Literature DB >> 20501551

GPCR-OKB: the G Protein Coupled Receptor Oligomer Knowledge Base.

George Khelashvili1, Kevin Dorff, Jufang Shan, Marta Camacho-Artacho, Lucy Skrabanek, Bas Vroling, Michel Bouvier, Lakshmi A Devi, Susan R George, Jonathan A Javitch, Martin J Lohse, Graeme Milligan, Richard R Neubig, Krzysztof Palczewski, Marc Parmentier, Jean-Philippe Pin, Gerrit Vriend, Fabien Campagne, Marta Filizola.   

Abstract

SUMMARY: Rapid expansion of available data about G Protein Coupled Receptor (GPCR) dimers/oligomers over the past few years requires an effective system to organize this information electronically. Based on an ontology derived from a community dialog involving colleagues using experimental and computational methodologies, we developed the GPCR-Oligomerization Knowledge Base (GPCR-OKB). GPCR-OKB is a system that supports browsing and searching for GPCR oligomer data. Such data were manually derived from the literature. While focused on GPCR oligomers, GPCR-OKB is seamlessly connected to GPCRDB, facilitating the correlation of information about GPCR protomers and oligomers.
AVAILABILITY AND IMPLEMENTATION: The GPCR-OKB web application is freely available at http://www.gpcr-okb.org

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Year:  2010        PMID： 20501551      PMCID： PMC2894509          DOI： 10.1093/bioinformatics/btq264

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  10 in total

1.  GPCRDB information system for G protein-coupled receptors.

Authors:  Florence Horn; Emmanuel Bettler; Laerte Oliveira; Fabien Campagne; Fred E Cohen; Gerrit Vriend
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

Review 2.  The druggable genome.

Authors:  Andrew L Hopkins; Colin R Groom
Journal:  Nat Rev Drug Discov       Date:  2002-09       Impact factor: 84.694

Review 3.  Methods to monitor the quaternary structure of G protein-coupled receptors.

Authors:  Graeme Milligan; Michel Bouvier
Journal:  FEBS J       Date:  2005-06       Impact factor: 5.542

4.  gpDB: a database of GPCRs, G-proteins, effectors and their interactions.

Authors:  Margarita C Theodoropoulou; Pantelis G Bagos; Ioannis C Spyropoulos; Stavros J Hamodrakas
Journal:  Bioinformatics       Date:  2008-04-25       Impact factor: 6.937

5.  GRIP: a server for predicting interfaces for GPCR oligomerization.

Authors:  Wataru Nemoto; Kazuhiko Fukui; Hiroyuki Toh
Journal:  J Recept Signal Transduct Res       Date:  2009-12       Impact factor: 2.092

Review 6.  Bioinformatics and molecular modelling approaches to GPCR oligomerization.

Authors:  Lisa M Simpson; Bruck Taddese; Ian D Wall; Christopher A Reynolds
Journal:  Curr Opin Pharmacol       Date:  2009-12-16       Impact factor: 5.547

Review 7.  Physiological relevance of GPCR oligomerization and its impact on drug discovery.

Authors:  Rosemarie Panetta; Michael T Greenwood
Journal:  Drug Discov Today       Date:  2008-10-14       Impact factor: 7.851

Review 8.  International Union of Basic and Clinical Pharmacology. LXVII. Recommendations for the recognition and nomenclature of G protein-coupled receptor heteromultimers.

Authors:  Jean-Philippe Pin; Richard Neubig; Michel Bouvier; Lakshmi Devi; Marta Filizola; Jonathan A Javitch; Martin J Lohse; Graeme Milligan; Krzysztof Palczewski; Marc Parmentier; Michael Spedding
Journal:  Pharmacol Rev       Date:  2007-03       Impact factor: 25.468

9.  Building a new conceptual framework for receptor heteromers.

Authors:  Sergi Ferré; Ruben Baler; Michel Bouvier; Marc G Caron; Lakshmi A Devi; Thierry Durroux; Kjell Fuxe; Susan R George; Jonathan A Javitch; Martin J Lohse; Ken Mackie; Graeme Milligan; Kevin D G Pfleger; Jean-Philippe Pin; Nora D Volkow; Maria Waldhoer; Amina S Woods; Rafael Franco
Journal:  Nat Chem Biol       Date:  2009-03       Impact factor: 15.040

10.  Requirements and ontology for a G protein-coupled receptor oligomerization knowledge base.

Authors:  Lucy Skrabanek; Marta Murcia; Michel Bouvier; Lakshmi Devi; Susan R George; Martin J Lohse; Graeme Milligan; Richard Neubig; Krzysztof Palczewski; Marc Parmentier; Jean-Philippe Pin; Gerrit Vriend; Jonathan A Javitch; Fabien Campagne; Marta Filizola
Journal:  BMC Bioinformatics       Date:  2007-05-30       Impact factor: 3.169
  10 in total
  29 in total

1.  The Pseudo signal peptide of the corticotropin-releasing factor receptor type 2A prevents receptor oligomerization.

Authors:  Anke Teichmann; Claudia Rutz; Annika Kreuchwig; Gerd Krause; Burkhard Wiesner; Ralf Schülein
Journal:  J Biol Chem       Date:  2012-06-11       Impact factor: 5.157

Review 2.  Allostery at G protein-coupled receptor homo- and heteromers: uncharted pharmacological landscapes.

Authors:  Nicola J Smith; Graeme Milligan
Journal:  Pharmacol Rev       Date:  2010-12       Impact factor: 25.468

3.  GPCRRD: G protein-coupled receptor spatial restraint database for 3D structure modeling and function annotation.

Authors:  Jian Zhang; Yang Zhang
Journal:  Bioinformatics       Date:  2010-10-05       Impact factor: 6.937

4.  A G Protein-Coupled Receptor Dimerization Interface in Human Cone Opsins.

Authors:  Beata Jastrzebska; William D Comar; Megan J Kaliszewski; Kevin C Skinner; Morgan H Torcasio; Anthony S Esway; Hui Jin; Krzysztof Palczewski; Adam W Smith
Journal:  Biochemistry       Date:  2016-11-29       Impact factor: 3.162

Review 5.  G protein-coupled receptors: walking hand-in-hand, talking hand-in-hand?

Authors:  Henry F Vischer; Anne O Watts; Saskia Nijmeijer; Rob Leurs
Journal:  Br J Pharmacol       Date:  2011-05       Impact factor: 8.739

6.  GLASS: a comprehensive database for experimentally validated GPCR-ligand associations.

Authors:  Wallace K B Chan; Hongjiu Zhang; Jianyi Yang; Jeffrey R Brender; Junguk Hur; Arzucan Özgür; Yang Zhang
Journal:  Bioinformatics       Date:  2015-05-13       Impact factor: 6.937

Review 7.  Structure-function of the G protein-coupled receptor superfamily.

Authors:  Vsevolod Katritch; Vadim Cherezov; Raymond C Stevens
Journal:  Annu Rev Pharmacol Toxicol       Date:  2012-11-08       Impact factor: 13.820

8.  Glucagon-like peptide-1 receptor dimerization differentially regulates agonist signaling but does not affect small molecule allostery.

Authors:  Kaleeckal G Harikumar; Denise Wootten; Delia I Pinon; Cassandra Koole; Alicja M Ball; Sebastian G B Furness; Bim Graham; Maoqing Dong; Arthur Christopoulos; Laurence J Miller; Patrick M Sexton
Journal:  Proc Natl Acad Sci U S A       Date:  2012-10-22       Impact factor: 11.205

9.  The rhodopsin-transducin complex houses two distinct rhodopsin molecules.

Authors:  Beata Jastrzebska; Philippe Ringler; Krzysztof Palczewski; Andreas Engel
Journal:  J Struct Biol       Date:  2013-02-28       Impact factor: 2.867

10.  Glutamate acts as a partial inverse agonist to metabotropic glutamate receptor with a single amino acid mutation in the transmembrane domain.

Authors:  Masataka Yanagawa; Takahiro Yamashita; Yoshinori Shichida
Journal:  J Biol Chem       Date:  2013-02-18       Impact factor: 5.157
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