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Pfam: clans, web tools and services
Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus Hinxton, Cambridge, CB10 1SA, UK 1Center for Genomics and Bioinformatics, Karolinska Institutet S-171 77 Stockholm, Sweden 2Department of Genetics, Howard Hughes Medical Institute, Washington University School of Medicine St Louis, MO 63110, USA
*To whom correspondence should be addressed. Tel: +44 1223 495330; Fax: +44 1223 494919; Email: rdf{at}sanger.ac.uk
Received September 15, 2005. Revised October 19, 2005. Accepted October 28, 2005.
Pfam is a database of protein families that currently contains 7973 entries (release 18.0). A recent development in Pfam has enabled the grouping of related families into clans. Pfam clans are described in detail, together with the new associated web pages. Improvements to the range of Pfam web tools and the first set of Pfam web services that allow programmatic access to the database and associated tools are also presented. 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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|
|
|
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|
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|
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|
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|
|
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|
|
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|
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|
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|
|
|
|
 |
|
 M. B. Lawrenz, J. D. Lenz, and V. L. Miller A Novel Autotransporter Adhesin Is Required for Efficient Colonization during Bubonic Plague Infect. Immun., January 1, 2009; 77(1): 317 - 326. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
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|
|
|
|
|
|
H. Y. K. Lam, E. Khurana, G. Fang, P. Cayting, N. Carriero, K.-H. Cheung, and M. B. Gerstein Pseudofam: the pseudogene families database Nucleic Acids Res., January 1, 2009; 37(suppl_1): D738 - D743. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
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|
|
|
|
|
|
R. A. Laskowski PDBsum new things Nucleic Acids Res., January 1, 2009; 37(suppl_1): D355 - D359. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. Wilson, R. Pethica, Y. Zhou, C. Talbot, C. Vogel, M. Madera, C. Chothia, and J. Gough SUPERFAMILY--sophisticated comparative genomics, data mining, visualization and phylogeny Nucleic Acids Res., January 1, 2009; 37(suppl_1): D380 - D386. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
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|
|
|
|
|
|
A. J. Bordner Predicting small ligand binding sites in proteins using backbone structure Bioinformatics, December 15, 2008; 24(24): 2865 - 2871. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
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|
|
|
|
 |
|
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|
|
|
|
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|
D. Chalkia, N. Nikolaidis, W. Makalowski, J. Klein, and M. Nei Origins and Evolution of the Formin Multigene Family That Is Involved in the Formation of Actin Filaments Mol. Biol. Evol., December 1, 2008; 25(12): 2717 - 2733. [Abstract] [Full Text] [PDF]
|
|
|
|
|
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|
|
|
|
|
|
A. J. Robinson, C. Overy, and E. R. S. Kunji The mechanism of transport by mitochondrial carriers based on analysis of symmetry PNAS, November 18, 2008; 105(46): 17766 - 17771. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Zhang, J. Ju, H. Peng, F. Gao, C. Zhou, Y. Zeng, Y. Xue, Y. Li, B. Henrissat, G. F. Gao, et al. Biochemical and Structural Characterization of the Intracellular Mannanase AaManA of Alicyclobacillus acidocaldarius Reveals a Novel Glycoside Hydrolase Family Belonging to Clan GH-A J. Biol. Chem., November 14, 2008; 283(46): 31551 - 31558. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
E. B. Rosenblum, J. E. Stajich, N. Maddox, and M. B. Eisen Global gene expression profiles for life stages of the deadly amphibian pathogen Batrachochytrium dendrobatidis PNAS, November 4, 2008; 105(44): 17034 - 17039. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. F. Del Papa and M. Perego Ethanolamine Activates a Sensor Histidine Kinase Regulating Its Utilization in Enterococcus faecalis J. Bacteriol., November 1, 2008; 190(21): 7147 - 7156. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. W. Vasconcelos, G. W. Li, M. A. Lubkowitz, and M. A. Grusak Characterization of the PT Clade of Oligopeptide Transporters in Rice The Plant Genome, November 1, 2008; 1(2): 77 - 88. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. F. de Souza, V. Anantharaman, S. J. de Souza, L. Aravind, and F. J. Gueiros-Filho AMIN domains have a predicted role in localization of diverse periplasmic protein complexes Bioinformatics, November 1, 2008; 24(21): 2423 - 2426. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
F. Jadeau, E. Bechet, A. J. Cozzone, G. Deleage, C. Grangeasse, and C. Combet Identification of the idiosyncratic bacterial protein tyrosine kinase (BY-kinase) family signature Bioinformatics, November 1, 2008; 24(21): 2427 - 2430. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. Somogyi, B. Sipos, Z. Penzes, E. Kurucz, J. Zsamboki, D. Hultmark, and I. Ando Evolution of Genes and Repeats in the Nimrod Superfamily Mol. Biol. Evol., November 1, 2008; 25(11): 2337 - 2347. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. S. Rajangam, M. Kumar, H. Aspeborg, G. Guerriero, L. Arvestad, P. Pansri, C. J.-L. Brown, S. Hober, K. Blomqvist, C. Divne, et al. MAP20, a Microtubule-Associated Protein in the Secondary Cell Walls of Hybrid Aspen, Is a Target of the Cellulose Synthesis Inhibitor 2,6-Dichlorobenzonitrile Plant Physiology, November 1, 2008; 148(3): 1283 - 1294. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
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|
|
|
|
|
|
J. Perez, A. Castaneda-Garcia, H. Jenke-Kodama, R. Muller, and J. Munoz-Dorado Eukaryotic-like protein kinases in the prokaryotes and the myxobacterial kinome PNAS, October 14, 2008; 105(41): 15950 - 15955. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
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|
|
|
|
 |
|
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|
|
|
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|
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|
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|
|
|
|
|
|
D. Przybylski and B. Rost Powerful fusion: PSI-BLAST and consensus sequences Bioinformatics, September 15, 2008; 24(18): 1987 - 1993. [Abstract] [Full Text] [PDF]
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 M. L. Miller, L. J. Jensen, F. Diella, C. Jorgensen, M. Tinti, L. Li, M. Hsiung, S. A. Parker, J. Bordeaux, T. Sicheritz-Ponten, et al. Linear Motif Atlas for Phosphorylation-Dependent Signaling Sci. Signal., September 2, 2008; 1(35): ra2 - ra2. [Abstract] [Full Text] [PDF]
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 X. Zou, Y. Zhu, E. L. Pohlmann, J. Li, Y. Zhang, and G. P. Roberts Identification and functional characterization of NifA variants that are independent of GlnB activation in the photosynthetic bacterium Rhodospirillum rubrum Microbiology, September 1, 2008; 154(9): 2689 - 2699. [Abstract] [Full Text] [PDF]
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 P.-J. Cao, L. E. Bartley, K.-H. Jung, and P. C. Ronald Construction of a Rice Glycosyltransferase Phylogenomic Database and Identification of Rice-Diverged Glycosyltransferases Mol Plant, September 1, 2008; 1(5): 858 - 877. [Abstract] [Full Text] [PDF]
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S. Codlin, R. L. Haines, J. Jemima, E. Burden, and S. E. Mole btn1 affects cytokinesis and cell-wall deposition by independent mechanisms, one of which is linked to dysregulation of vacuole pH J. Cell Sci., September 1, 2008; 121(17): 2860 - 2870. [Abstract] [Full Text] [PDF]
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J. Liu and G. D. Stormo Context-dependent DNA recognition code for C2H2 zinc-finger transcription factors Bioinformatics, September 1, 2008; 24(17): 1850 - 1857. [Abstract] [Full Text] [PDF]
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I. Ramazzina, L. Cendron, C. Folli, R. Berni, D. Monteverdi, G. Zanotti, and R. Percudani Logical Identification of an Allantoinase Analog (puuE) Recruited from Polysaccharide Deacetylases J. Biol. Chem., August 22, 2008; 283(34): 23295 - 23304. [Abstract] [Full Text] [PDF]
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R. J. Dutton, D. Boyd, M. Berkmen, and J. Beckwith Bacterial species exhibit diversity in their mechanisms and capacity for protein disulfide bond formation PNAS, August 19, 2008; 105(33): 11933 - 11938. [Abstract] [Full Text] [PDF]
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