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Volumn 54, Issue 1, 2014, Pages 314-323

ALFA: Automatic ligand flexibility assignment

Author keywords

[No Author keywords available]

Indexed keywords

APPLICATION PROGRAMS; GRAPHICAL USER INTERFACES; ITERATIVE METHODS; MOLECULAR GRAPHICS; MOLECULES;

EID: 84893393300     PISSN: 15499596     EISSN: 1549960X     Source Type: Journal    
DOI: 10.1021/ci400453n     Document Type: Article
Times cited : (10)

References (23)
  • 1
    • 33746921247 scopus 로고    scopus 로고
    • Comparative performance assessment of the conformational model generators omega and catalyst: A large-scale survey on the retrieval of protein-bound ligand conformations
    • Kirchmair, J.; Wolber, G.; Laggner, C.; Langer, T. Comparative performance assessment of the conformational model generators omega and catalyst: a large-scale survey on the retrieval of protein-bound ligand conformations J. Chem. Inf. Model. 2006, 46, 1848-1861
    • (2006) J. Chem. Inf. Model. , vol.46 , pp. 1848-1861
    • Kirchmair, J.1    Wolber, G.2    Laggner, C.3    Langer, T.4
  • 4
    • 79955389305 scopus 로고    scopus 로고
    • Data-driven high-throughput prediction of the 3-D structure of small molecules: Review and progress
    • Andronico, A.; Randall, A.; Benz, R. W.; Baldi, P. Data-driven high-throughput prediction of the 3-D structure of small molecules: review and progress J. Chem. Inf. Model. 2011, 51, 760-776
    • (2011) J. Chem. Inf. Model. , vol.51 , pp. 760-776
    • Andronico, A.1    Randall, A.2    Benz, R.W.3    Baldi, P.4
  • 5
    • 79959768770 scopus 로고    scopus 로고
    • Using consensus-shape clustering to identify promiscuous ligands and protein targets and to choose the right query for shape-based virtual screening
    • Pérez-Nueno, V. I.; Ritchie, D. W. Using consensus-shape clustering to identify promiscuous ligands and protein targets and to choose the right query for shape-based virtual screening J. Chem. Inf. Model. 2011, 51, 1233-1248
    • (2011) J. Chem. Inf. Model. , vol.51 , pp. 1233-1248
    • Pérez-Nueno, V.I.1    Ritchie, D.W.2
  • 6
    • 84861498479 scopus 로고    scopus 로고
    • Freely Available Conformer Generation Methods: How Good Are They?
    • Ebejer, J. P.; Morris, G. M.; Deane, C. M. Freely Available Conformer Generation Methods: How Good Are They? J. Chem. Inf. Model. 2012, 52, 1146-1158
    • (2012) J. Chem. Inf. Model. , vol.52 , pp. 1146-1158
    • Ebejer, J.P.1    Morris, G.M.2    Deane, C.M.3
  • 9
    • 79954561773 scopus 로고    scopus 로고
    • First principles-based calculations of free energy of binding: Application to ligand binding in a self-assembling superstructure
    • Fox, S.; Wallnoefer, H. G.; Fox, T.; Tautermann, C. S.; Skylaris, C. K. First principles-based calculations of free energy of binding: application to ligand binding in a self-assembling superstructure J. Chem. Theory Comput. 2011, 7, 1102-1108
    • (2011) J. Chem. Theory Comput. , vol.7 , pp. 1102-1108
    • Fox, S.1    Wallnoefer, H.G.2    Fox, T.3    Tautermann, C.S.4    Skylaris, C.K.5
  • 10
    • 77951986384 scopus 로고    scopus 로고
    • Conformer generation with OMEGA: Algorithm and validation using high quality structures from the Protein Databank and Cambridge Structural Database
    • Hawkins, P. C. D.; Skillman, A. G.; Warren, G. L.; Ellingson, B. A.; Stahl, M. T. Conformer generation with OMEGA: algorithm and validation using high quality structures from the Protein Databank and Cambridge Structural Database J. Chem. Inf. Model. 2010, 50, 572-584
    • (2010) J. Chem. Inf. Model. , vol.50 , pp. 572-584
    • Hawkins, P.C.D.1    Skillman, A.G.2    Warren, G.L.3    Ellingson, B.A.4    Stahl, M.T.5
  • 11
    • 0028466540 scopus 로고
    • Comparison of Automatic Three-Dimensional Model Builders Using 639 X-ray Structures
    • Sadowski, J.; Gasteiger, J.; Klebe, G. Comparison of Automatic Three-Dimensional Model Builders Using 639 X-ray Structures J. Chem. Inf. Comput. Sci. 1994, 34, 1000-1008
    • (1994) J. Chem. Inf. Comput. Sci. , vol.34 , pp. 1000-1008
    • Sadowski, J.1    Gasteiger, J.2    Klebe, G.3
  • 14
    • 84893420974 scopus 로고    scopus 로고
    • version 1.7.2.4; OpenEye Scientific Software: Santa Fe.
    • OEChem, version 1.7.2.4; OpenEye Scientific Software: Santa Fe, 2012.
    • (2012) OEChem
  • 21
    • 77951986384 scopus 로고    scopus 로고
    • Conformer generation with OMEGA: Algorithm and validation using high quality structures from the Protein Databank and Cambridge Structural Database
    • Hawkins, P. C.; Skillman, A. G.; Warren, G. L.; Ellingson, B. A.; Stahl, M. T. Conformer generation with OMEGA: algorithm and validation using high quality structures from the Protein Databank and Cambridge Structural Database J. Chem. Inf. Model. 2010, 50, 572-584
    • (2010) J. Chem. Inf. Model. , vol.50 , pp. 572-584
    • Hawkins, P.C.1    Skillman, A.G.2    Warren, G.L.3    Ellingson, B.A.4    Stahl, M.T.5
  • 22
    • 84869987609 scopus 로고    scopus 로고
    • Conformer generation with OMEGA: Learning from the data set and the analysis of failures
    • Hawkins, P. C.; Nicholls, A. Conformer generation with OMEGA: learning from the data set and the analysis of failures J. Chem. Inf. Model. 2012, 52, 2919-2936
    • (2012) J. Chem. Inf. Model. , vol.52 , pp. 2919-2936
    • Hawkins, P.C.1    Nicholls, A.2
  • 23
    • 76149120388 scopus 로고    scopus 로고
    • AutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading
    • Trott, O.; Olson, A. J. AutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading J. Comput. Chem. 2010, 31, 455-461
    • (2010) J. Comput. Chem. , vol.31 , pp. 455-461
    • Trott, O.1    Olson, A.J.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.