The ProDom database of protein domain families: more emphasis on 3D

Keywords

Biology, Structural genomics, Protein domain, Inference, Visualization

References

• Automated annotation of microbial proteomes in SWISS-PROTAlexandre Gattiker, Karine Michoud, Catherine Rivoire — 2003
• ProDom and ProDom-CG: tools for protein domain analysis and whole genome comparisonsF. Corpet — 2000
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• SWISS-MODEL: an automated protein homology-modeling serverTorsten Schwede — 2003
• ProDom: Automated Clustering of Homologous DomainsFlorence Servant — 2002
• Geno3D: automatic comparative molecular modelling of proteinChristophe Combet, Martin Jambon, Gilbert Deléage — 2002
• The InterPro Database, 2003 brings increased coverage and new featuresNicola Mulder — 2003
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• SCOP database in 2004: refinements integrate structure and sequence family dataAntonina Andreeva — 2004
• Recent improvements to the PROSITE databaseNicolas Hulo — 2004
• The ASTRAL Compendium in 2004John‐Marc Chandonia — 2003
• Whole Genome Protein Domain Analysis using a New Method for Domain ClusteringJérôme Gouzy, F. Corpet, Daniel Kahn — 1999
• SMART 4.0: towards genomic data integrationIvica Letunić — 2004
• The Pfam protein families databaseROBERT FINN, Jaina Mistry, John Tate — 2007
• The PredictProtein serverBurkhard Rost — 2003

Cited by

• Detecting atypical examples of known domain types by sequence similarity searching: the SBASE domain library approach.孟紀 江本, 香織 江國, 章二 山藤 — 2010
• Computer aided selection of candidate vaccine antigensR. A. Zakhidov, A. A. Vainer — 2010
• In Silico Structural and Functional Annotation of Hypothetical Proteins of Vibrio cholerae O139成子 黒田 — 2015
• Evolution of protein domain architectures.Kristoffer Forslund, Erik L. L. Sonnhammer — 2012
• Selection of antigens for antibody-based proteomicsLisa Berglund — 2008
• Protein Interactions from the Molecular to the Domain LevelPatrik Björkholm — 2014
• Protein structure prediction based on sequence similarity.Lukasz Jaroszewski — 2009
• The relationship between orthology, protein domain architecture and protein functionSofia K. Forslund — 2011
• An Integrative In Silico Model of Hepatitis C Virus Non-structural 5a ProteinMahmoud El Hefnawi, Aliaa A. A. Youssif, Atef Z. Ghalwash — 2009
• L’évolution modulaire des protéines : un point de vue phylogénétiqueAnne-Sophie Sertier — 2011
• Exploring the function and evolution of proteins using domain familiesAdam J. Reid — 2009
• Knowledge-based Approaches for Modelling the 3D Structural Interactome. (Extraction de Connaissances pour la Modelisation tri-dimensionnelle de l'Interactome Structural)Anisah W. Ghoorah — 2012
• Development of methods for the automated annotation of prokaryotic proteomesAlexandre Gattiker — 2005
• Exploring the Plasmodium falciparum Transcriptome Using Hypergeometric Analysis of Time Series (HATS)Daniel Scanfeld — 2013
• Comparative transcriptome profiling approach to glean virulence and immunomodulation-related genes of Fasciola hepaticaOrçun Haçarız, Mete Akgün, Pınar Kavak — 2015
• XatA, an AT-1 autotransporter important for the virulence of Xylella fastidiosa Temecula1Ayumi Matsumoto, Sherry L. Huston, Nabil Killiny — 2012
• A genetic and functional analysis of novel chicken interleukin-1 gene family membersMark S. Gibson — 2012
• Prediction and integration of regulatory and protein-protein interactions.Duangdao Wichadakul, Jason McDermott, Ram Samudrala — 2009
• A Global Approach to Comparative Genomics: Comparison of Functional Annotation over the Taxonomic TreeAndreas Schlicker, Francisco S. Domingues, Thomas Lengauer — 2005
• Chapter 1. Target selection in structural genomics projects to increase knowledge of protein structure and function space.Phil Carter, David Lee, Christine Orengo — 2008

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