메뉴 건너뛰기




Volumn 60, Issue 2, 2005, Pages 224-231

Geometry-based flexible and symmetric protein docking

Author keywords

CAPRI; FlexDock; Flexible docking; Patchdock; SymmDock; Symmetric docking; Unbound docking

Indexed keywords

ALGORITHM; COMPLEX FORMATION; CONFERENCE PAPER; FLEXDOCK ALGORITHM; GEOMETRY; INTERNET; MOLECULAR DYNAMICS; PATCHDOCK ALGORITHM; PERFORMANCE; PRIORITY JOURNAL; PROTEIN PROTEIN INTERACTION; RIGIDITY; SYMMDOCK ALGORITHM;

EID: 21644463278     PISSN: 08873585     EISSN: None     Source Type: Journal    
DOI: 10.1002/prot.20562     Document Type: Conference Paper
Times cited : (185)

References (24)
  • 3
    • 84956979675 scopus 로고    scopus 로고
    • Efficient unbound docking of rigid molecules
    • Guigo R, Gusfield D, editors. Rome: Springer-Verlag
    • Duhovny D, Nussinov R, Wolfson HJ. Efficient unbound docking of rigid molecules. In Guigo R, Gusfield D, editors. Workshop on algorithms in bioinformatics. Vol. 2452. Rome: Springer-Verlag; 2002. p 185-200.
    • (2002) Workshop on Algorithms in Bioinformatics , vol.2452 , pp. 185-200
    • Duhovny, D.1    Nussinov, R.2    Wolfson, H.J.3
  • 4
    • 0029089732 scopus 로고
    • Molecular surface complementarity at protein-protein interfaces: The critical role played by surface normals at well placed, sparse points in docking
    • Norel R, Lin SL, Wolfson HJ, Nussinov R. Molecular surface complementarity at protein-protein interfaces: the critical role played by surface normals at well placed, sparse points in docking. J Mol Biol 1995;252:263-273.
    • (1995) J Mol Biol , vol.252 , pp. 263-273
    • Norel, R.1    Lin, S.L.2    Wolfson, H.J.3    Nussinov, R.4
  • 5
    • 0029025913 scopus 로고
    • A geometry-based suite of molecular docking processes
    • Fischer D, Lin SL, Wolfson HJ, Nussinov R. A geometry-based suite of molecular docking processes. J Mol Biol 1995;248:459-477.
    • (1995) J Mol Biol , vol.248 , pp. 459-477
    • Fischer, D.1    Lin, S.L.2    Wolfson, H.J.3    Nussinov, R.4
  • 6
    • 0032466036 scopus 로고    scopus 로고
    • A method for biomolecular structural recognition and docking allowing conformational flexibility
    • Sandak B, Nussinov R, Wolfson HJ. A method for biomolecular structural recognition and docking allowing conformational flexibility. J Comp Biol 1998;5:631-654.
    • (1998) J Comp Biol , vol.5 , pp. 631-654
    • Sandak, B.1    Nussinov, R.2    Wolfson, H.J.3
  • 8
    • 0026572775 scopus 로고
    • Molecular surface recognition: Determination of geometric fit between protein and their ligands by correlation techniques
    • Katchalski-Katzir E, Shariv I, Eisenstein M, Friesem AA, Aflalo C, Vakser IA. Molecular surface recognition: determination of geometric fit between protein and their ligands by correlation techniques. Proc Natl Acad Sci USA 1992;89:2195-2199.
    • (1992) Proc Natl Acad Sci USA , vol.89 , pp. 2195-2199
    • Katchalski-Katzir, E.1    Shariv, I.2    Eisenstein, M.3    Friesem, A.A.4    Aflalo, C.5    Vakser, I.A.6
  • 9
    • 1842861590 scopus 로고    scopus 로고
    • Prediction of protein-protein interactions: The CAPRI experiment, its evaluation and implications
    • Méndez R, Wodak SJ. Prediction of protein-protein interactions: the CAPRI experiment, its evaluation and implications. Curr Opin Struct Biol 2004;14:242-249.
    • (2004) Curr Opin Struct Biol , vol.14 , pp. 242-249
    • Méndez, R.1    Wodak, S.J.2
  • 10
    • 0038021436 scopus 로고    scopus 로고
    • Assessment of blind predictions of protein-protein interactions: Current status of docking methods
    • Méndez R, Leplae R, De Maria L, Wodak SJ. Assessment of blind predictions of protein-protein interactions: current status of docking methods. Proteins 2003;52:51-67.
    • (2003) Proteins , vol.52 , pp. 51-67
    • Méndez, R.1    Leplae, R.2    De Maria, L.3    Wodak, S.J.4
  • 11
    • 0037478850 scopus 로고    scopus 로고
    • HPr kinase/phosphorylase, the sensor enzyme of catabolite repression in Gram-positive bacteria:structural aspects of the enzyme and the complex with its protein substrate
    • Nessler S, Fieulaine S, Poncet S, Galinier A, Deutscher J, Janin J. HPr kinase/phosphorylase, the sensor enzyme of catabolite repression in Gram-positive bacteria:structural aspects of the enzyme and the complex with its protein substrate. J Bacteriol 2003;185: 4003-4010.
    • (2003) J Bacteriol , vol.185 , pp. 4003-4010
    • Nessler, S.1    Fieulaine, S.2    Poncet, S.3    Galinier, A.4    Deutscher, J.5    Janin, J.6
  • 12
    • 0031566966 scopus 로고    scopus 로고
    • Modeling supra-molecular helices: Extension of the molecular surface recognition algorithm and application to the protein coat of the tobacco mosaic virus
    • Eisenstein M, Shariv I, Koren G, Friesem AA, Katchalski-Katzir E. Modeling supra-molecular helices: extension of the molecular surface recognition algorithm and application to the protein coat of the tobacco mosaic virus. J Mol Biol 1997;266:135-143.
    • (1997) J Mol Biol , vol.266 , pp. 135-143
    • Eisenstein, M.1    Shariv, I.2    Koren, G.3    Friesem, A.A.4    Katchalski-Katzir, E.5
  • 13
    • 0344980718 scopus 로고    scopus 로고
    • Construction of molecular assemblies via docking: Modeling of tetramers with D2 symmetry
    • Berchanski A, Eisenstein M. Construction of molecular assemblies via docking: modeling of tetramers with D2 symmetry. Proteins 2003;53:817-829.
    • (2003) Proteins , vol.53 , pp. 817-829
    • Berchanski, A.1    Eisenstein, M.2
  • 14
    • 0019397313 scopus 로고
    • Generalizing the Hough transform to detect arbitrary shapes
    • Ballard DH. Generalizing the Hough transform to detect arbitrary shapes. Pattern Recognit 1981;13:111-122.
    • (1981) Pattern Recognit , vol.13 , pp. 111-122
    • Ballard, D.H.1
  • 15
    • 0026301147 scopus 로고
    • Generalizing the generalized Hough transform
    • Wolfson HJ. Generalizing the generalized Hough transform. Pattern Recognit Lett 1991;12:565-573.
    • (1991) Pattern Recognit Lett , vol.12 , pp. 565-573
    • Wolfson, H.J.1
  • 16
    • 0036149480 scopus 로고    scopus 로고
    • Soft protein-protein docking in internal coordinates
    • Fernandez-Recio J, Totrov M, Abagyan R. Soft protein-protein docking in internal coordinates. Protein Sci 2002;11:280-291.
    • (2002) Protein Sci , vol.11 , pp. 280-291
    • Fernandez-Recio, J.1    Totrov, M.2    Abagyan, R.3
  • 17
    • 0038161052 scopus 로고    scopus 로고
    • Protein-protein docking with simultaneous optimization of rigid-body displacement and side-chain conformations
    • Gray JJ, Moughan S, Schueler-Furman O, Kuhlman B, Rohl CA, Baker D. Protein-protein docking with simultaneous optimization of rigid-body displacement and side-chain conformations. J Mol Biol 2003;331:281-299.
    • (2003) J Mol Biol , vol.331 , pp. 281-299
    • Gray, J.J.1    Moughan, S.2    Schueler-Furman, O.3    Kuhlman, B.4    Rohl, C.A.5    Baker, D.6
  • 19
    • 0027976930 scopus 로고
    • Molecular surface representation by sparse critical points
    • Lin SL, Nussinov R, Fischer D, Wolfson HJ. Molecular surface representation by sparse critical points. Proteins 1994;18:94-101.
    • (1994) Proteins , vol.18 , pp. 94-101
    • Lin, S.L.1    Nussinov, R.2    Fischer, D.3    Wolfson, H.J.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.