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Volumn 40, Issue D1, 2012, Pages

IBIS (Inferred Biomolecular Interaction Server) reports, predicts and integrates multiple types of conserved interactions for proteins

Author keywords

[No Author keywords available]

Indexed keywords

NUCLEIC ACID; PEPTIDE; PROTEIN;

EID: 84857784008     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkr997     Document Type: Article
Times cited : (80)

References (25)
  • 1
    • 58149197601 scopus 로고    scopus 로고
    • 3did Update: Domain-domain and peptide-mediated interactions of known 3D structure
    • Stein,A., Panjkovich,A. and Aloy,P. (2009) 3did Update: domain-domain and peptide-mediated interactions of known 3D structure. Nucleic Acids Res., 37, D300-D304.
    • (2009) Nucleic Acids Res. , vol.37
    • Stein, A.1    Panjkovich, A.2    Aloy, P.3
  • 2
    • 74549149999 scopus 로고    scopus 로고
    • Predicting protein ligand binding sites by combining evolutionary sequence conservation and 3D structure
    • Capra,J.A., Laskowski,R.A., Thornton,J.M., Singh,M. and Funkhouser,T.A. (2009) Predicting protein ligand binding sites by combining evolutionary sequence conservation and 3D structure. PLoS Comput. Biol., 5, e1000585.
    • (2009) PLoS Comput. Biol. , vol.5
    • Capra, J.A.1    Laskowski, R.A.2    Thornton, J.M.3    Singh, M.4    Funkhouser, T.A.5
  • 3
    • 34547581834 scopus 로고    scopus 로고
    • 3D-partner: A web server to infer interacting partners and binding models
    • Chen,Y.C., Lo,Y.S., Hsu,W.C. and Yang,J.M. (2007) 3D-partner: a web server to infer interacting partners and binding models. Nucleic Acids Res., 35, W561-W567.
    • (2007) Nucleic Acids Res. , vol.35
    • Chen, Y.C.1    Lo, Y.S.2    Hsu, W.C.3    Yang, J.M.4
  • 4
    • 33750029942 scopus 로고    scopus 로고
    • LIGSITEcsc: Predicting ligand binding sites using the Connolly surface and degree of conservation
    • Huang,B. and Schroeder,M. (2006) LIGSITEcsc: predicting ligand binding sites using the Connolly surface and degree of conservation. BMC Struct. Biol., 6, 19.
    • (2006) BMC Struct. Biol. , vol.6 , pp. 19
    • Huang, B.1    Schroeder, M.2
  • 5
    • 18744394070 scopus 로고    scopus 로고
    • Q-SiteFinder: An energy-based method for the prediction of protein-ligand binding sites
    • DOI 10.1093/bioinformatics/bti315
    • Laurie,A.T. and Jackson,R.M. (2005) Q-SiteFinder: an energy-based method for the prediction of protein-ligand binding sites. Bioinformatics, 21, 1908-1916. (Pubitemid 40668026)
    • (2005) Bioinformatics , vol.21 , Issue.9 , pp. 1908-1916
    • Laurie, A.T.R.1    Jackson, R.M.2
  • 6
    • 34548751368 scopus 로고    scopus 로고
    • Meta-PPISP: A meta web server for protein-protein interaction site prediction
    • DOI 10.1093/bioinformatics/btm434
    • Qin,S. and Zhou,H.X. (2007) meta-PPISP: a meta web server for protein-protein interaction site prediction. Bioinformatics, 23, 3386-3387. (Pubitemid 350238893)
    • (2007) Bioinformatics , vol.23 , Issue.24 , pp. 3386-3387
    • Qin, S.1    Zhou, H.-X.2
  • 7
    • 65449148627 scopus 로고    scopus 로고
    • WSsas: A web service for the annotation of functional residues through structural homologues
    • Talavera,D., Laskowski,R.A. and Thornton,J.M. (2009) WSsas: a web service for the annotation of functional residues through structural homologues. Bioinformatics, 25, 1192-1194.
    • (2009) Bioinformatics , vol.25 , pp. 1192-1194
    • Talavera, D.1    Laskowski, R.A.2    Thornton, J.M.3
  • 8
    • 78649655423 scopus 로고    scopus 로고
    • Networks of high mutual information define the structural proximity of catalytic sites: Implications for catalytic residue identification
    • Marino Buslje,C., Teppa,E., Di Doménico,T., Delfino,J.M. and Nielsen,M. (2010) Networks of high mutual information define the structural proximity of catalytic sites: implications for catalytic residue identification. PLoS Comput. Biol., 6, e1000978.
    • (2010) PLoS Comput. Biol. , vol.6
    • Marino Buslje, C.1    Teppa, E.2    Di Doménico, T.3    Delfino, J.M.4    Nielsen, M.5
  • 9
    • 0035211290 scopus 로고    scopus 로고
    • Identification of potential interaction networks using sequence-based searches for conserved protein-protein interactions or "interologs"
    • DOI 10.1101/gr.205301
    • Matthews,L.R., Vaglio,P., Reboul,J., Ge,H., Davis,B.P., Garrels,J., Vincent,S. and Vidal,M. (2001) Identification of potential interaction networks using sequence-based searches for conserved protein-protein interactions or "interologs". Genome Res., 11, 2120-2126. (Pubitemid 33138810)
    • (2001) Genome Research , vol.11 , Issue.12 , pp. 2120-2126
    • Matthews, L.R.1    Vaglio, P.2    Reboul, J.3    Ge, H.4    Davis, B.P.5    Garrels, J.6    Vincent, S.7    Vidal, M.8
  • 11
    • 33947312507 scopus 로고    scopus 로고
    • HomoMINT: An inferred human network based on orthology mapping of protein interactions discovered in model organisms
    • Persico,M., Ceol,A., Gavrila,C., Hoffmann,R., Florio,A. and Cesareni,G. (2005) HomoMINT: an inferred human network based on orthology mapping of protein interactions discovered in model organisms. BMC Bioinformatics, 6(Suppl. 4), S21.
    • (2005) BMC Bioinformatics , vol.6 , Issue.SUPPL. 4
    • Persico, M.1    Ceol, A.2    Gavrila, C.3    Hoffmann, R.4    Florio, A.5    Cesareni, G.6
  • 13
    • 78651306870 scopus 로고    scopus 로고
    • The protein common interface database (ProtCID)-a comprehensive database of interactions of homologous proteins in multiple crystal forms
    • Xu,Q. and Dunbrack,R.L. Jr (2011) The protein common interface database (ProtCID)-a comprehensive database of interactions of homologous proteins in multiple crystal forms. Nucleic Acids Res., 39, D761-D770.
    • (2011) Nucleic Acids Res. , vol.39
    • Xu, Q.1    Dunbrack Jr., R.L.2
  • 14
    • 79958787916 scopus 로고    scopus 로고
    • HomPPI: A class of sequence homology based protein-protein interface prediction methods
    • Xue,L.C., Dobbs,D. and Honavar,V. (2011) HomPPI: a class of sequence homology based protein-protein interface prediction methods. BMC Bioinformatics, 12, 244.
    • (2011) BMC Bioinformatics , vol.12 , pp. 244
    • Xue, L.C.1    Dobbs, D.2    Honavar, V.3
  • 15
    • 79959947610 scopus 로고    scopus 로고
    • PredUs: A web server for predicting protein interfaces using structural neighbors
    • Zhang,Q.C., Deng,L., Fisher,M., Guan,J., Honig,B. and Petrey,D. (2011) PredUs: a web server for predicting protein interfaces using structural neighbors. Nucleic Acids Res., 39, W283-W287.
    • (2011) Nucleic Acids Res. , vol.39
    • Zhang, Q.C.1    Deng, L.2    Fisher, M.3    Guan, J.4    Honig, B.5    Petrey, D.6
  • 20
    • 34548232365 scopus 로고    scopus 로고
    • Inference of Macromolecular Assemblies from Crystalline State
    • DOI 10.1016/j.jmb.2007.05.022, PII S0022283607006420
    • Krissinel,E. and Henrick,K. (2007) Inference of macromolecular assemblies from crystalline state. J. Mol. Biol., 372, 774-797. (Pubitemid 47321791)
    • (2007) Journal of Molecular Biology , vol.372 , Issue.3 , pp. 774-797
    • Krissinel, E.1    Henrick, K.2
  • 22
    • 58149178579 scopus 로고    scopus 로고
    • NCBI Reference Sequences: Current status, policy and new initiatives
    • Pruitt,K.D., Tatusova,T., Klimke,W. and Maglott,D.R. (2009) NCBI Reference Sequences: current status, policy and new initiatives. Nucleic Acids Res., 37, D32-D36.
    • (2009) Nucleic Acids Res. , vol.37
    • Pruitt, K.D.1    Tatusova, T.2    Klimke, W.3    Maglott, D.R.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.