메뉴 건너뛰기




Volumn 51, Issue 9, 2011, Pages 2090-2096

CSAR scoring challenge reveals the need for new concepts in estimating protein-ligand binding affinity

Author keywords

[No Author keywords available]

Indexed keywords

BINDING ENERGY; HYDROGEN BONDS; LIGANDS; MOLECULES; PROTEINS; SOFTWARE TESTING; VAN DER WAALS FORCES;

EID: 80053308905     PISSN: 15499596     EISSN: 1549960X     Source Type: Journal    
DOI: 10.1021/ci200034y     Document Type: Article
Times cited : (26)

References (21)
  • 1
    • 42649138533 scopus 로고    scopus 로고
    • Assessment of programs for ligand binding affinity prediction
    • DOI 10.1002/jcc.20893
    • Ryangguk, K.; Skolnick, J. Assessment of Programs for Ligand Binding Affinity Prediction J. Comput. Chem. 2008, 29, 1316-1331 (Pubitemid 351594477)
    • (2008) Journal of Computational Chemistry , vol.29 , Issue.8 , pp. 1316-1331
    • Kim, R.1    Skolnick, J.2
  • 3
    • 33947716119 scopus 로고    scopus 로고
    • Semiempirical Free Energy Force Field with Charge-Based Desolvation
    • Ruth, H.; Garrett, M.; Morris, A.; Olson, D.; Goodsell, A. Semiempirical Free Energy Force Field with Charge-Based Desolvation J. Comput. Chem. 2007, 28, 1145-1152
    • (2007) J. Comput. Chem. , vol.28 , pp. 1145-1152
    • Ruth, H.1    Garrett, M.2    Morris, A.3    Olson, D.4    Goodsell, A.5
  • 4
    • 33750124980 scopus 로고    scopus 로고
    • Extra precision glide: Docking and scoring incorporating a model of hydrophobic enclosure for protein-ligand complexes
    • DOI 10.1021/jm051256o
    • Friesner, R. A.; Banks, J. L.; Murphy, R. B.; Halgren, T. A.; Klicic, J. J.; Mainz, D. T.; Repasky, M. P.; Knoll, E. H.; Shelley, M.; Perry, J. K.; Shaw, D. E.; Francis, P.; Shenkin, P. S. Extra Precision Glide: Docking and Scoring Incorporating a Model of Hydrophobic Enclosure for Protein-Ligand Complexes J. Med. Chem. 2006, 49, 6177-6196 (Pubitemid 44595196)
    • (2006) Journal of Medicinal Chemistry , vol.49 , Issue.21 , pp. 6177-6196
    • Friesner, R.A.1    Murphy, R.B.2    Repasky, M.P.3    Frye, L.L.4    Greenwood, J.R.5    Halgren, T.A.6    Sanschagrin, P.C.7    Mainz, D.T.8
  • 5
    • 33749242403 scopus 로고    scopus 로고
    • PMF scoring revisited
    • DOI 10.1021/jm050038s
    • Muegge, I. PMF Scoring Revisited J. Med. Chem. 2006, 49, 5895-5902 (Pubitemid 44484936)
    • (2006) Journal of Medicinal Chemistry , vol.49 , Issue.20 , pp. 5895-5902
    • Muegge, I.1
  • 8
    • 80053318634 scopus 로고    scopus 로고
    • Community Structure-Activity Resource. (accessed May 20)
    • Community Structure-Activity Resource. http://www.csardock.org/ (accessed May 20, 2011).
    • (2011)
  • 11
    • 58149133913 scopus 로고    scopus 로고
    • Lead finder: An approach to improve accuracy of protein-ligand docking, binding energy estimation, and virtual screening
    • Stroganov, O. V.; Novikov, F. N.; Stroylov, V. S.; Kulkov, V.; Chilov, G. G. Lead finder: an approach to improve accuracy of protein-ligand docking, binding energy estimation, and virtual screening J. Chem. Inf. Model. 2008, 48, 2371-2385
    • (2008) J. Chem. Inf. Model. , vol.48 , pp. 2371-2385
    • Stroganov, O.V.1    Novikov, F.N.2    Stroylov, V.S.3    Kulkov, V.4    Chilov, G.G.5
  • 12
    • 0033012333 scopus 로고    scopus 로고
    • A self-consistent, microenvironment modulated screened Coulomb potential approximation to calculate pH-dependent electrostatic effects in proteins
    • Mehler, E. L.; Guarnieri, F. A Self-Consistent, Microenvironment Modulated Screened Coulomb Potential Approximation to Calculate pH-Dependent Electrostatic Effects in Proteins Biophys. J. 1999, 75, 3-22 (Pubitemid 29305207)
    • (1999) Biophysical Journal , vol.77 , Issue.1 , pp. 3-22
    • Mehler, E.L.1    Guarnieri, F.2
  • 13
    • 33644873904 scopus 로고    scopus 로고
    • AffinDB: A freely accessible database of affinities for protein-ligand complexes from the PDB
    • Block, P.; Sotriffer, C. A.; Dramburg, I.; Klebe, G. AffinDB: a freely accessible database of affinities for protein-ligand complexes from the PDB Nucleic Acids Res. 2006, 34, D522-D526
    • (2006) Nucleic Acids Res. , vol.34
    • Block, P.1    Sotriffer, C.A.2    Dramburg, I.3    Klebe, G.4
  • 14
  • 15
    • 2542530042 scopus 로고    scopus 로고
    • The PDBbind database: Collection of binding affinities for protein-ligand complexes with known three-dimensional structures
    • DOI 10.1021/jm030580l
    • Wang, R.; Fang, X.; Lu, Y.; Wang, S. The PDBbind Database: Collection of Binding Affinities for Protein-Ligand Complexes with Known Three-Dimensional Structures J. Med. Chem. 2004, 47, 2977-2980 (Pubitemid 38702694)
    • (2004) Journal of Medicinal Chemistry , vol.47 , Issue.12 , pp. 2977-2980
    • Wang, R.1    Fang, X.2    Lu, Y.3    Wang, S.4
  • 16
    • 62449156564 scopus 로고    scopus 로고
    • BindingDB: A web-accessible database of experimentally determined protein-ligand binding affinities
    • Liu, T.; Lin, Y.; Wen, X.; Jorrisen, R. N.; Gilson, M. K. BindingDB: a web-accessible database of experimentally determined protein-ligand binding affinities Nucleic Acids Res. 2006, 00, D1-D4
    • (2006) Nucleic Acids Res. , vol.0
    • Liu, T.1    Lin, Y.2    Wen, X.3    Jorrisen, R.N.4    Gilson, M.K.5
  • 17
    • 38449100181 scopus 로고    scopus 로고
    • Model Comparison and Occam's Razor
    • Cambridge University Press: Cambridge, UK
    • MacKay, D. J. C. Model Comparison and Occam's Razor. In Information Theory, Inference, and Learning Algorithms; Cambridge University Press: Cambridge, UK, 2003; pp 343-357.
    • (2003) Information Theory, Inference, and Learning Algorithms , pp. 343-357
    • MacKay, D.J.C.1
  • 18
    • 77953631827 scopus 로고    scopus 로고
    • A Medicinal Chemists Guide to Molecular Interactions
    • Bissantz, C.; Kuhn, B.; Stahl, M. A Medicinal Chemists Guide to Molecular Interactions J. Med. Chem. 2010, 53, 5061-5084
    • (2010) J. Med. Chem. , vol.53 , pp. 5061-5084
    • Bissantz, C.1    Kuhn, B.2    Stahl, M.3
  • 20
    • 33846108633 scopus 로고    scopus 로고
    • BindingDB: A web-accessible database of experimentally determined protein-ligand binding affinities
    • Liu, T.; Lin, Y.; Wen, X.; Jorrisen, R. N.; Gilson, M. K. BindingDB: a web-accessible database of experimentally determined protein-ligand binding affinities Nucleic Acids Res. 2006, 35, D198-D201
    • (2006) Nucleic Acids Res. , vol.35
    • Liu, T.1    Lin, Y.2    Wen, X.3    Jorrisen, R.N.4    Gilson, M.K.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.