메뉴 건너뛰기




Volumn 39, Issue 12, 2006, Pages 2370-2382

Clustering techniques for protein surfaces

Author keywords

Clustering; Protein surface; Region growing; Template matching

Indexed keywords

ALGORITHMS; INFORMATION RETRIEVAL; PHYSIOLOGICAL MODELS; SURFACE PROPERTIES;

EID: 33748435018     PISSN: 00313203     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.patcog.2006.02.024     Document Type: Article
Times cited : (9)

References (39)
  • 1
    • 0031715982 scopus 로고    scopus 로고
    • Protein structure alignment by incremental combinatorial extension of the optimal path
    • Shindyalov I., and Bourne P. Protein structure alignment by incremental combinatorial extension of the optimal path. Protein Eng. 11 (1998) 739-747
    • (1998) Protein Eng. , vol.11 , pp. 739-747
    • Shindyalov, I.1    Bourne, P.2
  • 2
    • 0030017889 scopus 로고    scopus 로고
    • Analysis of topological and nontopological structural similarities in the PDB: new examples with old structures
    • Alexandrov N., and Fischer D. Analysis of topological and nontopological structural similarities in the PDB: new examples with old structures. Proteins 25 (1996) 354-365
    • (1996) Proteins , vol.25 , pp. 354-365
    • Alexandrov, N.1    Fischer, D.2
  • 3
    • 0027440362 scopus 로고
    • Protein structure comparison by alignment of distance matrices
    • Holm L., and Sander C. Protein structure comparison by alignment of distance matrices. J. Mol. Biol. 233 (1993) 123-138
    • (1993) J. Mol. Biol. , vol.233 , pp. 123-138
    • Holm, L.1    Sander, C.2
  • 5
    • 0028230909 scopus 로고
    • Three-dimensional, sequence order-independent structural comparison of a serine protease against the crystallographic database reveals active site similarities
    • Fischer D., Wolfson H., Lin S., and Nussinov R. Three-dimensional, sequence order-independent structural comparison of a serine protease against the crystallographic database reveals active site similarities. Protein Sci. 3 (1994) 769-778
    • (1994) Protein Sci. , vol.3 , pp. 769-778
    • Fischer, D.1    Wolfson, H.2    Lin, S.3    Nussinov, R.4
  • 6
    • 32044474167 scopus 로고    scopus 로고
    • Protein classification by matching and clustering surface graphs
    • Lozano M.A., and Escolano F. Protein classification by matching and clustering surface graphs. Pattern Recognition 39 4 (2006) 499-736
    • (2006) Pattern Recognition , vol.39 , Issue.4 , pp. 499-736
    • Lozano, M.A.1    Escolano, F.2
  • 7
    • 1642410939 scopus 로고    scopus 로고
    • A method of comparing protein molecular surface based on normal vectors with attributes and its application to function identification
    • Kaneta Y., et al. A method of comparing protein molecular surface based on normal vectors with attributes and its application to function identification. Proceedings of the Joint Conference on Information Science (2002)
    • (2002) Proceedings of the Joint Conference on Information Science
    • Kaneta, Y.1
  • 9
    • 0036288284 scopus 로고    scopus 로고
    • Identification of protein functions from a molecular surface database, ef-site
    • Kinoshita K., Furui J., and Nakamura H. Identification of protein functions from a molecular surface database, ef-site. Struct. Funct. Genomics 2 1 (2002) 9-22
    • (2002) Struct. Funct. Genomics , vol.2 , Issue.1 , pp. 9-22
    • Kinoshita, K.1    Furui, J.2    Nakamura, H.3
  • 10
    • 0346494936 scopus 로고    scopus 로고
    • SURFACE: a database of protein surface regions for functional annotation
    • Ferrè F., et al. SURFACE: a database of protein surface regions for functional annotation. Nucl. Acid Res. 32 (2004) 240-244
    • (2004) Nucl. Acid Res. , vol.32 , pp. 240-244
    • Ferrè, F.1
  • 11
    • 24344500271 scopus 로고    scopus 로고
    • Finding patterns on protein surfaces: algorithms and applications to protein classification
    • Wang X. Finding patterns on protein surfaces: algorithms and applications to protein classification. IEEE Trans. Knowl. Data Eng. 17 8 (2005) 1065-1078
    • (2005) IEEE Trans. Knowl. Data Eng. , vol.17 , Issue.8 , pp. 1065-1078
    • Wang, X.1
  • 13
    • 0032146156 scopus 로고    scopus 로고
    • Deciphering cryptic similarities in protein binding sites
    • Kauvar L., and Villar H. Deciphering cryptic similarities in protein binding sites. Curr. Opin. Biotechnol. 9 4 (1998) 390-394
    • (1998) Curr. Opin. Biotechnol. , vol.9 , Issue.4 , pp. 390-394
    • Kauvar, L.1    Villar, H.2
  • 14
    • 0021107965 scopus 로고
    • Solvent-accessible surface of proteins and nucleic acids
    • Connolly M. Solvent-accessible surface of proteins and nucleic acids. Science 221 (1983) 709-713
    • (1983) Science , vol.221 , pp. 709-713
    • Connolly, M.1
  • 15
    • 2942708194 scopus 로고    scopus 로고
    • Surfcomp: a novel graph-based approach to molecular surface comparison
    • Hofbauer C., Lohninger H., and Aszódi A. Surfcomp: a novel graph-based approach to molecular surface comparison. Chem. Inf. Comput. Sci. 44 (2004) 837-847
    • (2004) Chem. Inf. Comput. Sci. , vol.44 , pp. 837-847
    • Hofbauer, C.1    Lohninger, H.2    Aszódi, A.3
  • 19
    • 0035336812 scopus 로고    scopus 로고
    • A developer's survey of polygonal simplification algorithms
    • Luebke D. A developer's survey of polygonal simplification algorithms. IEEE Comput. Graph. Appl. 21 3 (2001) 24-35
    • (2001) IEEE Comput. Graph. Appl. , vol.21 , Issue.3 , pp. 24-35
    • Luebke, D.1
  • 20
    • 0036794695 scopus 로고    scopus 로고
    • Polyhedral surface decomposition with applications
    • Zuckerberger E., Tal A., and Shlafman S. Polyhedral surface decomposition with applications. Comput. Graph. 26 5 (2002) 733-743
    • (2002) Comput. Graph. , vol.26 , Issue.5 , pp. 733-743
    • Zuckerberger, E.1    Tal, A.2    Shlafman, S.3
  • 21
    • 0033207260 scopus 로고    scopus 로고
    • Partitioning 3D surface meshes using watershed segmentation
    • Mangan A., and Whitaker R. Partitioning 3D surface meshes using watershed segmentation. IEEE Trans. Vis. Comput. Graph. 5 4 (1999) 308-321
    • (1999) IEEE Trans. Vis. Comput. Graph. , vol.5 , Issue.4 , pp. 308-321
    • Mangan, A.1    Whitaker, R.2
  • 22
    • 0031271697 scopus 로고    scopus 로고
    • 3D part segmentation using simulated electrical charge distributions
    • Wu K., and Levine M. 3D part segmentation using simulated electrical charge distributions. IEEE Trans. Pattern Anal. Mach. Intell. 19 11 (1997) 1223-1235
    • (1997) IEEE Trans. Pattern Anal. Mach. Intell. , vol.19 , Issue.11 , pp. 1223-1235
    • Wu, K.1    Levine, M.2
  • 24
    • 5444266636 scopus 로고    scopus 로고
    • Constant curvature region decomposition of 3D-mesh by a mixed approach vertex-triangle
    • Lavoué G., Dupont F., and Baskurt A. Constant curvature region decomposition of 3D-mesh by a mixed approach vertex-triangle. Proceedings of the WSCG (2004) 245-252
    • (2004) Proceedings of the WSCG , pp. 245-252
    • Lavoué, G.1    Dupont, F.2    Baskurt, A.3
  • 27
    • 0029881007 scopus 로고    scopus 로고
    • MOLMOL: a program for display and analysis of macromolecular structures
    • Koradi R., Billeter M., and Wüthrich K. MOLMOL: a program for display and analysis of macromolecular structures. Mol. Graph. 14 (1996) 51-55
    • (1996) Mol. Graph. , vol.14 , pp. 51-55
    • Koradi, R.1    Billeter, M.2    Wüthrich, K.3
  • 29
    • 84893405732 scopus 로고    scopus 로고
    • Data clustering: a review
    • Jain A.K., et al. Data clustering: a review. ACM Comput. Surv. 31 3 (1999) 264-323
    • (1999) ACM Comput. Surv. , vol.31 , Issue.3 , pp. 264-323
    • Jain, A.K.1
  • 31
    • 0029016182 scopus 로고
    • Classical electrostatics in biology and chemistry
    • Honig B., and Nicholls A. Classical electrostatics in biology and chemistry. Science 268 (1995) 1144-1149
    • (1995) Science , vol.268 , pp. 1144-1149
    • Honig, B.1    Nicholls, A.2
  • 32
    • 84986486656 scopus 로고
    • A rapid finite difference algorithm, utilizing successive over-relaxation to solve the Poisson-Boltzmann equation
    • Nicholls A., and Honig B. A rapid finite difference algorithm, utilizing successive over-relaxation to solve the Poisson-Boltzmann equation. J. Comput. Chem. 12 (1990) 435-445
    • (1990) J. Comput. Chem. , vol.12 , pp. 435-445
    • Nicholls, A.1    Honig, B.2
  • 33
    • 0020475449 scopus 로고
    • A simple method for displaying the hydropathic character of a protein
    • Kyte J., and Doolittle R. A simple method for displaying the hydropathic character of a protein. Mol. Biol. 157 1 (1982) 105-132
    • (1982) Mol. Biol. , vol.157 , Issue.1 , pp. 105-132
    • Kyte, J.1    Doolittle, R.2
  • 35
    • 0027185404 scopus 로고
    • A method to configure protein side-chains from the main-chain trace in homology modelling
    • Eisenmenger F., Argos P., and Abagyan R. A method to configure protein side-chains from the main-chain trace in homology modelling. Mol. Biol. 231 3 (1993) 849-860
    • (1993) Mol. Biol. , vol.231 , Issue.3 , pp. 849-860
    • Eisenmenger, F.1    Argos, P.2    Abagyan, R.3
  • 37
    • 0037246767 scopus 로고    scopus 로고
    • The CATH database: an extended protein family resource for structural and functional genomics
    • Pearl F., et al. The CATH database: an extended protein family resource for structural and functional genomics. Nucl. Acids Res. 31 1 (2003) 452-455
    • (2003) Nucl. Acids Res. , vol.31 , Issue.1 , pp. 452-455
    • Pearl, F.1
  • 38
    • 0027490731 scopus 로고
    • Recognition of errors in three-dimensional structures of proteins
    • Sippl M. Recognition of errors in three-dimensional structures of proteins. Proteins: Struct. Funct. Genet. 17 (1993) 355-362
    • (1993) Proteins: Struct. Funct. Genet. , vol.17 , pp. 355-362
    • Sippl, M.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.