GPCRDB : information system for G protein-coupled receptors

The GPCRDB is a Molecular Class-Specific Information System (MCSIS) that collects, combines, validates and disseminates large amounts of heterogeneous data on G proteincoupled receptors (GPCRs). The GPCRDB contains experimental data on sequences, ligand-binding constants, mutations and oligomers, as well as many different types of computationally derived data such as multiple sequence alignments and homology models. The GPCRDB provides access to the data via a number of different access methods. It offers visualization and analysis tools, and a number of query systems. The data is updated automatically on a monthly basis. The GPCRDB can be found online at http://www.gpcr

[1]  David E. Gloriam,et al.  GPCRDB: an information system for G protein-coupled receptors , 2013, Nucleic Acids Res..

[2]  Steve Pettifer,et al.  Utopia documents: linking scholarly literature with research data , 2010, Bioinform..

[3]  Gert Vriend,et al.  3DM: Systematic analysis of heterogeneous superfamily data to discover protein functionalities , 2010, Proteins.

[4]  George Khelashvili,et al.  GPCR-OKB: the G Protein Coupled Receptor Oligomer Knowledge Base , 2010, Bioinform..

[5]  Carole A. Goble,et al.  myExperiment: a repository and social network for the sharing of bioinformatics workflows , 2010, Nucleic Acids Res..

[6]  M. Lohse.  Dimerization in GPCR mobility and signaling. , 2010, Current opinion in pharmacology.

[7]  Catherine Brooksbank,et al.  The European Bioinformatics Institute’s data resources , 2009, Nucleic Acids Res..

[8]  Susumu Goto,et al.  KEGG for representation and analysis of molecular networks involving diseases and drugs , 2009, Nucleic Acids Res..

[9]  Baris E. Suzek,et al.  The Universal Protein Resource (UniProt) in 2010 , 2009, Nucleic Acids Res..

[10]  Graeme Milligan,et al.  G protein‐coupled receptor hetero‐dimerization: contribution to pharmacology and function , 2009, British journal of pharmacology.

[11]  Vanessa T. Schroder,et al.  In brief , 2009, Nature Reviews Neurology.

[12]  D. Gloriam,et al.  Definition of the G protein-coupled receptor transmembrane bundle binding pocket and calculation of receptor similarities for drug design. , 2009, Journal of medicinal chemistry.

[13]  Vincent Breton,et al.  PDB_REDO: automated re-refinement of X-ray structure models in the PDB , 2009, Journal of applied crystallography.

[14]  Janet M Thornton,et al.  Annotations for all by all - the BioSapiens network , 2009, Genome Biology.

[15]  Geoffrey J. Barton,et al.  Jalview Version 2—a multiple sequence alignment editor and analysis workbench , 2009, Bioinform..

[16]  Martin Jones,et al.  IUPHAR-DB: the IUPHAR database of G protein-coupled receptors and ion channels , 2008, Nucleic Acids Res..

[17]  Alexander García Castro,et al.  Dasty2, an Ajax protein DAS client , 2008, Bioinform..

[18]  Satoshi Niijima,et al.  GLIDA: GPCR—ligand database for chemical genomics drug discovery—database and tools update , 2007, Nucleic Acids Res..

[19]  Michael L. Creech,et al.  Integration of biological networks and gene expression data using Cytoscape , 2007, Nature Protocols.

[20]  John P. Overington,et al.  How many drug targets are there? , 2006, Nature Reviews Drug Discovery.

[21]  Michael R. Braden,et al.  Molecular Interaction of Serotonin 5-HT2A Receptor Residues Phe339(6.51) and Phe340(6.52) with Superpotent N-Benzyl Phenethylamine Agonists , 2006, Molecular Pharmacology.

[22]  Carole A. Goble,et al.  Taverna: a tool for building and running workflows of services , 2006, Nucleic Acids Res..

[23]  Kai Ye,et al.  A two‐entropies analysis to identify functional positions in the transmembrane region of class A G protein‐coupled receptors , 2006, Proteins.

[24]  Gert Vriend,et al.  MRS: a fast and compact retrieval system for biological data , 2005, Nucleic Acids Res..

[25]  Evelyn Camon,et al.  The EMBL Nucleotide Sequence Database , 2000, Nucleic Acids Res..

[26]  Emmanuel Bettler,et al.  A family-based approach reveals the function of residues in the nuclear receptor ligand-binding domain. , 2004, Journal of molecular biology.

[27]  Fred E. Cohen,et al.  Automated extraction of mutation data from the literature: application of MuteXt to G protein-coupled receptors and nuclear hormone receptors , 2004, Bioinform..

[28]  Laerte Oliveira,et al.  Sequence analysis reveals how G protein–coupled receptors transduce the signal to the G protein , 2003, Proteins.

[29]  Laerte Oliveira,et al.  Identification of functionally conserved residues with the use of entropy–variability plots , 2003, Proteins.

[30]  M. Mortrud,et al.  The G protein-coupled receptor repertoires of human and mouse , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[31]  Gerhard Hessler,et al.  Drug Design Strategies for Targeting G‐Protein‐Coupled Receptors , 2002, Chembiochem : a European journal of chemical biology.

[32]  G Vriend,et al.  Correlated Mutation Analyses on Very Large Sequence Families , 2002, Chembiochem : a European journal of chemical biology.

[33]  Sean R. Eddy,et al.  The Distributed Annotation System , 2001, BMC Bioinformatics.

[34]  Lakshmi A Devi,et al.  Dimerization of G-Protein Coupled Receptors , 2000, Neuropsychopharmacology.

[35]  G Vriend,et al.  A common step for signal transduction in G protein-coupled receptors. , 1994, Trends in pharmacological sciences.

[36]  Gert Vriend,et al.  A common motif in G-protein-coupled seven transmembrane helix receptors , 1993, J. Comput. Aided Mol. Des..

[37]  G Vriend,et al.  WHAT IF: a molecular modeling and drug design program. , 1990, Journal of molecular graphics.

[38]  Keehyoung Joo,et al.  Improving physical realism, stereochemistry, and side‐chain accuracy in homology modeling: Four approaches that performed well in CASP8 , 2009, Proteins.

[39]  Øyvind Edvardsen,et al.  tGRAP, the G-protein coupled receptors mutant database , 2002, Nucleic Acids Res..

[40]  T. N. Bhat,et al.  The Protein Data Bank , 2000, Nucleic Acids Res..

[41]  M. Bouvier,et al.  Structural and functional aspects of G protein-coupled receptor oligomerization. , 1998, Biochemistry and cell biology = Biochimie et biologie cellulaire.