Bioinformatics, Karolinska Institutet, S-171 77 Stockholm, Sweden and 2 Howard Hughes Medical Institute and Department of Genetics, Washington University School of Medicine, St Louis, MO 63110, USA
*To whom correspondence should be addressed. Tel: +44 1223 494950; Fax: +44 1223 494919; Email: agb{at}sanger.ac.uk
Pfam is a large collection of protein families and domains. Over the past 2 years the number of families in Pfam has doubled and now stands at 6190 (version 10.0). Methodology improvements for searching the Pfam collection locally as well as via the web are described. Other recent innovations include modelling of discontinuous domains allowing Pfam domain definitions to be closer to those found in structure databases. Pfam is available on the web in the UK (http://www.sanger.ac.uk/Software/Pfam/), the USA (http://pfam.wustl.edu/), France (http://pfam.jouy.inra.fr/) and Sweden (http://Pfam.cgb.ki.se/).
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T. Rossignol, P. Lechat, C. Cuomo, Q. Zeng, I. Moszer, and C. d'Enfert CandidaDB: a multi-genome database for Candida species and related Saccharomycotina Nucleic Acids Res., January 11, 2008; 36(suppl_1): D557 - D561. [Abstract] [Full Text] [PDF]
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J. J. Cragnolini and J. A. L. de Castro Identification of Endogenously Presented Peptides from Chlamydia trachomatis with High Homology to Human Proteins and to a Natural Self-ligand of HLA-B27 Mol. Cell. Proteomics, January 1, 2008; 7(1): 170 - 180. [Abstract] [Full Text] [PDF]
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B. L. Cantarel, I. Korf, S. M.C. Robb, G. Parra, E. Ross, B. Moore, C. Holt, A. Sanchez Alvarado, and M. Yandell MAKER: An easy-to-use annotation pipeline designed for emerging model organism genomes Genome Res., January 1, 2008; 18(1): 188 - 196. [Abstract] [Full Text] [PDF]
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M. Landau, K. Herz, E. Padan, and N. Ben-Tal Model Structure of the Na+/H+ Exchanger 1 (NHE1): FUNCTIONAL AND CLINICAL IMPLICATIONS J. Biol. Chem., December 28, 2007; 282(52): 37854 - 37863. [Abstract] [Full Text] [PDF]
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H. N. Chua, W.-K. Sung, and L. Wong An efficient strategy for extensive integration of diverse biological data for protein function prediction Bioinformatics, December 15, 2007; 23(24): 3364 - 3373. [Abstract] [Full Text] [PDF]
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