메뉴 건너뛰기




Volumn 21, Issue 22, 2005, Pages 4101-4106

Prediction of the coupling specificity of GPCRs to four families of G-proteins using hidden Markov models and artificial neural networks

Author keywords

[No Author keywords available]

Indexed keywords

G PROTEIN COUPLED RECEPTOR; GUANINE NUCLEOTIDE BINDING PROTEIN; INHIBITORY GUANINE NUCLEOTIDE BINDING PROTEIN; STIMULATORY GUANINE NUCLEOTIDE BINDING PROTEIN;

EID: 27944445874     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/bti679     Document Type: Article
Times cited : (43)

References (47)
  • 1
    • 34547863625 scopus 로고    scopus 로고
    • 7 TM receptors
    • Alexander,S.P. et al. (2005) 7 TM receptors. Br. J. Pharmacol., 144 (Suppl 1), S4-S62.
    • (2005) Br. J. Pharmacol. , vol.144 , Issue.SUPPL. 1
    • Alexander, S.P.1
  • 2
    • 0036463836 scopus 로고    scopus 로고
    • Adenylyl cyclase functions downstream of the Galpha protein Gpa1 and controls mating and pathogenicity of Cryptococcus neoformans
    • Alspaugh,J.A. et al. (2002) Adenylyl cyclase functions downstream of the Galpha protein Gpa1 and controls mating and pathogenicity of Cryptococcus neoformans. Eukaryot. Cell, 1, 75-84.
    • (2002) Eukaryot. Cell , vol.1 , pp. 75-84
    • Alspaugh, J.A.1
  • 3
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
    • Altschul,S.F. et al. (1997) Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
    • (1997) Nucleic Acids Res. , vol.25 , pp. 3389-3402
    • Altschul, S.F.1
  • 4
    • 0142245628 scopus 로고    scopus 로고
    • The G-protein-coupled receptor GCR1 regulates DNA synthesis through activation of phosphatidylinositol-specific phospholipase C
    • Apone,F. et al. (2003) The G-protein-coupled receptor GCR1 regulates DNA synthesis through activation of phosphatidylinositol-specific phospholipase C. Plant Physiol., 133, 571-579.
    • (2003) Plant Physiol. , vol.133 , pp. 571-579
    • Apone, F.1
  • 5
    • 4344702125 scopus 로고    scopus 로고
    • The selection and design of GPCR ligands: From concept to the clinic
    • Ashton,M. et al. (2004) The selection and design of GPCR ligands: From concept to the clinic. Comb. Chem. High Throughput Screen, 7, 441-452.
    • (2004) Comb. Chem. High Throughput Screen , vol.7 , pp. 441-452
    • Ashton, M.1
  • 6
    • 0036276885 scopus 로고    scopus 로고
    • Heterotrimeric and unconventional GTP binding proteins in plant cell signaling
    • Assmann,S.M. (2002) Heterotrimeric and unconventional GTP binding proteins in plant cell signaling. Plant Cell, 14 (Suppl), S355-S373.
    • (2002) Plant Cell , vol.14 , Issue.SUPPL.
    • Assmann, S.M.1
  • 7
    • 0031877016 scopus 로고    scopus 로고
    • Combining evidence using P-values: Application to sequence homology searches
    • Bailey,T.L. and Gribskov,M. (1998) Combining evidence using P-values: application to sequence homology searches. Bioinformatics, 14, 48-54.
    • (1998) Bioinformatics , vol.14 , pp. 48-54
    • Bailey, T.L.1    Gribskov, M.2
  • 8
    • 13444273448 scopus 로고    scopus 로고
    • The Universal Protein Resource (UniProt)
    • Bairoch,A. et al. (2005) The Universal Protein Resource (UniProt). Nucleic Acids Res., 33, D154-D159.
    • (2005) Nucleic Acids Res. , vol.33
    • Bairoch, A.1
  • 9
    • 9144257886 scopus 로고    scopus 로고
    • The Pfam protein families database
    • Bateman,A. et al. (2004) The Pfam protein families database. Nucleic Acids Res., 32, D138-D141.
    • (2004) Nucleic Acids Res. , vol.32
    • Bateman, A.1
  • 11
    • 0037316238 scopus 로고    scopus 로고
    • A naive Bayes model to predict coupling between seven transmembrane domain receptors and G-proteins
    • Cao,J. et al. (2003) A naive Bayes model to predict coupling between seven transmembrane domain receptors and G-proteins. Bioinformatics, 19, 234-240.
    • (2003) Bioinformatics , vol.19 , pp. 234-240
    • Cao, J.1
  • 12
    • 10744220558 scopus 로고    scopus 로고
    • Constitutive signaling of the human cytomegalovirus-encoded receptor UL33 differs from that of its rat cytomegalovirus homolog R33 by promiscuous activation of G proteins of the Gq, Gi, and Gs classes
    • Casarosa,P. et al. (2003) Constitutive signaling of the human cytomegalovirus-encoded receptor UL33 differs from that of its rat cytomegalovirus homolog R33 by promiscuous activation of G proteins of the Gq, Gi, and Gs classes. J. Biol. Chem., 278, 50010-50023.
    • (2003) J. Biol. Chem. , vol.278 , pp. 50010-50023
    • Casarosa, P.1
  • 13
    • 0030274647 scopus 로고    scopus 로고
    • Genomic sciences and the medicine of tomorrow
    • Drews,J. (1996) Genomic sciences and the medicine of tomorrow. Nat. Biotechnol., 14, 1516-1518.
    • (1996) Nat. Biotechnol. , vol.14 , pp. 1516-1518
    • Drews, J.1
  • 14
    • 0031743421 scopus 로고    scopus 로고
    • Profile hidden Markov models
    • Eddy,S.R. (1998) Profile hidden Markov models. Bioinformatics, 14, 755-763.
    • (1998) Bioinformatics , vol.14 , pp. 755-763
    • Eddy, S.R.1
  • 15
    • 0029259085 scopus 로고
    • Maximum discrimination hidden Markov models of sequence consensus
    • Eddy,S.R. et al. (1995) Maximum discrimination hidden Markov models of sequence consensus. J. Comput. Biol., 2, 9-23.
    • (1995) J. Comput. Biol. , vol.2 , pp. 9-23
    • Eddy, S.R.1
  • 16
    • 13244259307 scopus 로고    scopus 로고
    • A database for G proteins and their interaction with GPCRs
    • Elefsinioti,A.L. et al. (2004) A database for G proteins and their interaction with GPCRs. BMC Bioinformatics, 5, 208.
    • (2004) BMC Bioinformatics , vol.5 , pp. 208
    • Elefsinioti, A.L.1
  • 17
    • 0035800798 scopus 로고    scopus 로고
    • Single amino acid substitutions and deletions that alter the G protein coupling properties of the V2 vasopressin receptor identified in yeast by receptor random mutagenesis
    • Erlenbach,I. et al. (2001) Single amino acid substitutions and deletions that alter the G protein coupling properties of the V2 vasopressin receptor identified in yeast by receptor random mutagenesis. J. Biol. Chem., 276, 29382-29392.
    • (2001) J. Biol. Chem. , vol.276 , pp. 29382-29392
    • Erlenbach, I.1
  • 18
    • 9244254279 scopus 로고    scopus 로고
    • Integrative bioinformatics for functional genome annotation: Trawling for G protein-coupled receptors
    • Flower,D.R. and Attwood,T.K. (2004) Integrative bioinformatics for functional genome annotation: Trawling for G protein-coupled receptors. Semin. Cell. Dev. Biol., 15, 693-701.
    • (2004) Semin. Cell. Dev. Biol. , vol.15 , pp. 693-701
    • Flower, D.R.1    Attwood, T.K.2
  • 19
    • 17844400914 scopus 로고    scopus 로고
    • The repertoire of G-protein-coupled receptors in fully sequenced genomes
    • Fredriksson,R. and Schioth,H.B. (2005) The repertoire of G-protein-coupled receptors in fully sequenced genomes. Mol. Pharmacol., 67, 1414-1425.
    • (2005) Mol. Pharmacol. , vol.67 , pp. 1414-1425
    • Fredriksson, R.1    Schioth, H.B.2
  • 20
    • 0034464742 scopus 로고    scopus 로고
    • Uncovering molecular mechanisms involved in activation of G protein-coupled receptors
    • Gether,U. (2000) Uncovering molecular mechanisms involved in activation of G protein-coupled receptors. Endocr. Rev., 21, 90-113.
    • (2000) Endocr. Rev. , vol.21 , pp. 90-113
    • Gether, U.1
  • 22
    • 0038540318 scopus 로고    scopus 로고
    • Biochemical and pharmacological control of the multiplicity of coupling at G-protein-coupled receptors
    • Hermans,E. (2003) Biochemical and pharmacological control of the multiplicity of coupling at G-protein-coupled receptors. Pharmacol. Ther., 99, 25-44.
    • (2003) Pharmacol. Ther. , vol.99 , pp. 25-44
    • Hermans, E.1
  • 23
    • 0037020037 scopus 로고    scopus 로고
    • G protein-coupled receptors in Anopheles gambiae
    • Hill,C.A. et al. (2002) G protein-coupled receptors in Anopheles gambiae. Science, 298, 176-178.
    • (2002) Science , vol.298 , pp. 176-178
    • Hill, C.A.1
  • 24
    • 0034744918 scopus 로고    scopus 로고
    • Galpha(14) links a variety ofG(i)- and G(s)-coupled receptors to the stimulation of phospholipase C
    • Ho,M.K. et al. (2001) Galpha(14) links a variety ofG(i)- and G(s)-coupled receptors to the stimulation of phospholipase C. Br. J. Pharmacol., 132, 1431-1440.
    • (2001) Br. J. Pharmacol. , vol.132 , pp. 1431-1440
    • Ho, M.K.1
  • 25
    • 0037252680 scopus 로고    scopus 로고
    • GPCRDB information system for G protein-coupled receptors
    • Horn,F. et al. (2003) GPCRDB information system for G protein-coupled receptors. Nucleic Acids Res., 31, 294-297.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 294-297
    • Horn, F.1
  • 26
    • 0036779367 scopus 로고    scopus 로고
    • G-protein-coupled signaling in Arabidopsis
    • Jones,A.M. (2002) G-protein-coupled signaling in Arabidopsis. Curr. Opin. Plant. Biol., 5, 402-407.
    • (2002) Curr. Opin. Plant. Biol. , vol.5 , pp. 402-407
    • Jones, A.M.1
  • 27
    • 2942681717 scopus 로고    scopus 로고
    • Plants: The latest model system for G-protein research
    • Jones,A.M. and Assmann,S.M. (2004) Plants: The latest model system for G-protein research. EMBO Rep., 5, 572-578.
    • (2004) EMBO Rep. , vol.5 , pp. 572-578
    • Jones, A.M.1    Assmann, S.M.2
  • 28
    • 3042798261 scopus 로고    scopus 로고
    • Moleculair mechanisms of ligand binding, signaling, and regulation within the superfamily of G-protein-coupled receptors: Molecular modeling and mutagenesis approaches to receptor structure and function
    • Kristiansen,K. (2004) Moleculair mechanisms of ligand binding, signaling, and regulation within the superfamily of G-protein-coupled receptors: Molecular modeling and mutagenesis approaches to receptor structure and function. Pharmacol. Ther., 103, 21-80.
    • (2004) Pharmacol. Ther. , vol.103 , pp. 21-80
    • Kristiansen, K.1
  • 29
    • 27944509040 scopus 로고    scopus 로고
    • Novel G-protein-coupled receptor-like proteins in the plant pathogenic fungus Magnaporthe grisea
    • Kulkarni,R.D. et al. (2005) Novel G-protein-coupled receptor-like proteins in the plant pathogenic fungus Magnaporthe grisea. Genome Biol., 6, R24.
    • (2005) Genome Biol. , vol.6
    • Kulkarni, R.D.1
  • 30
    • 17444373873 scopus 로고    scopus 로고
    • Molecular cloning and characterization of a novel Gq-coupled orphan receptor GPRg1 exclusively expressed in the central nervous system
    • Matsuo,A. et al. (2005) Molecular cloning and characterization of a novel Gq-coupled orphan receptor GPRg1 exclusively expressed in the central nervous system. Biochem. Biophys. Res. Commun., 331, 363-369.
    • (2005) Biochem. Biophys. Res. Commun. , vol.331 , pp. 363-369
    • Matsuo, A.1
  • 31
    • 15944366921 scopus 로고    scopus 로고
    • Yeast system as a screening tool for pharmacological assessment of g protein coupled receptors
    • Minic,J. et al. (2005) Yeast system as a screening tool for pharmacological assessment of g protein coupled receptors. Curr. Med. Chem., 12, 961-969.
    • (2005) Curr. Med. Chem. , vol.12 , pp. 961-969
    • Minic, J.1
  • 32
    • 0034899781 scopus 로고    scopus 로고
    • Evaluation of methods for the prediction of membrane spanning regions
    • Moller,S. et al. (2001) Evaluation of methods for the prediction of membrane spanning regions. Bioinformatics, 17, 646-653.
    • (2001) Bioinformatics , vol.17 , pp. 646-653
    • Moller, S.1
  • 33
    • 0035224578 scopus 로고    scopus 로고
    • Prediction of the coupling specificity of G protein coupled receptors to their G proteins
    • Moller,S. et al. (2001) Prediction of the coupling specificity of G protein coupled receptors to their G proteins. Bioinformatics, 17 (Suppl 1), S174-S181.
    • (2001) Bioinformatics , vol.17 , Issue.SUPPL. 1
    • Moller, S.1
  • 34
    • 0034604451 scopus 로고    scopus 로고
    • Crystal structure of rhodopsin: A G protein-coupled receptor
    • Palczewski,K. et al. (2000) Crystal structure of rhodopsin: A G protein-coupled receptor. Science, 289, 739-745.
    • (2000) Science , vol.289 , pp. 739-745
    • Palczewski, K.1
  • 35
    • 2942694447 scopus 로고    scopus 로고
    • The Arabidopsis putative G protein-coupled receptor GCR1 interacts with the G protein alpha subunit GPA1 and regulates abscisic acid signaling
    • Pandey,S. and Assmann,S.M. (2004) The Arabidopsis putative G protein-coupled receptor GCR1 interacts with the G protein alpha subunit GPA1 and regulates abscisic acid signaling. Plant Cell, 16, 1616-1632.
    • (2004) Plant Cell , vol.16 , pp. 1616-1632
    • Pandey, S.1    Assmann, S.M.2
  • 36
    • 0345415722 scopus 로고    scopus 로고
    • A novel method for GPCR recognition and family classification from sequence alone using signatures derived from profile hidden Markov models
    • Papasaikas,P.K. et al. (2003) A novel method for GPCR recognition and family classification from sequence alone using signatures derived from profile hidden Markov models. SAR QSAR Environ. Res., 14, 413-420.
    • (2003) SAR QSAR Environ. Res. , vol.14 , pp. 413-420
    • Papasaikas, P.K.1
  • 37
    • 14644426000 scopus 로고    scopus 로고
    • Receptors coupled to heterotrimeric G proteins of the G12 family
    • Riobo,N.A. and Manning,D.R. (2005) Receptors coupled to heterotrimeric G proteins of the G12 family. Trends Pharmacol Sci., 26, 146-154.
    • (2005) Trends Pharmacol. Sci. , vol.26 , pp. 146-154
    • Riobo, N.A.1    Manning, D.R.2
  • 38
    • 1842737267 scopus 로고    scopus 로고
    • Effects of mutations in the N terminal region of the yeast G protein alpha-subunit Gpa1p on signaling by pheromone receptors
    • Roginskaya,M. et al. (2004) Effects of mutations in the N terminal region of the yeast G protein alpha-subunit Gpa1p on signaling by pheromone receptors. Mol. Genet. Genomics, 271, 237-248.
    • (2004) Mol. Genet. Genomics , vol.271 , pp. 237-248
    • Roginskaya, M.1
  • 39
    • 0035952635 scopus 로고    scopus 로고
    • Virally encoded 7TM receptors
    • Rosenkilde,M.M. et al. (2001) Virally encoded 7TM receptors. Oncogene, 20, 1582-1593.
    • (2001) Oncogene , vol.20 , pp. 1582-1593
    • Rosenkilde, M.M.1
  • 40
    • 25444526090 scopus 로고    scopus 로고
    • A method for the prediction of GPCRs coupling specificity to G-proteins using refined profile hidden Markov models
    • Sgourakis,N.G. et al. (2005) A method for the prediction of GPCRs coupling specificity to G-proteins using refined profile hidden Markov models. BMC Bioinformatics, 6, 104.
    • (2005) BMC Bioinformatics , vol.6 , pp. 104
    • Sgourakis, N.G.1
  • 41
    • 0348010316 scopus 로고    scopus 로고
    • Closely related G-protein-coupled receptors use multiple and distinct domains on G-protein alpha-subunits for selective coupling
    • Slessareva,J.E. et al. (2003) Closely related G-protein-coupled receptors use multiple and distinct domains on G-protein alpha-subunits for selective coupling. J. Biol. Chem., 278, 50530-50536.
    • (2003) J. Biol. Chem. , vol.278 , pp. 50530-50536
    • Slessareva, J.E.1
  • 42
    • 12344264864 scopus 로고    scopus 로고
    • Predicting GPCR-G-protein coupling using hidden Markov models
    • Sreekumar,K.R. et al. (2004) Predicting GPCR-G-protein coupling using hidden Markov models. Bioinformatics, 20, 3490-3499.
    • (2004) Bioinformatics , vol.20 , pp. 3490-3499
    • Sreekumar, K.R.1
  • 43
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • Thompson,J.D. et al. (1994) CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res., 22, 4673-4680.
    • (1994) Nucleic Acids Res. , vol.22 , pp. 4673-4680
    • Thompson, J.D.1
  • 44
    • 0027496941 scopus 로고
    • Mutational analysis of muscarinic, acetylcholine receptors: Structural basis of ligand/receptor/G protein interactions
    • Wess,J. (1993) Mutational analysis of muscarinic, acetylcholine receptors: Structural basis of ligand/receptor/G protein interactions. Life Sci., 53, 1447-1463.
    • (1993) Life Sci. , vol.53 , pp. 1447-1463
    • Wess, J.1
  • 45
    • 0032402450 scopus 로고    scopus 로고
    • Molecular basis of receptor/G-protein-coupling selectivity
    • Wess,J. (1998) Molecular basis of receptor/G-protein-coupling selectivity. Pharmacol. Ther., 80, 231-264.
    • (1998) Pharmacol. Ther. , vol.80 , pp. 231-264
    • Wess, J.1
  • 46
    • 0037762755 scopus 로고    scopus 로고
    • G protein selectivity is regulated by multiple intracellular regions of GPCRs
    • Wong,S.K. (2003) G protein selectivity is regulated by multiple intracellular regions of GPCRs. Neurosignals, 12, 1-12.
    • (2003) Neurosignals , vol.12 , pp. 1-12
    • Wong, S.K.1
  • 47
    • 23144436222 scopus 로고    scopus 로고
    • GRIFFIN: A system for predicting GPCR-G-protein coupling selectivity using a support vector machine and a hidden Markov model
    • Yabuki,Y. et al. (2005) GRIFFIN: A system for predicting GPCR-G-protein coupling selectivity using a support vector machine and a hidden Markov model. Nucleic Acids Res., 33, W148-W153.
    • (2005) Nucleic Acids Res. , vol.33
    • Yabuki, Y.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.