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Volumn 388, Issue 4, 2009, Pages 902-916

Structure-Based Prediction of the Saccharomyces cerevisiae SH3-Ligand Interactions

Author keywords

genome prediction; protein function prediction; protein protein interactions; SH3 domain homology modelling; yeast interaction network

Indexed keywords

PROTEIN SH3;

EID: 67349248904     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmb.2009.03.038     Document Type: Article
Times cited : (30)

References (27)
  • 4
    • 27144530248 scopus 로고    scopus 로고
    • Towards a proteome-scale map of the human protein-protein interaction network
    • Rual J.F., Venkatesan K., Hao T., Hirozane-Kishikawa T., Dricot A., Li N., et al. Towards a proteome-scale map of the human protein-protein interaction network. Nature 437 (2005) 1173-1178
    • (2005) Nature , vol.437 , pp. 1173-1178
    • Rual, J.F.1    Venkatesan, K.2    Hao, T.3    Hirozane-Kishikawa, T.4    Dricot, A.5    Li, N.6
  • 5
    • 0034628508 scopus 로고    scopus 로고
    • A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
    • Uetz P., Giot L., Cagney G., Mansfield T.A., Judson R.S., Knight J.R., et al. A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature 403 (2000) 623-627
    • (2000) Nature , vol.403 , pp. 623-627
    • Uetz, P.1    Giot, L.2    Cagney, G.3    Mansfield, T.A.4    Judson, R.S.5    Knight, J.R.6
  • 6
    • 0034614678 scopus 로고    scopus 로고
    • Protein interaction mapping in C. elegans using proteins involved in vulval development
    • Walhout A.J., Sordella R., Lu X., Hartley J.L., Temple G.F., Brasch M.A., et al. Protein interaction mapping in C. elegans using proteins involved in vulval development. Science 287 (2000) 116-122
    • (2000) Science , vol.287 , pp. 116-122
    • Walhout, A.J.1    Sordella, R.2    Lu, X.3    Hartley, J.L.4    Temple, G.F.5    Brasch, M.A.6
  • 7
    • 0037161731 scopus 로고    scopus 로고
    • Comparative assessment of large-scale data sets of protein-protein interactions
    • von Mering C., Krause R., Snel B., Cornell M., Oliver S.G., Fields S., and Bork P. Comparative assessment of large-scale data sets of protein-protein interactions. Nature 417 (2002) 399-403
    • (2002) Nature , vol.417 , pp. 399-403
    • von Mering, C.1    Krause, R.2    Snel, B.3    Cornell, M.4    Oliver, S.G.5    Fields, S.6    Bork, P.7
  • 8
    • 0037197902 scopus 로고    scopus 로고
    • Interrogating protein interaction networks through structural biology
    • Aloy P., and Russell R.B. Interrogating protein interaction networks through structural biology. Proc. Natl Acad. Sci. USA 99 (2002) 5896-5901
    • (2002) Proc. Natl Acad. Sci. USA , vol.99 , pp. 5896-5901
    • Aloy, P.1    Russell, R.B.2
  • 9
    • 0042386609 scopus 로고    scopus 로고
    • The relationship between sequence and interaction divergence in proteins
    • Aloy P., Ceulemans H., Stark A., and Russell R.B. The relationship between sequence and interaction divergence in proteins. J. Mol. Biol. 332 (2003) 989-998
    • (2003) J. Mol. Biol. , vol.332 , pp. 989-998
    • Aloy, P.1    Ceulemans, H.2    Stark, A.3    Russell, R.B.4
  • 10
    • 0037110589 scopus 로고    scopus 로고
    • MULTIPROSPECTOR: an algorithm for the prediction of protein-protein interactions by multimeric threading
    • Lu L., Lu H., and Skolnick J. MULTIPROSPECTOR: an algorithm for the prediction of protein-protein interactions by multimeric threading. Proteins 49 (2002) 350-364
    • (2002) Proteins , vol.49 , pp. 350-364
    • Lu, L.1    Lu, H.2    Skolnick, J.3
  • 11
    • 13844293072 scopus 로고    scopus 로고
    • Recognizing and defining true Ras binding domains: II. In silico prediction based on homology modelling and energy calculations
    • Kiel C., Wohlgemuth S., Rousseau F., Schymkowitz J., Ferkinghoff-Borg J., Wittinghofer F., and Serrano L. Recognizing and defining true Ras binding domains: II. In silico prediction based on homology modelling and energy calculations. J. Mol. Biol. 348 (2005) 759-775
    • (2005) J. Mol. Biol. , vol.348 , pp. 759-775
    • Kiel, C.1    Wohlgemuth, S.2    Rousseau, F.3    Schymkowitz, J.4    Ferkinghoff-Borg, J.5    Wittinghofer, F.6    Serrano, L.7
  • 12
    • 33645776269 scopus 로고    scopus 로고
    • Computational analysis and prediction of the binding motif and protein interacting partners of the Abl SH3 domain
    • Hou T., Chen K., McLaughlin W.A., Lu B., and Wang W. Computational analysis and prediction of the binding motif and protein interacting partners of the Abl SH3 domain. PLoS Comput. Biol. 2 (2006) e1
    • (2006) PLoS Comput. Biol. , vol.2
    • Hou, T.1    Chen, K.2    McLaughlin, W.A.3    Lu, B.4    Wang, W.5
  • 13
    • 33645510752 scopus 로고    scopus 로고
    • New approaches to high-throughput structure characterization of SH3 complexes: the example of Myosin-3 and Myosin-5 SH3 domains from S. cerevisiae
    • Musi V., Birdsall B., Fernandez-Ballester G., Guerrini R., Salvatori S., Serrano L., and Pastore A. New approaches to high-throughput structure characterization of SH3 complexes: the example of Myosin-3 and Myosin-5 SH3 domains from S. cerevisiae. Protein Sci. 15 (2006) 795-807
    • (2006) Protein Sci. , vol.15 , pp. 795-807
    • Musi, V.1    Birdsall, B.2    Fernandez-Ballester, G.3    Guerrini, R.4    Salvatori, S.5    Serrano, L.6    Pastore, A.7
  • 14
    • 29144455315 scopus 로고    scopus 로고
    • Systematic discovery of new recognition peptides mediating protein interaction networks
    • Neduva V., Linding R., Su-Angrand I., Stark A., de M.F., Gibson T.J., et al. Systematic discovery of new recognition peptides mediating protein interaction networks. PLoS Biol. 3 (2005) e405
    • (2005) PLoS Biol. , vol.3
    • Neduva, V.1    Linding, R.2    Su-Angrand, I.3    Stark, A.4    de, M.F.5    Gibson, T.J.6
  • 15
    • 0037085280 scopus 로고    scopus 로고
    • Unusual binding properties of the SH3 domain of the yeast actin-binding protein Abp1: structural and functional analysis
    • Fazi B., Cope M.J., Douangamath A., Ferracuti S., Schirwitz K., Zucconi A., et al. Unusual binding properties of the SH3 domain of the yeast actin-binding protein Abp1: structural and functional analysis. J. Biol. Chem. 277 (2002) 5290-5298
    • (2002) J. Biol. Chem. , vol.277 , pp. 5290-5298
    • Fazi, B.1    Cope, M.J.2    Douangamath, A.3    Ferracuti, S.4    Schirwitz, K.5    Zucconi, A.6
  • 16
    • 18744383603 scopus 로고    scopus 로고
    • Topography for independent binding of alpha-helical and PPII-helical ligands to a peroxisomal SH3 domain
    • Douangamath A., Filipp F.V., Klein A.T., Barnett P., Zou P., Voorn-Brouwer T., et al. Topography for independent binding of alpha-helical and PPII-helical ligands to a peroxisomal SH3 domain. Mol. Cell 10 (2002) 1007-1017
    • (2002) Mol. Cell , vol.10 , pp. 1007-1017
    • Douangamath, A.1    Filipp, F.V.2    Klein, A.T.3    Barnett, P.4    Zou, P.5    Voorn-Brouwer, T.6
  • 18
    • 0037059461 scopus 로고    scopus 로고
    • A combined experimental and computational strategy to define protein interaction networks for peptide recognition modules
    • Tong A.H., Drees B., Nardelli G., Bader G.D., Brannetti B., Castagnoli L., et al. A combined experimental and computational strategy to define protein interaction networks for peptide recognition modules. Science 295 (2002) 321-324
    • (2002) Science , vol.295 , pp. 321-324
    • Tong, A.H.1    Drees, B.2    Nardelli, G.3    Bader, G.D.4    Brannetti, B.5    Castagnoli, L.6
  • 19
    • 0034486070 scopus 로고    scopus 로고
    • The identification of conserved interactions within the SH3 domain by alignment of sequences and structures
    • Larson S.M., and Davidson A.R. The identification of conserved interactions within the SH3 domain by alignment of sequences and structures. Protein Sci. 9 (2000) 2170-2180
    • (2000) Protein Sci. , vol.9 , pp. 2170-2180
    • Larson, S.M.1    Davidson, A.R.2
  • 20
    • 0347627529 scopus 로고    scopus 로고
    • The tryptophan switch: changing ligand-binding specificity from type I to type II in SH3 domains
    • Fernandez-Ballester G., Blanes-Mira C., and Serrano L. The tryptophan switch: changing ligand-binding specificity from type I to type II in SH3 domains. J. Mol. Biol. 335 (2004) 619-629
    • (2004) J. Mol. Biol. , vol.335 , pp. 619-629
    • Fernandez-Ballester, G.1    Blanes-Mira, C.2    Serrano, L.3
  • 21
    • 0036291145 scopus 로고    scopus 로고
    • Predicting changes in the stability of proteins and protein complexes: a study of more than 1000 mutations
    • Guerois R., Nielsen J.E., and Serrano L. Predicting changes in the stability of proteins and protein complexes: a study of more than 1000 mutations. J. Mol. Biol. 320 (2002) 369-387
    • (2002) J. Mol. Biol. , vol.320 , pp. 369-387
    • Guerois, R.1    Nielsen, J.E.2    Serrano, L.3
  • 23
    • 0037138380 scopus 로고    scopus 로고
    • Can we infer peptide recognition specificity mediated by SH3 domains?
    • Cesareni G., Panni S., Nardelli G., and Castagnoli L. Can we infer peptide recognition specificity mediated by SH3 domains?. FEBS Lett. 513 (2002) 38-44
    • (2002) FEBS Lett. , vol.513 , pp. 38-44
    • Cesareni, G.1    Panni, S.2    Nardelli, G.3    Castagnoli, L.4
  • 24
    • 0346555269 scopus 로고    scopus 로고
    • Optimization of specificity in a cellular protein interaction network by negative selection
    • Zarrinpar A., Park S.H., and Lim W.A. Optimization of specificity in a cellular protein interaction network by negative selection. Nature 426 (2003) 676-680
    • (2003) Nature , vol.426 , pp. 676-680
    • Zarrinpar, A.1    Park, S.H.2    Lim, W.A.3
  • 27
    • 33749077506 scopus 로고    scopus 로고
    • Prediction of protein-protein interaction based on structure
    • Fernandez-Ballester G., and Serrano L. Prediction of protein-protein interaction based on structure. Methods Mol. Biol. 340 (2006) 207-234
    • (2006) Methods Mol. Biol. , vol.340 , pp. 207-234
    • Fernandez-Ballester, G.1    Serrano, L.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.