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Volumn , Issue , 2010, Pages

Predicting protein-ligand binding site with support vector machine

Author keywords

[No Author keywords available]

Indexed keywords

DOCKING ALGORITHMS; GEOMETRIC METHOD; INTERACTION POTENTIALS; PREDICTION ALGORITHMS; PROTEIN-LIGAND BINDING SITES; SEQUENCE CONSERVATION; STRUCTURE-BASED DRUG DESIGN;

EID: 79959449600     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/CEC.2010.5586110     Document Type: Conference Paper
Times cited : (3)

References (19)
  • 1
    • 33749506205 scopus 로고    scopus 로고
    • Methods for the prediction of proteinligand binding sites for structure-based drug design and virtual ligand screening
    • Oct.
    • T.R. Alasdair and M. Richard, "Methods for the prediction of proteinligand binding sites for structure-based drug design and virtual ligand screening," Current Protein and Peptide Science, vol. 7, no. 5, pp. 395-406, Oct. 2006.
    • (2006) Current Protein and Peptide Science , vol.7 , Issue.5 , pp. 395-406
    • Alasdair, T.R.1    Richard, M.2
  • 3
    • 0032169688 scopus 로고    scopus 로고
    • PQS: A protein quaternary structure file server
    • Sep.
    • K. Henrick and J.M. Thornton, "PQS: a protein quaternary structure file server," Trends Biochem. Sci., vol. 23, no. 9, pp. 358-361, Sep. 1998.
    • (1998) Trends Biochem. Sci. , vol.23 , Issue.9 , pp. 358-361
    • Henrick, K.1    Thornton, J.M.2
  • 4
    • 33747150197 scopus 로고    scopus 로고
    • Protein binding site prediction using and empirical scoring function
    • S. Liang, C. Zhang, S. Liu and Y. Zhou, "Protein binding site prediction using and empirical scoring function," Nucleic Acids Research, vol. 34, pp. 3698-3707, 2006.
    • (2006) Nucleic Acids Research , vol.34 , pp. 3698-3707
    • Liang, S.1    Zhang, C.2    Liu, S.3    Zhou, Y.4
  • 5
    • 27644527039 scopus 로고    scopus 로고
    • Sequence variation in ligand binding sites in proteins
    • T.J. Magliery and L. Regan, "Sequence variation in ligand binding sites in proteins," BMC Bioinformatics, vol. 6, no. 240, 2005.
    • (2005) BMC Bioinformatics , vol.6 , Issue.240
    • Magliery, T.J.1    Regan, L.2
  • 6
    • 0027053611 scopus 로고
    • POCKET: A computer graphics method for identifying and displaying protein cavities and their surrounding amino acids
    • D. Levitt and L. Banaszak, "POCKET: a computer graphics method for identifying and displaying protein cavities and their surrounding amino acids," J. Mol. Graph, vol. 10, pp. 229-234, 1992.
    • (1992) J. Mol. Graph , vol.10 , pp. 229-234
    • Levitt, D.1    Banaszak, L.2
  • 7
    • 0031370977 scopus 로고    scopus 로고
    • LIGSITE: Automatic and efficient detection of potential small molecule-binding sites in proteins
    • M. Hendlich, F. Rippmann and G. Barnickel, "LIGSITE: automatic and efficient detection of potential small molecule-binding sites in proteins," J. Mol. Graph Model, vol. 15, no. 6, pp. 359-363, 1997.
    • (1997) J. Mol. Graph Model , vol.15 , Issue.6 , pp. 359-363
    • Hendlich, M.1    Rippmann, F.2    Barnickel, G.3
  • 8
    • 0028881975 scopus 로고
    • SURFNET: A program for visualizing molecular surfaces, cavities and intermolecular interactions
    • R. Laskowski, "SURFNET: a program for visualizing molecular surfaces, cavities and intermolecular interactions," J. Mol. Graph, vol. 13, pp. 323-330, 1995.
    • (1995) J. Mol. Graph , vol.13 , pp. 323-330
    • Laskowski, R.1
  • 9
    • 21044444449 scopus 로고    scopus 로고
    • Pocketome via comprehensive identification and classification of ligand binding envelopes
    • J. An, M. Totrov and R. Abagyan, "Pocketome via comprehensive identification and classification of ligand binding envelopes," Mol. Cell Prot., vol. 4, pp. 752-761, 2005.
    • (2005) Mol. Cell Prot. , vol.4 , pp. 752-761
    • An, J.1    Totrov, M.2    Abagyan, R.3
  • 10
    • 18744394070 scopus 로고    scopus 로고
    • Q-SiteFinder: An energy-based method for the prediction of protein-ligand binding sites
    • A. Laurie and R. Jackson, "Q-SiteFinder: an energy-based method for the prediction of protein-ligand binding sites," Bioinformatics, vol. 21, pp. 1908-1916, 2005.
    • (2005) Bioinformatics , vol.21 , pp. 1908-1916
    • Laurie, A.1    Jackson, R.2
  • 11
    • 33750029942 scopus 로고    scopus 로고
    • LIGSITEcsc: Predicting ligand binding sites using the Connolly surface and degree of conservation
    • B. Huang and M. Schroeder, "LIGSITEcsc: predicting ligand binding sites using the Connolly surface and degree of conservation," BMC Struct. Biol., vol. 6, no. 19, 2006.
    • (2006) BMC Struct. Biol. , vol.6 , Issue.19
    • Huang, B.1    Schroeder, M.2
  • 12
    • 74549149999 scopus 로고    scopus 로고
    • Predicting protein ligand binding sites by combining evolutionary sequence conservation and 3D structure
    • J.A. Capra, R.A. Laskowski, J.M. Thornton, M. Singh and T.A. Funkhouser, "Predicting protein ligand binding sites by combining evolutionary sequence conservation and 3D structure," PLoS Computational Biology, vol. 5, no. 12, 2009.
    • (2009) PLoS Computational Biology , vol.5 , Issue.12
    • Capra, J.A.1    Laskowski, R.A.2    Thornton, J.M.3    Singh, M.4    Funkhouser, T.A.5
  • 15
    • 33748505263 scopus 로고    scopus 로고
    • Incorporating background frequency improves entropy-based residue conservation measures
    • K. Wang and R. Samudrala, "Incorporating background frequency improves entropy-based residue conservation measures," BMC Bioinformatics, vol. 7, no. 385, 2006.
    • (2006) BMC Bioinformatics , vol.7 , Issue.385
    • Wang, K.1    Samudrala, R.2
  • 16
    • 34548133728 scopus 로고    scopus 로고
    • Predicting functionally important residues from sequence conservation
    • J.A. Capra and M. Singh, "Predicting functionally important residues from sequence conservation," Bioinformatics, vol. 23, pp. 1875-1882, 2007.
    • (2007) Bioinformatics , vol.23 , pp. 1875-1882
    • Capra, J.A.1    Singh, M.2
  • 17
    • 0042674397 scopus 로고    scopus 로고
    • Using a neural network and spatial clustering to predict the location of active sites in enzymes
    • A. Gutteridge, G.J. Bartlett and J.M. Thornton, "Using a neural network and spatial clustering to predict the location of active sites in enzymes," J. Mol. Biol., vol. 330, pp. 719-734, 2003.
    • (2003) J. Mol. Biol. , vol.330 , pp. 719-734
    • Gutteridge, A.1    Bartlett, G.J.2    Thornton, J.M.3
  • 18
    • 33746950964 scopus 로고    scopus 로고
    • Prediction of catalytic residues using support vector machines with selected protein sequence and structural properties
    • N.V. Petrova and C.H. Wu, "Prediction of catalytic residues using support vector machines with selected protein sequence and structural properties," BMC Bioinformatics, vol. 7, no. 312, 2006.
    • (2006) BMC Bioinformatics , vol.7 , Issue.312
    • Petrova, N.V.1    Wu, C.H.2
  • 19
    • 38549088882 scopus 로고    scopus 로고
    • LigASite: A database of biologically relevant binding sites in proteins with known apo-structures
    • B. Dessailly, M. Lensink, C. Orengo and S. Wodak, "LigASite: a database of biologically relevant binding sites in proteins with known apo-structures," Nucleic Acids Res., vol. 36, pp. 667-673, 2008.
    • (2008) Nucleic Acids Res. , vol.36 , pp. 667-673
    • Dessailly, B.1    Lensink, M.2    Orengo, C.3    Wodak, S.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.