메뉴 건너뛰기




Volumn 42, Issue W1, 2014, Pages

PRISM: A web server and repository for prediction of protein-protein interactions and modeling their 3D complexes

Author keywords

[No Author keywords available]

Indexed keywords

ACCESS TO INFORMATION; ACCURACY; ALGORITHM; ARTICLE; BINDING SITE; CLIENT SERVER APPLICATION; COMPLEX FORMATION; COMPUTER INTERFACE; COMPUTER MODEL; COMPUTER PREDICTION; GENETIC CONSERVATION; INTERNET; MOLECULAR MODEL; ONLINE SYSTEM; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN INTERACTIONS BY STRUCTURAL MATCHING; PROTEIN PROTEIN INTERACTION; PROTEIN TARGETING; STRUCTURAL HOMOLOGY; THREE DIMENSIONAL IMAGING; WEB BROWSER;

EID: 84904801952     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gku397     Document Type: Article
Times cited : (165)

References (25)
  • 3
    • 84871967106 scopus 로고    scopus 로고
    • Interactome3D: Adding structural details to protein networks
    • Mosca,R., Ceol,A. and Aloy,P. (2013) Interactome3D: adding structural details to protein networks. Nat. Methods, 10, 47-53.
    • (2013) Nat. Methods , vol.10 , pp. 47-53
    • Mosca, R.1    Ceol, A.2    Aloy, P.3
  • 4
    • 84857788445 scopus 로고    scopus 로고
    • Large-scale mapping of human protein interactome using structural complexes
    • Tyagi,M., Hashimoto,K., Shoemaker,B.A., Wuchty,S. and Panchenko,A.R. (2012) Large-scale mapping of human protein interactome using structural complexes. EMBO Rep., 13, 266-271.
    • (2012) EMBO Rep. , vol.13 , pp. 266-271
    • Tyagi, M.1    Hashimoto, K.2    Shoemaker, B.A.3    Wuchty, S.4    Panchenko, A.R.5
  • 5
    • 84862625522 scopus 로고    scopus 로고
    • Constructing structural networks of signaling pathways on the proteome scale
    • Kuzu,G., Keskin,O., Gursoy,A. and Nussinov,R. (2012) Constructing structural networks of signaling pathways on the proteome scale. Curr. Opin. Struct. Biol., 22, 367-377.
    • (2012) Curr. Opin. Struct. Biol. , vol.22 , pp. 367-377
    • Kuzu, G.1    Keskin, O.2    Gursoy, A.3    Nussinov, R.4
  • 6
    • 79960164372 scopus 로고    scopus 로고
    • Protein-protein complex structure predictions by multimeric threading and template recombination
    • Mukherjee,S. and Zhang,Y. (2011) Protein-protein complex structure predictions by multimeric threading and template recombination. Structure, 19, 955-966.
    • (2011) Structure , vol.19 , pp. 955-966
    • Mukherjee, S.1    Zhang, Y.2
  • 7
    • 84875464398 scopus 로고    scopus 로고
    • Mapping monomeric threading to protein-protein structure prediction
    • Guerler,A., Govindarajoo,B. and Zhang,Y. (2013) Mapping monomeric threading to protein-protein structure prediction. J. Chem. Inf. Model., 53, 717-725.
    • (2013) J. Chem. Inf. Model. , vol.53 , pp. 717-725
    • Guerler, A.1    Govindarajoo, B.2    Zhang, Y.3
  • 8
    • 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. (2002) MULTIPROSPECTOR: an algorithm for the prediction of protein-protein interactions by multimeric threading. Proteins, 49, 350-364.
    • (2002) Proteins , vol.49 , pp. 350-364
    • Lu, L.1    Lu, H.2    Skolnick, J.3
  • 9
    • 80052411919 scopus 로고    scopus 로고
    • Predicting protein-protein interactions on a proteome scale by matching evolutionary and structural similarities at interfaces using PRISM
    • Tuncbag,N., Gursoy,A., Nussinov,R. and Keskin,O. (2011) Predicting protein-protein interactions on a proteome scale by matching evolutionary and structural similarities at interfaces using PRISM. Nat. Protoc., 6, 1341-1354.
    • (2011) Nat. Protoc. , vol.6 , pp. 1341-1354
    • Tuncbag, N.1    Gursoy, A.2    Nussinov, R.3    Keskin, O.4
  • 10
    • 84857790849 scopus 로고    scopus 로고
    • Fast and accurate modeling of protein-protein interactions by combining template-interface-based docking with flexible refinement
    • Tuncbag,N., Keskin,O., Nussinov,R. and Gursoy,A. (2012) Fast and accurate modeling of protein-protein interactions by combining template-interface-based docking with flexible refinement. Proteins, 80, 1239-1249.
    • (2012) Proteins , vol.80 , pp. 1239-1249
    • Tuncbag, N.1    Keskin, O.2    Nussinov, R.3    Gursoy, A.4
  • 11
    • 84879327937 scopus 로고    scopus 로고
    • Exploiting conformational ensembles in modeling protein-protein interactions on the proteome scale
    • Kuzu,G., Gursoy,A., Nussinov,R. and Keskin,O. (2013) Exploiting conformational ensembles in modeling protein-protein interactions on the proteome scale. J. Proteome Res., 12, 2641-2653.
    • (2013) J. Proteome Res. , vol.12 , pp. 2641-2653
    • Kuzu, G.1    Gursoy, A.2    Nussinov, R.3    Keskin, O.4
  • 12
    • 84888307602 scopus 로고    scopus 로고
    • Global and local structural similarity in protein-protein complexes: Implications for template-based docking
    • Kundrotas,P.J. and Vakser,I.A. (2013) Global and local structural similarity in protein-protein complexes: implications for template-based docking. Proteins, 81, 2137-2142.
    • (2013) Proteins , vol.81 , pp. 2137-2142
    • Kundrotas, P.J.1    Vakser, I.A.2
  • 13
    • 20844454090 scopus 로고    scopus 로고
    • Prediction of protein-protein interactions by combining structure and sequence conservation in protein interfaces
    • Aytuna,A.S., Gursoy,A. and Keskin,O. (2005) Prediction of protein-protein interactions by combining structure and sequence conservation in protein interfaces. Bioinformatics, 21, 2850-2855.
    • (2005) Bioinformatics , vol.21 , pp. 2850-2855
    • Aytuna, A.S.1    Gursoy, A.2    Keskin, O.3
  • 14
    • 0032479179 scopus 로고    scopus 로고
    • Anatomy of hot spots in protein interfaces
    • Bogan,A.A. and Thorn,K.S. (1998) Anatomy of hot spots in protein interfaces. J. Mol. Biol., 280, 1-9.
    • (1998) J. Mol. Biol. , vol.280 , pp. 1-9
    • Bogan, A.A.1    Thorn, K.S.2
  • 15
    • 0028916599 scopus 로고
    • A hot spot of binding energy in a hormone-receptor interface
    • Clackson,T. and Wells,J.A. (1995) A hot spot of binding energy in a hormone-receptor interface. Science, 267, 383-386.
    • (1995) Science , vol.267 , pp. 383-386
    • Clackson, T.1    Wells, J.A.2
  • 18
    • 77951232176 scopus 로고    scopus 로고
    • FiberDock: Flexible induced-fit backbone refinement in molecular docking
    • Mashiach,E., Nussinov,R. and Wolfson,H.J. (2010) FiberDock: flexible induced-fit backbone refinement in molecular docking. Proteins, 78, 1503-1519.
    • (2010) Proteins , vol.78 , pp. 1503-1519
    • Mashiach, E.1    Nussinov, R.2    Wolfson, H.J.3
  • 20
    • 84900297215 scopus 로고    scopus 로고
    • Non-redundant unique interface structures as templates for modeling protein interactions
    • Cukuroglu,E., Gursoy,A., Nussinov,R. and Keskin,O. (2014) Non-redundant unique interface structures as templates for modeling protein interactions. PLoS One, 9, e86738.
    • (2014) PLoS One , vol.9
    • Cukuroglu, E.1    Gursoy, A.2    Nussinov, R.3    Keskin, O.4
  • 21
    • 84861036418 scopus 로고    scopus 로고
    • HotRegion: A database of predicted hot spot clusters
    • Cukuroglu,E., Gursoy,A. and Keskin,O. (2012) HotRegion: a database of predicted hot spot clusters. Nucleic Acids Res., 40, D829-D833.
    • (2012) Nucleic Acids Res. , vol.40
    • Cukuroglu, E.1    Gursoy, A.2    Keskin, O.3
  • 22
    • 66349094681 scopus 로고    scopus 로고
    • Identification of computational hot spots in protein interfaces: Combining solvent accessibility and inter-residue potentials improves the accuracy
    • Tuncbag,N., Gursoy,A. and Keskin,O. (2009) Identification of computational hot spots in protein interfaces: combining solvent accessibility and inter-residue potentials improves the accuracy. Bioinformatics, 25, 1513-1520.
    • (2009) Bioinformatics , vol.25 , pp. 1513-1520
    • Tuncbag, N.1    Gursoy, A.2    Keskin, O.3
  • 23
    • 0003742069 scopus 로고
    • Department ofBiochemistry and Molecular Biology, University College London
    • Hubbard S.J. and Thornton,J.M. (1993) 'NACCESS', Computer Program. Department ofBiochemistry and Molecular Biology, University College London5
    • (1993) 'NACCESS', Computer Program , vol.5
    • Hubbard, S.J.1    Thornton, J.M.2
  • 24
    • 2442456104 scopus 로고    scopus 로고
    • A method for simultaneous alignment of multiple protein structures
    • Shatsky,M., Nussinov,R. and Wolfson,H.J. (2004) A method for simultaneous alignment of multiple protein structures. Proteins, 56, 143-156.
    • (2004) Proteins , vol.56 , pp. 143-156
    • Shatsky, M.1    Nussinov, R.2    Wolfson, H.J.3
  • 25
    • 84876239078 scopus 로고    scopus 로고
    • JSmol and the next-generation web-based representation of 3D molecular structure as applied to proteopedia
    • Hanson,R.M., Prilusky,J., Renjian,Z., Nakane,T. and Sussman,J.L. (2013) JSmol and the next-generation web-based representation of 3D molecular structure as applied to proteopedia. Isr. J. Chem., 53, 207-216
    • (2013) Isr. J. Chem. , vol.53 , pp. 207-216
    • Hanson, R.M.1    Prilusky, J.2    Renjian, Z.3    Nakane, T.4    Sussman, J.L.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.