Nucleic Acids Research, 2004, Vol. 32, Database issue D142-D144
© 2004 Oxford University Press
SMART 4.0: towards genomic data integration
EMBL, Meyerhofstrasse 1, 69012 Heidelberg, Germany, 1 Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford OX3 7BN, UK, 2 Bioinformatik, Biozentrum, Am Hubland, University of Wuerzburg, 97074 Wuerzburg, Germany and 3 MRC Functional Genetics Unit, Department of Human Anatomy and Genetics, University of Oxford, South Parks Road, Oxford OX1 3QX, UK
*To whom correspondence should be addressed. Tel: +49 6221 387 526; Fax: +49 6221 387 517; Email: bork{at}embl-heidelberg.de
SMART (Simple Modular Architecture Research Tool) is a web tool (http://smart.embl.de/) for the identification and annotation of protein domains, and provides a platform for the comparative study of complex domain architectures in genes and proteins. The January 2004 release of SMART contains 685 protein domains. New developments in SMART are centred on the integration of data from completed metazoan genomes. SMART now uses predicted proteins from complete genomes in its source sequence databases, and integrates these with predictions of orthology. New visualization tools have been developed to allow analysis of gene intron–exon structure within the context of protein domain structure, and to align these displays to provide schematic comparisons of orthologous genes, or multiple transcripts from the same gene. Other improvements include the ability to query SMART by Gene Ontology terms, improved structure database searching and batch retrieval of multiple entries.
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  E. Vollmeister, C. Haag, K. Zarnack, S. Baumann, J. Konig, G. Mannhaupt, and M. Feldbrugge Tandem KH domains of Khd4 recognize AUACCC and are essential for regulation of morphology as well as pathogenicity in Ustilago maydis RNA, December 1, 2009; 15(12): 2206 - 2218. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 T. L. Vrablik, L. Huang, S. E. Lange, and W. Hanna-Rose Nicotinamidase modulation of NAD+ biosynthesis and nicotinamide levels separately affect reproductive development and cell survival in C. elegans Development, November 1, 2009; 136(21): 3637 - 3646. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 L. G. Baker, C. A. Specht, and J. K. Lodge Chitinases Are Essential for Sexual Development but Not Vegetative Growth in Cryptococcus neoformans Eukaryot. Cell, November 1, 2009; 8(11): 1692 - 1705. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 W. Zhang, A. Lorence, H. A. Gruszewski, B. I. Chevone, and C. L. Nessler AMR1, an Arabidopsis Gene That Coordinately and Negatively Regulates the Mannose/L-Galactose Ascorbic Acid Biosynthetic Pathway Plant Physiology, June 1, 2009; 150(2): 942 - 950. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 L. E. Swanson, M. Yu, K. S. Nelson, P. Laprise, U. Tepass, and G. J. Beitel Drosophila convoluted/dALS Is an Essential Gene Required for Tracheal Tube Morphogenesis and Apical Matrix Organization Genetics, April 1, 2009; 181(4): 1281 - 1290. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. Wegener-Feldbrugge and L. Sogaard-Andersen The Atypical Hybrid Histidine Protein Kinase RodK in Myxococcus xanthus: Spatial Proximity Supersedes Kinetic Preference in Phosphotransfer Reactions J. Bacteriol., March 15, 2009; 191(6): 1765 - 1776. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 B. C. Viertlboeck, R. Schmitt, M. A. Hanczaruk, R. P. M. A. Crooijmans, M. A. M. Groenen, and T. W. Gobel A Novel Activating Chicken IgY FcR Is Related to Leukocyte Receptor Complex (LRC) Genes but Is Located on a Chromosomal Region Distinct from the LRC and FcR Gene Clusters J. Immunol., February 1, 2009; 182(3): 1533 - 1540. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 L. de Lorenzo, F. Merchan, P. Laporte, R. Thompson, J. Clarke, C. Sousa, and M. Crespi A Novel Plant Leucine-Rich Repeat Receptor Kinase Regulates the Response of Medicago truncatula Roots to Salt Stress PLANT CELL, February 1, 2009; 21(2): 668 - 680. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. T. Elliott, I. B. Zhulin, J. A. Stuckey, and V. J. DiRita Conserved Residues in the HAMP Domain Define a New Family of Proposed Bipartite Energy Taxis Receptors J. Bacteriol., January 1, 2009; 191(1): 375 - 387. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. P. Davis, C. G. Murphy, C. A. Saraceni-Richards, M. C. Rosenstein, T. C. Wiegers, and C. J. Mattingly Comparative Toxicogenomics Database: a knowledgebase and discovery tool for chemical-gene-disease networks Nucleic Acids Res., January 1, 2009; 37(suppl_1): D786 - D792. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
W. Klimke, R. Agarwala, A. Badretdin, S. Chetvernin, S. Ciufo, B. Fedorov, B. Kiryutin, K. O'Neill, W. Resch, S. Resenchuk, et al. The National Center for Biotechnology Information's Protein Clusters Database Nucleic Acids Res., January 1, 2009; 37(suppl_1): D216 - D223. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Ahmad, F.-M. Boisvert, P. Gregor, A. Cobley, and A. I. Lamond NOPdb: Nucleolar Proteome Database--2008 update Nucleic Acids Res., January 1, 2009; 37(suppl_1): D181 - D184. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. K. Ramalingam, C. Hunke, X. Gao, G. Gruber, and P. R. Preiser ATP/ADP Binding to a Novel Nucleotide Binding Domain of the Reticulocyte-binding Protein Py235 of Plasmodium yoelii J. Biol. Chem., December 26, 2008; 283(52): 36386 - 36396. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. Shi, J. B. Franklin, J. T. Yelinek, I. Ebersberger, G. Warren, and C. Y. He Centrin4 coordinates cell and nuclear division in T. brucei J. Cell Sci., September 15, 2008; 121(18): 3062 - 3070. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 G. S. Chang, Y. Hong, K. D. Ko, G. Bhardwaj, E. C. Holmes, R. L. Patterson, and D. B. van Rossum Phylogenetic profiles reveal evolutionary relationships within the "twilight zone" of sequence similarity PNAS, September 9, 2008; 105(36): 13474 - 13479. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 E. M. Pasini, M. Kirkegaard, D. Salerno, P. Mortensen, M. Mann, and A. W. Thomas Deep Coverage Mouse Red Blood Cell Proteome: A First Comparison with the Human Red Blood Cell Mol. Cell. Proteomics, July 1, 2008; 7(7): 1317 - 1330. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. Huang, S. Yuan, L. Guo, Y. Yu, J. Li, T. Wu, T. Liu, M. Yang, K. Wu, H. Liu, et al. Genomic analysis of the immune gene repertoire of amphioxus reveals extraordinary innate complexity and diversity Genome Res., July 1, 2008; 18(7): 1112 - 1126. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 X. Cai Unicellular Ca2+ Signaling 'Toolkit' at the Origin of Metazoa Mol. Biol. Evol., July 1, 2008; 25(7): 1357 - 1361. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 G. E. Tusnady, L. Kalmar, H. Hegyi, P. Tompa, and I. Simon TOPDOM: database of domains and motifs with conservative location in transmembrane proteins Bioinformatics, June 15, 2008; 24(12): 1469 - 1470. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
H. Yang, J. J. Pesavento, T. W. Starnes, D. E. Cryderman, L. L. Wallrath, N. L. Kelleher, and C. A. Mizzen Preferential Dimethylation of Histone H4 Lysine 20 by Suv4-20 J. Biol. Chem., May 2, 2008; 283(18): 12085 - 12092. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. R. Dyson, R. L. Perera, S. P. Shadbolt, L. Biderman, K. Bromek, N. V. Murzina, and J. McCafferty Identification of soluble protein fragments by gene fragmentation and genetic selection Nucleic Acids Res., May 1, 2008; 36(9): e51 - e51. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 V. Sherwood, R. Manbodh, C. Sheppard, and A. D. Chalmers RASSF7 Is a Member of a New Family of RAS Association Domain-containing Proteins and Is Required for Completing Mitosis Mol. Biol. Cell, April 1, 2008; 19(4): 1772 - 1782. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. Vuong, D. Bennion, J. Mantei, D. Frost, and R. Misra Analysis of YfgL and YaeT Interactions through Bioinformatics, Mutagenesis, and Biochemistry J. Bacteriol., March 1, 2008; 190(5): 1507 - 1517. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 T. S. McClintock, C. E. Glasser, S. C. Bose, and D. A. Bergman Tissue expression patterns identify mouse cilia genes Physiol Genomics, January 17, 2008; 32(2): 198 - 206. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
L. J. Jensen, P. Julien, M. Kuhn, C. von Mering, J. Muller, T. Doerks, and P. Bork eggNOG: automated construction and annotation of orthologous groups of genes Nucleic Acids Res., January 11, 2008; 36(suppl_1): D250 - D254. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. Das, E. Scappini, N. P. Martin, K. A. Wong, S. Dunn, Y.-J. Chen, S. L. H. Miller, J. Domin, and J. P. O'Bryan Regulation of Neuron Survival through an Intersectin-Phosphoinositide 3'-Kinase C2{beta}-AKT Pathway Mol. Cell. Biol., November 15, 2007; 27(22): 7906 - 7917. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. F. Huesgen, P. Scholz, and I. Adamska The Serine Protease HhoA from Synechocystis sp. Strain PCC 6803: Substrate Specificity and Formation of a Hexameric Complex Are Regulated by the PDZ Domain J. Bacteriol., September 15, 2007; 189(18): 6611 - 6618. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. A. Moran, R. Belas, M. A. Schell, J. M. Gonzalez, F. Sun, S. Sun, B. J. Binder, J. Edmonds, W. Ye, B. Orcutt, et al. Ecological Genomics of Marine Roseobacters Appl. Envir. Microbiol., July 15, 2007; 73(14): 4559 - 4569. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
F. Beaussart, J. Weiner 3rd, and E. Bornberg-Bauer Automated Improvement of Domain ANnotations using context analysis of domain arrangements (AIDAN) Bioinformatics, July 15, 2007; 23(14): 1834 - 1836. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
O. Duron, A. Boureux, P. Echaubard, A. Berthomieu, C. Berticat, P. Fort, and M. Weill Variability and Expression of Ankyrin Domain Genes in Wolbachia Variants Infecting the Mosquito Culex pipiens J. Bacteriol., June 15, 2007; 189(12): 4442 - 4448. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. E. Gewehr, V. Hintermair, and R. Zimmer AutoSCOP: automated prediction of SCOP classifications using unique pattern-class mappings Bioinformatics, May 15, 2007; 23(10): 1203 - 1210. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Z. Yu, P.-A. Genest, B. ter Riet, K. Sweeney, C. DiPaolo, R. Kieft, E. Christodoulou, A. Perrakis, J. M. Simmons, R. P. Hausinger, et al. The protein that binds to DNA base J in trypanosomatids has features of a thymidine hydroxylase Nucleic Acids Res., April 1, 2007; 35(7): 2107 - 2115. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. Bateman and R. D. Finn SCOOP: a simple method for identification of novel protein superfamily relationships Bioinformatics, April 1, 2007; 23(7): 809 - 814. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. Schult, K. Meierhoff, S. Paradies, T. Toller, P. Wolff, and P. Westhoff The Nuclear-Encoded Factor HCF173 Is Involved in the Initiation of Translation of the psbA mRNA in Arabidopsis thaliana PLANT CELL, April 1, 2007; 19(4): 1329 - 1346. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
E. Harsay and R. Schekman Avl9p, a Member of a Novel Protein Superfamily, Functions in the Late Secretory Pathway Mol. Biol. Cell, April 1, 2007; 18(4): 1203 - 1219. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 C. Andriamampandry, O. Taleb, V. Kemmel, J.-P. Humbert, D. Aunis, and M. Maitre Cloning and functional characterization of a gamma-hydroxybutyrate receptor identified in the human brain FASEB J, March 1, 2007; 21(3): 885 - 895. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. A. Casas-Mollano, K. van Dijk, J. Eisenhart, and H. Cerutti SET3p monomethylates histone H3 on lysine 9 and is required for the silencing of tandemly repeated transgenes in Chlamydomonas Nucleic Acids Res., February 16, 2007; 35(3): 939 - 950. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
T. Friedrich, B. Pils, T. Dandekar, J. Schultz, and T. Muller Modelling interaction sites in protein domains with interaction profile hidden Markov models Bioinformatics, December 1, 2006; 22(23): 2851 - 2857. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 T. Gabaldon Computational approaches for the prediction of protein function in the mitochondrion Am J Physiol Cell Physiol, December 1, 2006; 291(6): C1121 - C1128. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
G. Jones and P. Dyson Evolution of Transmembrane Protein Kinases Implicated in Coordinating Remodeling of Gram-Positive Peptidoglycan: Inside versus Outside J. Bacteriol., November 1, 2006; 188(21): 7470 - 7476. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
E. B. Rubin, Y. Shemesh, M. Cohen, S. Elgavish, H. M. Robertson, and G. Bloch Molecular and phylogenetic analyses reveal mammalian-like clockwork in the honey bee (Apis mellifera) and shed new light on the molecular evolution of the circadian clock Genome Res., November 1, 2006; 16(11): 1352 - 1365. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
W. Zhang, E. Walker, O. J. Tamplin, J. Rossant, W. L. Stanford, and T. R. Hughes Zfp206 regulates ES cell gene expression and differentiation Nucleic Acids Res., October 18, 2006; 34(17): 4780 - 4790. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. I. Montero, D. L. Lewis, M. R. Johnson, S. B. Conners, E. A. Nance, J. D. Nichols, and R. M. Kelly Colocation of Genes Encoding a tRNA-mRNA Hybrid and a Putative Signaling Peptide on Complementary Strands in the Genome of the Hyperthermophilic Bacterium Thermotoga maritima. J. Bacteriol., October 1, 2006; 188(19): 6802 - 6807. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. Stone, V. Abkevich, D. L. Russell, R. Riley, K. Timms, T. Tran, D. Trem, D. Frank, S. Jammulapati, C. D. Neff, et al. TBC1D1 is a candidate for a severe obesity gene and evidence for a gene/gene interaction in obesity predisposition Hum. Mol. Genet., September 15, 2006; 15(18): 2709 - 2720. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Huang, J. Kang, and M. J. Blaser Antimutator Role of the DNA Glycosylase mutY Gene in Helicobacter pylori. J. Bacteriol., September 1, 2006; 188(17): 6224 - 6234. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 I. Friedberg Automated protein function prediction--the genomic challenge Brief Bioinform, September 1, 2006; 7(3): 225 - 242. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. V. Lobanov, S. Gromer, G. Salinas, and V. N. Gladyshev Selenium metabolism in Trypanosoma: characterization of selenoproteomes and identification of a Kinetoplastida-specific selenoprotein Nucleic Acids Res., September 1, 2006; 34(14): 4012 - 4024. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. L. Stafford, M. Wilson, D. Nayak, S. M. Quiniou, L. W. Clem, N. W. Miller, and E. Bengten Identification and Characterization of a FcR Homolog in an Ectothermic Vertebrate, the Channel Catfish (Ictalurus punctatus) J. Immunol., August 15, 2006; 177(4): 2505 - 2517. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Hudson and H. Yasuo A signalling relay involving Nodal and Delta ligands acts during secondary notochord induction in Ciona embryos Development, August 1, 2006; 133(15): 2855 - 2864. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
X. Li, X. Duan, H. Jiang, Y. Sun, Y. Tang, Z. Yuan, J. Guo, W. Liang, L. Chen, J. Yin, et al. Genome-Wide Analysis of Basic/Helix-Loop-Helix Transcription Factor Family in Rice and Arabidopsis Plant Physiology, August 1, 2006; 141(4): 1167 - 1184. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. Bryson, V. Loux, R. Bossy, P. Nicolas, S. Chaillou, M. van de Guchte, S. Penaud, E. Maguin, M. Hoebeke, P. Bessieres, et al. AGMIAL: implementing an annotation strategy for prokaryote genomes as a distributed system Nucleic Acids Res., July 19, 2006; 34(12): 3533 - 3545. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 W. S. Hlavacek, J. R. Faeder, M. L. Blinov, R. G. Posner, M. Hucka, and W. Fontana Rules for Modeling Signal-Transduction Systems Sci. Signal., July 18, 2006; 2006(344): re6 - re6. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. de la Fuente van Bentem, D. Anrather, E. Roitinger, A. Djamei, T. Hufnagl, A. Barta, E. Csaszar, I. Dohnal, D. Lecourieux, and H. Hirt Phosphoproteomics reveals extensive in vivo phosphorylation of Arabidopsis proteins involved in RNA metabolism Nucleic Acids Res., July 17, 2006; 34(11): 3267 - 3278. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 T. J. G. Ettema, A. B. Brinkman, P. P. Lamers, N. G. Kornet, W. M. de Vos, and J. van der Oost Molecular characterization of a conserved archaeal copper resistance (cop) gene cluster and its copper-responsive regulator in Sulfolobus solfataricus P2 Microbiology, July 1, 2006; 152(7): 1969 - 1979. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. K. Davis, M. Hildebrand, and B. Palenik Gene Expression Induced by Copper Stress in the Diatom Thalassiosira pseudonana. Eukaryot. Cell, July 1, 2006; 5(7): 1157 - 1168. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
V. Neduva and R. B. Russell DILIMOT: discovery of linear motifs in proteins. Nucleic Acids Res., July 1, 2006; 34(Web Server issue): W350 - W355. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
X. Sun, T. Morozova, and M. Sonnenfeld Glial and Neuronal Functions of the Drosophila Homolog of the Human SWI/SNF Gene ATR-X (DATR-X) and the jing Zinc-Finger Gene Specify the Lateral Positioning of Longitudinal Glia and Axons Genetics, July 1, 2006; 173(3): 1397 - 1415. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
H. Feng, M. Ren, S.-L. Wu, D. H. Hall, and C. S. Rubin Characterization of a Novel Protein Kinase D: CAENORHABDITIS ELEGANS DKF-1 IS ACTIVATED BY TRANSLOCATION-PHOSPHORYLATION AND REGULATES MOVEMENT AND GROWTH IN VIVO J. Biol. Chem., June 30, 2006; 281(26): 17801 - 17814. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Pasek, J.-L. Risler, and P. Brezellec Gene fusion/fission is a major contributor to evolution of multi-domain bacterial proteins Bioinformatics, June 15, 2006; 22(12): 1418 - 1423. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. R. Gaillard, L. A. Fox, J. M. Rhea, B. Craige, and W. S. Sale Disruption of the A-Kinase Anchoring Domain in Flagellar Radial Spoke Protein 3 Results in Unregulated Axonemal cAMP-dependent Protein Kinase Activity and Abnormal Flagellar Motility Mol. Biol. Cell, June 1, 2006; 17(6): 2626 - 2635. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
G. J. Velicer, G. Raddatz, H. Keller, S. Deiss, C. Lanz, I. Dinkelacker, and S. C. Schuster Comprehensive mutation identification in an evolved bacterial cooperator and its cheating ancestor PNAS, May 23, 2006; 103(21): 8107 - 8112. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
H. Luz and M. Vingron Family specific rates of protein evolution Bioinformatics, May 15, 2006; 22(10): 1166 - 1171. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. D. P. Rabin, J. L. Veesenmeyer, K. T. Bieging, and A. R. Hauser A C-Terminal Domain Targets the Pseudomonas aeruginosa Cytotoxin ExoU to the Plasma Membrane of Host Cells. Infect. Immun., May 1, 2006; 74(5): 2552 - 2561. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. E. Kelly, H. Kranitz, V. Dotsch, and R. D. Mullins Actin Binding to the Central Domain of WASP/Scar Proteins Plays a Critical Role in the Activation of the Arp2/3 Complex J. Biol. Chem., April 14, 2006; 281(15): 10589 - 10597. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. Stepanyan, K. Day, J. Urban, D. L. Hardin, R. S. Shetty, C. D. Derby, B. W. Ache, and T. S. McClintock Gene expression and specificity in the mature zone of the lobster olfactory organ. Physiol Genomics, April 13, 2006; 25(2): 224 - 233. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C.-W. Yang, R. Gonzalez-Lamothe, R. A. Ewan, O. Rowland, H. Yoshioka, M. Shenton, H. Ye, E. O'Donnell, J. D.G. Jones, and A. Sadanandom The E3 Ubiquitin Ligase Activity of Arabidopsis PLANT U-BOX17 and Its Functional Tobacco Homolog ACRE276 Are Required for Cell Death and Defense PLANT CELL, April 1, 2006; 18(4): 1084 - 1098. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. Gonzalez-Lamothe, D. I. Tsitsigiannis, A. A. Ludwig, M. Panicot, K. Shirasu, and J. D.G. Jones The U-Box Protein CMPG1 Is Required for Efficient Activation of Defense Mechanisms Triggered by Multiple Resistance Genes in Tobacco and Tomato PLANT CELL, April 1, 2006; 18(4): 1067 - 1083. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. Mukherjee and T. R. Burglin MEKHLA, a Novel Domain with Similarity to PAS Domains, Is Fused to Plant Homeodomain-Leucine Zipper III Proteins. Plant Physiology, April 1, 2006; 140(4): 1142 - 1150. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B. Wickstead and K. Gull A "Holistic" Kinesin Phylogeny Reveals New Kinesin Families and Predicts Protein Functions Mol. Biol. Cell, April 1, 2006; 17(4): 1734 - 1743. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. M. Short and T. C. Cox Subclassification of the RBCC/TRIM Superfamily Reveals a Novel Motif Necessary for Microtubule Binding J. Biol. Chem., March 31, 2006; 281(13): 8970 - 8980. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
F. Turlure, G. Maertens, S. Rahman, P. Cherepanov, and A. Engelman A tripartite DNA-binding element, comprised of the nuclear localization signal and two AT-hook motifs, mediates the association of LEDGF/p75 with chromatin in vivo Nucleic Acids Res., March 20, 2006; 34(5): 1653 - 1665. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. D. Fugmann, C. Messier, L. A. Novack, R. A. Cameron, and J. P. Rast An ancient evolutionary origin of the Rag1/2 gene locus PNAS, March 7, 2006; 103(10): 3728 - 3733. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Kieffer, Y. Stern, H. Cook, E. Clerici, C. Maulbetsch, T. Laux, and B. Davies Analysis of the Transcription Factor WUSCHEL and Its Functional Homologue in Antirrhinum Reveals a Potential Mechanism for Their Roles in Meristem Maintenance PLANT CELL, March 1, 2006; 18(3): 560 - 573. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
H. Friesen, C. Humphries, Y. Ho, O. Schub, K. Colwill, and B. Andrews Characterization of the Yeast Amphiphysins Rvs161p and Rvs167p Reveals Roles for the Rvs Heterodimer In Vivo Mol. Biol. Cell, March 1, 2006; 17(3): 1306 - 1321. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. J. Wijeratne, C. Chen, W. Zhang, L. Timofejeva, and H. Ma The Arabidopsis thaliana PARTING DANCERS Gene Encoding a Novel Protein Is Required for Normal Meiotic Homologous Recombination Mol. Biol. Cell, March 1, 2006; 17(3): 1331 - 1343. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. N. de Jong, E. AB, T. Diercks, V. Truffault, M. Daniels, R. Kaptein, and G. E. Folkers Solution Structure of the Human Ubiquitin-specific Protease 15 DUSP Domain J. Biol. Chem., February 24, 2006; 281(8): 5026 - 5031. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
W. Hao, T. Takano, J. Guillemette, J. Papillon, G. Ren, and A. V. Cybulsky Induction of Apoptosis by the Ste20-like Kinase SLK, a Germinal Center Kinase That Activates Apoptosis Signal-regulating Kinase and p38 J. Biol. Chem., February 10, 2006; 281(6): 3075 - 3084. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B. Titz, S. Thomas, S. V. Rajagopala, T. Chiba, T. Ito, and P. Uetz Transcriptional activators in yeast Nucleic Acids Res., February 7, 2006; 34(3): 955 - 967. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 F. Vinagre, C. Vargas, K. Schwarcz, J. Cavalcante, E. M. Nogueira, J. I. Baldani, P. C. G. Ferreira, and A. S. Hemerly SHR5: a novel plant receptor kinase involved in plant-N2-fixing endophytic bacteria association J. Exp. Bot., February 1, 2006; 57(3): 559 - 569. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. Mazouni, G. Pehau-Arnaudet, P. England, P. Bourhy, I. Saint Girons, and M. Picardeau The Scc Spirochetal Coiled-Coil Protein Forms Helix-Like Filaments and Binds to Nucleic Acids Generating Nucleoprotein Structures J. Bacteriol., January 15, 2006; 188(2): 469 - 476. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Boekhorst, Q. Helmer, M. Kleerebezem, and R. J. Siezen Comparative analysis of proteins with a mucus-binding domain found exclusively in lactic acid bacteria Microbiology, January 1, 2006; 152(1): 273 - 280. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Y. Galperin The Molecular Biology Database Collection: 2006 update. Nucleic Acids Res., January 1, 2006; 34(Database issue): D3 - D5. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
N. L. Barbosa-Morais, M. Carmo-Fonseca, and S. Aparicio Systematic genome-wide annotation of spliceosomal proteins reveals differential gene family expansion Genome Res., January 1, 2006; 16(1): 66 - 77. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
V. Matys, O. V. Kel-Margoulis, E. Fricke, I. Liebich, S. Land, A. Barre-Dirrie, I. Reuter, D. Chekmenev, M. Krull, K. Hornischer, et al. TRANSFAC(R) and its module TRANSCompel(R): transcriptional gene regulation in eukaryotes Nucleic Acids Res., January 1, 2006; 34(suppl_1): D108 - D110. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. L. Wheeler, T. Barrett, D. A. Benson, S. H. Bryant, K. Canese, V. Chetvernin, D. M. Church, M. DiCuccio, R. Edgar, S. Federhen, et al. Database resources of the National Center for Biotechnology Information Nucleic Acids Res., January 1, 2006; 34(suppl_1): D173 - D180. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. K. L. Leung, L. Trinkle-Mulcahy, Y. W. Lam, J. S. Andersen, M. Mann, and A. I. Lamond NOPdb: Nucleolar Proteome Database Nucleic Acids Res., January 1, 2006; 34(suppl_1): D218 - D220. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. D. Finn, J. Mistry, B. Schuster-Bockler, S. Griffiths-Jones, V. Hollich, T. Lassmann, S. Moxon, M. Marshall, A. Khanna, R. Durbin, et al. Pfam: clans, web tools and services Nucleic Acids Res., January 1, 2006; 34(suppl_1): D247 - D251. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
I. Letunic, R. R. Copley, B. Pils, S. Pinkert, J. Schultz, and P. Bork SMART 5: domains in the context of genomes and networks Nucleic Acids Res., January 1, 2006; 34(suppl_1): D257 - D260. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Yeats, M. Maibaum, R. Marsden, M. Dibley, D. Lee, S. Addou, and C. A. Orengo Gene3D: modelling protein structure, function and evolution Nucleic Acids Res., January 1, 2006; 34(suppl_1): D281 - D284. [Abstract] [Full Text] [PDF]
|
|