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Volumn 27, Issue 6, 2009, Pages 629-634

A machine learning based method for the prediction of G protein-coupled receptor-binding PDZ domain proteins

Author keywords

G protein coupled receptor; GPCR interacting protein; Machine learning; PDZ domain; Support vector machine

Indexed keywords

AMINO ACID; G PROTEIN COUPLED RECEPTOR; G PROTEIN COUPLED RECEPTOR INTERACTING PROTEIN; PDZ PROTEIN; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG;

EID: 67650281206     PISSN: 10168478     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10059-009-0091-2     Document Type: Article
Times cited : (13)

References (29)
  • 1
    • 7944235990 scopus 로고    scopus 로고
    • A structure-based approach for prediction of MHC-binding peptides
    • Altuvia, Y., and Margalit, H. (2004). A structure-based approach for prediction of MHC-binding peptides. Methods 34, 454-459.
    • (2004) Methods , vol.34 , pp. 454-459
    • Altuvia, Y.1    Margalit, H.2
  • 2
    • 33749511033 scopus 로고    scopus 로고
    • Thermodynamic basis for promiscuity and selectivity in protein-protein interactions: PDZ domains, a case study
    • Basdevant, N., Weinstein, H., and Ceruso, M. (2006). Thermodynamic basis for promiscuity and selectivity in protein-protein interactions: PDZ domains, a case study. J. Am. Chem. Soc. 128, 12766-12777.
    • (2006) J. Am. Chem. Soc. , vol.128 , pp. 12766-12777
    • Basdevant, N.1    Weinstein, H.2    Ceruso, M.3
  • 4
    • 0035861856 scopus 로고    scopus 로고
    • Classification of PDZ domains
    • Bezprozvanny, I., and Maximov, A. (2001). Classification of PDZ domains. FEBS Lett. 509, 457-462.
    • (2001) FEBS Lett. , vol.509 , pp. 457-462
    • Bezprozvanny, I.1    Maximov, A.2
  • 7
    • 33845995427 scopus 로고    scopus 로고
    • Two conserved residues govern the salt and pH dependencies of the binding reaction of a PDZ domain
    • Chi, C.N., Engström, Å., Gianni, S., Larsson, M., and Jemth, P. (2006). Two conserved residues govern the salt and pH dependencies of the binding reaction of a PDZ domain. J. Biol. Chem. 281, 36811-36818.
    • (2006) J. Biol. Chem. , vol.281 , pp. 36811-36818
    • Chi, C.N.1    Engström, Å.2    Gianni, S.3    Larsson, M.4    Jemth, P.5
  • 8
    • 33748567853 scopus 로고    scopus 로고
    • PDZ-domain arrays for identifying components of GPCR signaling complexes
    • Day, P., and Kobilka, B. (2006). PDZ-domain arrays for identifying components of GPCR signaling complexes. Trends Pharmacol. Sci. 27, 509-511.
    • (2006) Trends Pharmacol. Sci. , vol.27 , pp. 509-511
    • Day, P.1    Kobilka, B.2
  • 9
    • 0030604722 scopus 로고    scopus 로고
    • Crystal structures of a complexed and peptide-free membrane protein-binding domain: Molecular basis of peptide recognition by PDZ
    • Doyle, D.A., Lee, A., Lewis, J., Kim, E., Sheng, M., and Mackinnon, R. (1996). Crystal structures of a complexed and peptide-free membrane protein-binding domain: Molecular basis of peptide recognition by PDZ. Cell 85, 1067-1076.
    • (1996) Cell , vol.85 , pp. 1067-1076
    • Doyle, D.A.1    Lee, A.2    Lewis, J.3    Kim, E.4    Sheng, M.5    Mackinnon, R.6
  • 10
    • 34447643391 scopus 로고    scopus 로고
    • A combined approach for the classification of G protein-coupled receptors and its application to detect GPCR splice variants
    • Eo, H.S., Choi, J.P., Noh, S.J., Hur C.G., and Kim, W. (2007). A combined approach for the classification of G protein-coupled receptors and its application to detect GPCR splice variants. Comput. Biol. Chem. 31, 246-256.
    • (2007) Comput. Biol. Chem. , vol.31 , pp. 246-256
    • Eo, H.S.1    Choi, J.P.2    Noh, S.J.3    Hur, C.G.4    Kim, W.5
  • 12
    • 33750030012 scopus 로고    scopus 로고
    • A novel structure-based encoding for machine-learning applied to the inference of SH3 domain specificity
    • Ferraro, E., Via, A., Ausiello, G., and Helmer-Citterich, M. (2006). A novel structure-based encoding for machine-learning applied to the inference of SH3 domain specificity. Bioinformatics 22, 2333-2339.
    • (2006) Bioinformatics , vol.22 , pp. 2333-2339
    • Ferraro, E.1    Via, A.2    Ausiello, G.3    Helmer-Citterich, M.4
  • 14
    • 0016197604 scopus 로고
    • Amino acid difference formula to help explain protein evolution
    • Grantham, R. (1974). Amino acid difference formula to help explain protein evolution. Science 185, 862-864.
    • (1974) Science , vol.185 , pp. 862-864
    • Grantham, R.1
  • 15
    • 41149090339 scopus 로고    scopus 로고
    • Regulation of GPCRs by endocytic membrane trafficking and its potential implications
    • Hanyaloglu, A.C., and von Zastrow, M. (2008). Regulation of GPCRs by endocytic membrane trafficking and its potential implications. Annu. Rev. Pharmacol. Toxicol. 48, 537-568.
    • (2008) Annu. Rev. Pharmacol. Toxicol. , vol.48 , pp. 537-568
    • Hanyaloglu, A.C.1    von Zastrow, M.2
  • 16
    • 0037155199 scopus 로고    scopus 로고
    • PDZ domains: Structural modules for protein complex assembly
    • Hung, A.Y., and Sheng, M. (2002). PDZ domains: Structural modules for protein complex assembly. J. Biol. Chem. 277, 5699-5702.
    • (2002) J. Biol. Chem. , vol.277 , pp. 5699-5702
    • Hung, A.Y.1    Sheng, M.2
  • 18
    • 0036783234 scopus 로고    scopus 로고
    • Organisation of G-protein-coupled receptor signaling complexes by scaffolding proteins
    • Kreienkamp, H.J. (2002). Organisation of G-protein-coupled receptor signaling complexes by scaffolding proteins. Curr. Opin. Pharmacol. 2, 504-514.
    • (2002) Curr. Opin. Pharmacol. , vol.2 , pp. 504-514
    • Kreienkamp, H.J.1
  • 21
    • 0012927828 scopus 로고    scopus 로고
    • PDZ domain proteins: Plug and play!
    • Nourry, C., Grant, S.G., and Borg, J.P. (2003). PDZ domain proteins: Plug and play!. Sci. STKE. 179, RE7.
    • (2003) Sci. STKE. , vol.179
    • Nourry, C.1    Grant, S.G.2    Borg, J.P.3
  • 26
    • 0037070149 scopus 로고    scopus 로고
    • PDZ domains: Troubles in classification
    • Vaccaro, P., and Dente, L. (2002). PDZ domains: Troubles in classification. FEBS Lett. 512, 345-349.
    • (2002) FEBS Lett. , vol.512 , pp. 345-349
    • Vaccaro, P.1    Dente, L.2
  • 27
    • 0037503653 scopus 로고    scopus 로고
    • PDZ domains-glue and guide
    • van Ham, M., and Hendriks, W. (2003). PDZ domains-glue and guide. Mol. Biol. Rep. 30, 69-82.
    • (2003) Mol. Biol. Rep. , vol.30 , pp. 69-82
    • van Ham, M.1    Hendriks, W.2
  • 29
    • 33746285302 scopus 로고    scopus 로고
    • An integrated machine learning system to computationally screen protein databases for protein binding peptide ligands
    • Zhang, L., Shao, C., Zheng, D., and Gao, Y. (2006). An integrated machine learning system to computationally screen protein databases for protein binding peptide ligands. Mol. Cell. Proteomics 5, 1224-1232.
    • (2006) Mol. Cell. Proteomics , vol.5 , pp. 1224-1232
    • Zhang, L.1    Shao, C.2    Zheng, D.3    Gao, Y.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.