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Volumn 48, Issue 17, 2005, Pages 5448-5465

Virtual screening of biogenic amine-binding G-protein coupled receptors: Comparative evaluation of protein- and ligand-based virtual screening protocols

Author keywords

[No Author keywords available]

Indexed keywords

1 (2 METHOXYPHENYL) 4 (4 PHTHALIMIDOBUTYL)PIPERAZINE; 1 [2 [4 (6 FLUORO 1,2 BENZISOXAZOL 3 YL) 1 PIPERIDYL]ETHYL] 3 PHENYL 2 IMIDAZOLINONE; 2 [2 (4 HYDROXYPHENYL)ETHYLAMINOMETHYL]TETRALONE; 2 [2 [4 (2 METHOXYPHENYL) 1 PIPERAZINYL]ETHYL] 4,4 DIMETHYL 1,3(2H,4H) ISOQUINOLINEDIONE; 5 CHLORO N [2 (2 CYCLOPROPYLMETHOXYPHENOXY)ETHYL] ALPHA,ALPHA DIMETHYL 1H INDOLE 3 ETHANAMINE; ALPHA (2,3 DIMETHOXYPHENYL) 1 [2 (4 FLUOROPHENYL)ETHYL] 4 PIPERIDINEMETHANOL; BIOGENIC AMINE; CHLORPROMAZINE; CLOZAPINE; CYCLAZOCINE; CYPROHEPTADINE; DOMPERIDONE; DOPAMINE 2 RECEPTOR BLOCKING AGENT; DOXAZOSIN; ETICLOPRIDE; FLUPENTIXOL; G PROTEIN COUPLED RECEPTOR; HALOPERIDOL; ILOPERIDONE; KETANSERIN; LIGAND; MIANSERIN; PROTEIN; RISPERIDONE; RITANSERIN; RMI 60947; SEROTONIN 2 ANTAGONIST; SPIPERONE; TAMSULOSIN; UNCLASSIFIED DRUG; UNINDEXED DRUG; WB 4104;

EID: 23944454816     PISSN: 00222623     EISSN: None     Source Type: Journal    
DOI: 10.1021/jm050090o     Document Type: Article
Times cited : (179)

References (88)
  • 2
    • 3242888975 scopus 로고    scopus 로고
    • Integrating virtual screening in lead discovery
    • Oprea, T. I.; Matter, H. Integrating virtual screening in lead discovery. Curr. Opin. Chem. Biol. 2004, 8, 349-358.
    • (2004) Curr. Opin. Chem. Biol. , vol.8 , pp. 349-358
    • Oprea, T.I.1    Matter, H.2
  • 3
    • 0032572816 scopus 로고    scopus 로고
    • A scoring scheme for discriminating between drugs and nondrugs
    • Sadowski, J.; Kubinyi, H. A scoring scheme for discriminating between drugs and nondrugs. J. Med. Chem. 1998, 41, 3325-3329.
    • (1998) J. Med. Chem. , vol.41 , pp. 3325-3329
    • Sadowski, J.1    Kubinyi, H.2
  • 4
    • 8544258061 scopus 로고    scopus 로고
    • Topological descriptors in drug design and modeling studies
    • Roy, K. Topological descriptors in drug design and modeling studies. Mol. Diversity 2004, 8, 321-323.
    • (2004) Mol. Diversity , vol.8 , pp. 321-323
    • Roy, K.1
  • 6
    • 0032149905 scopus 로고    scopus 로고
    • Feature trees: A new molecular similarity measure based on tree matching
    • Rarey, M.; Dixon, J. S. Feature trees: a new molecular similarity measure based on tree matching. J. Comput.-Aided Mol. Des. 1998, 12, 471-490.
    • (1998) J. Comput.-Aided Mol. Des. , vol.12 , pp. 471-490
    • Rarey, M.1    Dixon, J.S.2
  • 7
    • 0036904104 scopus 로고    scopus 로고
    • A virtual screening method for prediction of the HERG potassium channel liability of compound libraries
    • Roche, O.; Trube, G.; Zuegge, J.; Pflimlin, P.; Alanine, A.; Schneider, G. A virtual screening method for prediction of the HERG potassium channel liability of compound libraries. ChemBioChem 2002, 3, 455-459.
    • (2002) ChemBioChem , vol.3 , pp. 455-459
    • Roche, O.1    Trube, G.2    Zuegge, J.3    Pflimlin, P.4    Alanine, A.5    Schneider, G.6
  • 9
    • 0032488013 scopus 로고    scopus 로고
    • FLEXS: A method for fast flexible ligand superposition
    • Lemmen, C.; Lengauer, T.; Klebe, G. FLEXS: a method for fast flexible ligand superposition. J. Med. Chem. 1998, 41, 4502-4520.
    • (1998) J. Med. Chem. , vol.41 , pp. 4502-4520
    • Lemmen, C.1    Lengauer, T.2    Klebe, G.3
  • 10
    • 5644236834 scopus 로고    scopus 로고
    • Pharmacophore modeling and three-dimensional database searching for drug design using catalyst: Recent advances
    • Guner, O.; Clement, O.; Kurogi, Y. Pharmacophore modeling and three-dimensional database searching for drug design using catalyst: recent advances. Curr. Med. Chem. 2004, 11, 2991-3005.
    • (2004) Curr. Med. Chem. , vol.11 , pp. 2991-3005
    • Guner, O.1    Clement, O.2    Kurogi, Y.3
  • 11
    • 0036606483 scopus 로고    scopus 로고
    • Principles of docking: An overview of search algorithms and a guide to scoring functions
    • Halperin, I.; Ma, B.; Wolfson, H.; Nussinov, R. Principles of docking: an overview of search algorithms and a guide to scoring functions. Proteins 2002, 47, 409-443.
    • (2002) Proteins , vol.47 , pp. 409-443
    • Halperin, I.1    Ma, B.2    Wolfson, H.3    Nussinov, R.4
  • 12
    • 8844263008 scopus 로고    scopus 로고
    • Docking and scoring in virtual screening for drug discovery: Methods and applications
    • Kitchen, D. B.; Decornez, H.; Furr, J. R.; Bajorath, J. Docking and scoring in virtual screening for drug discovery: methods and applications. Nat. Rev. Drug Discovery. 2004, 3, 935-949.
    • (2004) Nat. Rev. Drug Discovery , vol.3 , pp. 935-949
    • Kitchen, D.B.1    Decornez, H.2    Furr, J.R.3    Bajorath, J.4
  • 13
    • 0036510961 scopus 로고    scopus 로고
    • Identification and mapping of small-molecule binding sites in proteins: Computational tools for structure-based drug design
    • Sotriffer, C.; Klebe, G. Identification and mapping of small-molecule binding sites in proteins: computational tools for structure-based drug design. Farmaco 2002, 57, 243-251.
    • (2002) Farmaco , vol.57 , pp. 243-251
    • Sotriffer, C.1    Klebe, G.2
  • 14
    • 3242884966 scopus 로고    scopus 로고
    • High-throughput docking as a source of novel drug leads
    • Alvarez, J. C. High-throughput docking as a source of novel drug leads. Curr. Opin. Chem. Biol. 2004, 8, 365-370.
    • (2004) Curr. Opin. Chem. Biol. , vol.8 , pp. 365-370
    • Alvarez, J.C.1
  • 15
    • 0345269288 scopus 로고    scopus 로고
    • Virtual screening for submicromolar leads of tRNA-guanine transglycosylase based on a new unexpected binding mode detected by crystal structure analysis
    • Brenk, R.; Naerum, L.; Gradler, U.; Gerber, H. D.; Garcia, G. A.; Reuter, K.; Stubbs, M. T.; Klebe, G. Virtual screening for submicromolar leads of tRNA-guanine transglycosylase based on a new unexpected binding mode detected by crystal structure analysis. J. Med. Chem. 2003, 46, 1133-1143.
    • (2003) J. Med. Chem. , vol.46 , pp. 1133-1143
    • Brenk, R.1    Naerum, L.2    Gradler, U.3    Gerber, H.D.4    Garcia, G.A.5    Reuter, K.6    Stubbs, M.T.7    Klebe, G.8
  • 16
    • 0037103119 scopus 로고    scopus 로고
    • Successful virtual screening for novel inhibitors of human carbonic anhydrase: Strategy and experimental confirmation
    • Gruneberg, S.; Stubbs, M. T.; Klebe, G. Successful virtual screening for novel inhibitors of human carbonic anhydrase: strategy and experimental confirmation. J. Med. Chem. 2002, 45, 3588-3602.
    • (2002) J. Med. Chem. , vol.45 , pp. 3588-3602
    • Gruneberg, S.1    Stubbs, M.T.2    Klebe, G.3
  • 17
    • 2542631937 scopus 로고    scopus 로고
    • Virtual screening for inhibitors of human aldose reductase
    • Kraemer, O.; Hazemann, I.; Podjarny, A. D.; Klebe, G. Virtual screening for inhibitors of human aldose reductase. Proteins 2004, 55, 814-823.
    • (2004) Proteins , vol.55 , pp. 814-823
    • Kraemer, O.1    Hazemann, I.2    Podjarny, A.D.3    Klebe, G.4
  • 18
    • 0036076470 scopus 로고    scopus 로고
    • Structure-based discovery of a novel, noncovalent inhibitor of AmpC beta-lactamase
    • Powers, R. A.; Morandi, F.; Shoichet, B. K. Structure-based discovery of a novel, noncovalent inhibitor of AmpC beta-lactamase. Structure (Cambridge, MA, U. S.) 2002, 10, 1013-1023.
    • (2002) Structure (Cambridge, MA, U. S.) , vol.10 , pp. 1013-1023
    • Powers, R.A.1    Morandi, F.2    Shoichet, B.K.3
  • 19
    • 0037493019 scopus 로고    scopus 로고
    • Structure-based inhibitor discovery against adenylyl cyclase toxins from pathogenic bacteria that cause anthrax and whooping cough
    • Soelaiman, S.; Wei, B. Q.; Bergson, P.; Lee, Y. S.; Shen, Y.; Mrksich, M.; Shoichet, B. K.; Tang, W. J. Structure-based inhibitor discovery against adenylyl cyclase toxins from pathogenic bacteria that cause anthrax and whooping cough. J. Biol. Chem. 2003, 278, 25990-25997.
    • (2003) J. Biol. Chem. , vol.278 , pp. 25990-25997
    • Soelaiman, S.1    Wei, B.Q.2    Bergson, P.3    Lee, Y.S.4    Shen, Y.5    Mrksich, M.6    Shoichet, B.K.7    Tang, W.J.8
  • 20
    • 0345099649 scopus 로고    scopus 로고
    • Structure-based discovery of potassium channel blockers from natural products: Virtual screening and electrophysiological assay testing
    • Liu, H.; Li, Y.; Song, M.; Tan, X.; Cheng, F.; Zheng, S.; Shen, J.; Luo, X.; Ji, R.; Yue, J.; Hu, G.; Jiang, H.; Chen, K. Structure-based discovery of potassium channel blockers from natural products: virtual screening and electrophysiological assay testing. Chem. Biol. 2003, 10, 1103-1113.
    • (2003) Chem. Biol. , vol.10 , pp. 1103-1113
    • Liu, H.1    Li, Y.2    Song, M.3    Tan, X.4    Cheng, F.5    Zheng, S.6    Shen, J.7    Luo, X.8    Ji, R.9    Yue, J.10    Hu, G.11    Jiang, H.12    Chen, K.13
  • 21
  • 22
    • 0037020329 scopus 로고    scopus 로고
    • Drug design strategies for targeting G-protein-coupled receptors
    • Klabunde, T.; Hessler, G. Drug design strategies for targeting G-protein-coupled receptors. ChemBioChem 2002, 3, 928-944.
    • (2002) ChemBioChem , vol.3 , pp. 928-944
    • Klabunde, T.1    Hessler, G.2
  • 23
    • 0037171726 scopus 로고    scopus 로고
    • Identification of nonpeptidic urotensin II receptor antagonists by virtual screening based on a pharmacophore model derived from structure-activity relationships and nuclear magnetic resonance studies on urotensin II
    • Flohr, S.; Kurz, M.; Kostenis, E.; Brkovich, A.; Fournier, A.; Klabunde, T. Identification of nonpeptidic urotensin II receptor antagonists by virtual screening based on a pharmacophore model derived from structure-activity relationships and nuclear magnetic resonance studies on urotensin II. J. Med. Chem. 2002, 45, 1799-1805.
    • (2002) J. Med. Chem. , vol.45 , pp. 1799-1805
    • Flohr, S.1    Kurz, M.2    Kostenis, E.3    Brkovich, A.4    Fournier, A.5    Klabunde, T.6
  • 24
    • 0033606951 scopus 로고    scopus 로고
    • Lead generation using pharmacophore mapping and three-dimensional database searching: Application to muscarinic M(3) receptor antagonists
    • Marriott, D. P.; Dougall, I. G.; Meghani, P.; Liu, Y. J.; Flower, D. R. Lead generation using pharmacophore mapping and three-dimensional database searching: application to muscarinic M(3) receptor antagonists. J. Med. Chem. 1999, 42, 3210-3216.
    • (1999) J. Med. Chem. , vol.42 , pp. 3210-3216
    • Marriott, D.P.1    Dougall, I.G.2    Meghani, P.3    Liu, Y.J.4    Flower, D.R.5
  • 28
    • 6044260116 scopus 로고    scopus 로고
    • Successful virtual screening for a submicromolar antagonist of the neurokinin-1 receptor based on a ligand-supported homology model
    • Evers, A.; Klebe, G. Successful virtual screening for a submicromolar antagonist of the neurokinin-1 receptor based on a ligand-supported homology model. J. Med. Chem. 2004, 47, 5381-5392.
    • (2004) J. Med. Chem. , vol.47 , pp. 5381-5392
    • Evers, A.1    Klebe, G.2
  • 29
    • 6044234752 scopus 로고    scopus 로고
    • Architecture of P2Y nucleotide receptors: Structural comparison based on sequence analysis, mutagenesis, and homology modeling
    • Costanzi, S.; Mamedova, L.; Gao, Z. G.; Jacobson, K. A. Architecture of P2Y nucleotide receptors: structural comparison based on sequence analysis, mutagenesis, and homology modeling. J. Med. Chem. 2004, 47, 5393-5404.
    • (2004) J. Med. Chem. , vol.47 , pp. 5393-5404
    • Costanzi, S.1    Mamedova, L.2    Gao, Z.G.3    Jacobson, K.A.4
  • 30
    • 12144291706 scopus 로고    scopus 로고
    • Molecular modelling studies on the ORL1-receptor and ORL1-agonists
    • Broer, B. M.; Gurrath, M.; Holtje, H. D. Molecular modelling studies on the ORL1-receptor and ORL1-agonists. J. Comput.-Aided Mol. Des. 2003, 17, 739-754.
    • (2003) J. Comput.-Aided Mol. Des. , vol.17 , pp. 739-754
    • Broer, B.M.1    Gurrath, M.2    Holtje, H.D.3
  • 31
    • 0141992805 scopus 로고    scopus 로고
    • Three-dimensional models for beta-adrenergic receptor complexes with agonists and antagonists
    • Furse, K. E.; Lybrand, T. P. Three-dimensional models for beta-adrenergic receptor complexes with agonists and antagonists. J. Med. Chem. 2003, 46, 4450-4462.
    • (2003) J. Med. Chem. , vol.46 , pp. 4450-4462
    • Furse, K.E.1    Lybrand, T.P.2
  • 32
    • 0038174898 scopus 로고    scopus 로고
    • A model of the human M2 muscarinic acetylcholine receptor
    • Johren, K.; Holtje, H. D. A model of the human M2 muscarinic acetylcholine receptor. J. Comput.-Aided Mol. Des. 2002, 16, 795-801.
    • (2002) J. Comput.-Aided Mol. Des. , vol.16 , pp. 795-801
    • Johren, K.1    Holtje, H.D.2
  • 33
    • 0034214399 scopus 로고    scopus 로고
    • Modeling of kappa-opioid receptor/agonists interactions using pharmacophore-based and docking simulations
    • Lavecchia, A.; Greco, G.; Novellino, E.; Vittorio, F.; Ronsisvalle, G. Modeling of kappa-opioid receptor/agonists interactions using pharmacophore-based and docking simulations. J. Med. Chem. 2000, 43, 2124-2134.
    • (2000) J. Med. Chem. , vol.43 , pp. 2124-2134
    • Lavecchia, A.1    Greco, G.2    Novellino, E.3    Vittorio, F.4    Ronsisvalle, G.5
  • 34
    • 2642548891 scopus 로고    scopus 로고
    • Binding site analysis of full-length alpha1α adrenergic receptor using homology modeling and molecular docking
    • Pedretti, A.; Elena, S. M.; Villa, L.; Vistoli, G. Binding site analysis of full-length alpha1α adrenergic receptor using homology modeling and molecular docking. Biochem. Biophys. Res. Commun. 2004, 319, 493-500.
    • (2004) Biochem. Biophys. Res. Commun. , vol.319 , pp. 493-500
    • Pedretti, A.1    Elena, S.M.2    Villa, L.3    Vistoli, G.4
  • 36
    • 0038119607 scopus 로고    scopus 로고
    • Homology model of the CB1 cannabinoid receptor: Sites critical for nonclassical cannabinoid agonist interaction
    • Shim, J. Y.; Welsh, W. J.; Hewlett, A. C. Homology model of the CB1 cannabinoid receptor: sites critical for nonclassical cannabinoid agonist interaction. Biopolymers 2003, 71, 169-189.
    • (2003) Biopolymers , vol.71 , pp. 169-189
    • Shim, J.Y.1    Welsh, W.J.2    Hewlett, A.C.3
  • 38
    • 0037235663 scopus 로고    scopus 로고
    • Protein-based virtual screening of chemical databases. II. Are homology models of G-protein coupled receptors suitable targets?
    • Bissantz, C.; Bernard, P.; Hibert, M.; Rognan, D. Protein-based virtual screening of chemical databases. II. Are homology models of G-protein coupled receptors suitable targets? Proteins 2003, 50, 5-25.
    • (2003) Proteins , vol.50 , pp. 5-25
    • Bissantz, C.1    Bernard, P.2    Hibert, M.3    Rognan, D.4
  • 39
    • 13944255377 scopus 로고    scopus 로고
    • Structure-based drug discovery using GPCR homology modeling: Successful virtual screening for antagonists of the alpha1A adrenergic receptor
    • Evers, A.; Klabunde, T. Structure-based drug discovery using GPCR homology modeling: successful virtual screening for antagonists of the alpha1A adrenergic receptor. J. Med. Chem. 2005, 48, 1088-1097.
    • (2005) J. Med. Chem. , vol.48 , pp. 1088-1097
    • Evers, A.1    Klabunde, T.2
  • 40
    • 0141992809 scopus 로고    scopus 로고
    • Molecular modeling of the three-dimensional structure of dopamine 3 (D3) subtype receptor: Discovery of novel and potent D3 ligands through a hybrid pharmacophore- And structure-based database searching approach
    • Varady, J.; Wu, X.; Fang, X.; Min, J.; Hu, Z.; Levant, B.; Wang, S. Molecular modeling of the three-dimensional structure of dopamine 3 (D3) subtype receptor: discovery of novel and potent D3 ligands through a hybrid pharmacophore- and structure-based database searching approach. J. Med. Chem. 2003, 46, 4377-4392.
    • (2003) J. Med. Chem. , vol.46 , pp. 4377-4392
    • Varady, J.1    Wu, X.2    Fang, X.3    Min, J.4    Hu, Z.5    Levant, B.6    Wang, S.7
  • 41
    • 0031307203 scopus 로고    scopus 로고
    • Evaluation of the CASP2 docking section
    • Dixon, J. S. Evaluation of the CASP2 docking section. Proteins 1997, Suppl. 1, 198-204.
    • (1997) Proteins , Issue.SUPPL. 1 , pp. 198-204
    • Dixon, J.S.1
  • 43
    • 0037763817 scopus 로고    scopus 로고
    • Comparative evaluation of 11 scoring functions for molecular docking
    • Wang, R.; Lu, Y.; Wang, S. Comparative evaluation of 11 scoring functions for molecular docking. J. Med. Chem. 2003, 46, 2287-2303.
    • (2003) J. Med. Chem. , vol.46 , pp. 2287-2303
    • Wang, R.1    Lu, Y.2    Wang, S.3
  • 44
    • 0031552362 scopus 로고    scopus 로고
    • Development and validation of a genetic algorithm for flexible docking
    • Jones, G.; Willett, P.; Glen, R. C.; Leach, A. R.; Taylor, R. Development and validation of a genetic algorithm for flexible docking. J. Mol. Biol. 1997, 267, 727-748.
    • (1997) J. Mol. Biol. , vol.267 , pp. 727-748
    • Jones, G.1    Willett, P.2    Glen, R.C.3    Leach, A.R.4    Taylor, R.5
  • 45
    • 0028854034 scopus 로고
    • Molecular recognition of receptor sites using a genetic algorithm with a description of desolvation
    • Jones, G.; Willett, P.; Glen, R. C. Molecular recognition of receptor sites using a genetic algorithm with a description of desolvation. J. Mol. Biol. 1995, 245, 43-53.
    • (1995) J. Mol. Biol. , vol.245 , pp. 43-53
    • Jones, G.1    Willett, P.2    Glen, R.C.3
  • 48
    • 0030599010 scopus 로고    scopus 로고
    • A fast flexible docking method using an incremental construction algorithm
    • Rarey, M.; Kramer, B.; Lengauer, T.; Klebe, G. A fast flexible docking method using an incremental construction algorithm. J. Mol. Biol. 1996, 261, 470-489.
    • (1996) J. Mol. Biol. , vol.261 , pp. 470-489
    • Rarey, M.1    Kramer, B.2    Lengauer, T.3    Klebe, G.4
  • 50
    • 0034680641 scopus 로고    scopus 로고
    • Virtual screening for bioactive molecules by evolutionary de novo design special thanks to Neil R. Taylor for his help in preparation of the manuscript
    • Schneider, G.; Clement-Chomienne, O.; Hilfiger, L.; Schneider, P.; Kirsch, S.; Bohm, H. J.; Neidhart, W. Virtual screening for bioactive molecules by evolutionary de novo design special thanks to Neil R. Taylor for his help in preparation of the manuscript. Angew. Chem., Int. Ed. 2000, 39, 4130-4133.
    • (2000) Angew. Chem., Int. Ed. , vol.39 , pp. 4130-4133
    • Schneider, G.1    Clement-Chomienne, O.2    Hilfiger, L.3    Schneider, P.4    Kirsch, S.5    Bohm, H.J.6    Neidhart, W.7
  • 51
    • 0033523672 scopus 로고    scopus 로고
    • "Scaffold-hopping" by topological pharmacophore search: A contribution to virtual screening
    • Schneider, G.; Neidhart, W.; Giller, T.; Schmid, G. "Scaffold- hopping" by topological pharmacophore search: a contribution to virtual screening. Angew. Chem., Int. Ed. 1999, 38, 2894-2896.
    • (1999) Angew. Chem., Int. Ed. , vol.38 , pp. 2894-2896
    • Schneider, G.1    Neidhart, W.2    Giller, T.3    Schmid, G.4
  • 52
    • 0000544849 scopus 로고
    • Similarity searching in REACCS. A new tool for the synthetic chemist
    • Grethe, G.; Moock, T. E. Similarity searching in REACCS. A new tool for the synthetic chemist. J. Chem. Inf. Comput. Sci. 1990, 30, 511-520.
    • (1990) J. Chem. Inf. Comput. Sci. , vol.30 , pp. 511-520
    • Grethe, G.1    Moock, T.E.2
  • 53
    • 0037204544 scopus 로고    scopus 로고
    • Prediction of drug solubility from structure
    • Jorgensen, W. L.; Duffy, E. M. Prediction of drug solubility from structure. Adv. Drug Delivery Rev. 2002, 54, 355-366.
    • (2002) Adv. Drug Delivery Rev. , vol.54 , pp. 355-366
    • Jorgensen, W.L.1    Duffy, E.M.2
  • 54
    • 0034608316 scopus 로고    scopus 로고
    • Prediction of drug solubility from Monte Carlo simulations
    • Jorgensen, W. L.; Duffy, E. M. Prediction of drug solubility from Monte Carlo simulations. Bioorg. Med. Chem. Lett. 2000, 10, 1155-1158.
    • (2000) Bioorg. Med. Chem. Lett. , vol.10 , pp. 1155-1158
    • Jorgensen, W.L.1    Duffy, E.M.2
  • 55
    • 0034322113 scopus 로고    scopus 로고
    • Classification of kinase inhibitors using BCUT descriptors
    • Pirard, B.; Pickett, S. D. Classification of kinase inhibitors using BCUT descriptors. J. Chem. Inf. Comput. Sci. 2000, 40, 1431-1440.
    • (2000) J. Chem. Inf. Comput. Sci. , vol.40 , pp. 1431-1440
    • Pirard, B.1    Pickett, S.D.2
  • 56
    • 0030943408 scopus 로고    scopus 로고
    • Selecting optimally diverse compounds from structure databases: A validation study of two-dimensional and three-dimensional molecular descriptors
    • Matter, H. Selecting optimally diverse compounds from structure databases: a validation study of two-dimensional and three-dimensional molecular descriptors. J. Med. Chem. 1997, 40, 1219-1229.
    • (1997) J. Med. Chem. , vol.40 , pp. 1219-1229
    • Matter, H.1
  • 57
    • 0038181300 scopus 로고    scopus 로고
    • Computational approaches towards the quantification of molecular diversity and design of compound libraries
    • Matter, H. Computational approaches towards the quantification of molecular diversity and design of compound libraries. EXS 2003, 125-156.
    • (2003) EXS , pp. 125-156
    • Matter, H.1
  • 58
    • 0033598416 scopus 로고    scopus 로고
    • Prospective identification of biologically active structures by topomer shape similarity searching
    • Cramer, R. D.; Poss, M. A.; Hermsmeier, M. A.; Caulfield, T. J.; Kowala, M. C.; Valentine, M. T. Prospective identification of biologically active structures by topomer shape similarity searching. J. Med. Chem. 1999, 42, 3919-3933.
    • (1999) J. Med. Chem. , vol.42 , pp. 3919-3933
    • Cramer, R.D.1    Poss, M.A.2    Hermsmeier, M.A.3    Caulfield, T.J.4    Kowala, M.C.5    Valentine, M.T.6
  • 59
    • 10244222365 scopus 로고    scopus 로고
    • Comparison of topological descriptors for similarity-based virtual screening using multiple bioactive reference structures
    • Hert, J.; Willett, P.; Wilton, D. J.; Acklin, P.; Azzaoui, K.; Jacoby, E.; Schuffenhauer, A. Comparison of topological descriptors for similarity-based virtual screening using multiple bioactive reference structures. Org. Biomol. Chem. 2004, 2, 3256-3266.
    • (2004) Org. Biomol. Chem. , vol.2 , pp. 3256-3266
    • Hert, J.1    Willett, P.2    Wilton, D.J.3    Acklin, P.4    Azzaoui, K.5    Jacoby, E.6    Schuffenhauer, A.7
  • 61
    • 0001696622 scopus 로고    scopus 로고
    • Similarity searching in files of three-dimensional chemical structures: Analysis of the BIOSTER database using two-dimensional fingerprints and molecular field descriptors
    • Schuffenhauer, A.; Gillet, V. J.; Willett, P. Similarity searching in files of three-dimensional chemical structures: analysis of the BIOSTER database using two-dimensional fingerprints and molecular field descriptors. J. Chem. Inf. Comput. Sci. 2000, 40, 295-307.
    • (2000) J. Chem. Inf. Comput. Sci. , vol.40 , pp. 295-307
    • Schuffenhauer, A.1    Gillet, V.J.2    Willett, P.3
  • 62
    • 0033606988 scopus 로고    scopus 로고
    • New 4-point pharmacophore method for molecular similarity and diversity applications: Overview of the method and applications, including a novel approach to the design of combinatorial libraries containing privileged substructures
    • Mason, J. S.; Morize, I.; Menard, P. R.; Cheney, D. L.; Hulme, C.; Labaudiniere, R. F. New 4-point pharmacophore method for molecular similarity and diversity applications: overview of the method and applications, including a novel approach to the design of combinatorial libraries containing privileged substructures. J. Med. Chem. 1999, 42, 3251-3264.
    • (1999) J. Med. Chem. , vol.42 , pp. 3251-3264
    • Mason, J.S.1    Morize, I.2    Menard, P.R.3    Cheney, D.L.4    Hulme, C.5    Labaudiniere, R.F.6
  • 63
    • 4043086954 scopus 로고    scopus 로고
    • Prediction of chemical carcinogenicity from molecular structure
    • Sun, H. Prediction of chemical carcinogenicity from molecular structure. J. Chem. Inf. Comput. Sci. 2004, 44, 1506-1514.
    • (2004) J. Chem. Inf. Comput. Sci. , vol.44 , pp. 1506-1514
    • Sun, H.1
  • 64
    • 11144354205 scopus 로고    scopus 로고
    • Application of predictive QSAR models to database mining: Identification and experimental validation of novel anticonvulsant compounds
    • Shen, M.; Beguin, C.; Golbraikh, A.; Stables, J. P.; Kohn, H.; Tropsha, A. Application of predictive QSAR models to database mining: identification and experimental validation of novel anticonvulsant compounds. J. Med. Chem. 2004, 47, 2356-2364.
    • (2004) J. Med. Chem. , vol.47 , pp. 2356-2364
    • Shen, M.1    Beguin, C.2    Golbraikh, A.3    Stables, J.P.4    Kohn, H.5    Tropsha, A.6
  • 65
    • 1542426098 scopus 로고    scopus 로고
    • 2D QSAR consensus prediction for high-throughput virtual screening. An application to COX-2 inhibition modeling and screening of the NCI database
    • Baurin, N.; Mozziconacci, J. C.; Arnoult, E.; Chavatte, P.; Marot, C.; Morin-Allory, L. 2D QSAR consensus prediction for high-throughput virtual screening. An application to COX-2 inhibition modeling and screening of the NCI database. J. Chem. Inf. Comput. Sci. 2004, 44, 276-285.
    • (2004) J. Chem. Inf. Comput. Sci. , vol.44 , pp. 276-285
    • Baurin, N.1    Mozziconacci, J.C.2    Arnoult, E.3    Chavatte, P.4    Marot, C.5    Morin-Allory, L.6
  • 66
    • 6044244849 scopus 로고    scopus 로고
    • A comparison of methods for modeling quantitative structure-activity relationships
    • Sutherland, J. J.; O'Brien, L. A.; Weaver, D. F. A comparison of methods for modeling quantitative structure-activity relationships. J. Med. Chem. 2004, 47, 5541-5554.
    • (2004) J. Med. Chem. , vol.47 , pp. 5541-5554
    • Sutherland, J.J.1    O'Brien, L.A.2    Weaver, D.F.3
  • 67
    • 0036904104 scopus 로고    scopus 로고
    • A virtual screening method for prediction of the HERG potassium channel liability of compound libraries
    • Roche, O.; Trube, G.; Zuegge, J.; Pflimlin, P.; Alanine, A.; Schneider, G. A virtual screening method for prediction of the HERG potassium channel liability of compound libraries. ChemBioChem 2002, 3, 455-459.
    • (2002) ChemBioChem , vol.3 , pp. 455-459
    • Roche, O.1    Trube, G.2    Zuegge, J.3    Pflimlin, P.4    Alanine, A.5    Schneider, G.6
  • 68
    • 0036169280 scopus 로고    scopus 로고
    • The binding site of aminergic G protein-coupled receptors: The transmembrane segments and second extracellular loop
    • Shi, L.; Javitch, J. A. The binding site of aminergic G protein-coupled receptors: the transmembrane segments and second extracellular loop. Annu. Rev. Pharmacol. Toxicol. 2002, 42, 437-467.
    • (2002) Annu. Rev. Pharmacol. Toxicol. , vol.42 , pp. 437-467
    • Shi, L.1    Javitch, J.A.2
  • 69
    • 0029807131 scopus 로고    scopus 로고
    • Phenylalanine in the second membrane-spanning domain of alpha 1A-adrenergic receptor determines subtype selectivity of dihydropyridine antagonists
    • Hamaguchi, N.; True, T. A.; Saussy, D. L., Jr.; Jeffs, P. W. Phenylalanine in the second membrane-spanning domain of alpha 1A-adrenergic receptor determines subtype selectivity of dihydropyridine antagonists. Biochemistry 1996, 35, 14312-14317.
    • (1996) Biochemistry , vol.35 , pp. 14312-14317
    • Hamaguchi, N.1    True, T.A.2    Saussy Jr., D.L.3    Jeffs, P.W.4
  • 70
    • 0032554655 scopus 로고    scopus 로고
    • Alpha 1-adrenergic receptor subtype determinants for 4-piperidyl oxazole antagonists
    • Hamaguchi, N.; True, T. A.; Goetz, A. S.; Stouffer, M. J.; Lybrand, T. P.; Jeffs, P. W. Alpha 1-adrenergic receptor subtype determinants for 4-piperidyl oxazole antagonists. Biochemistry 1998, 37, 5730-5737.
    • (1998) Biochemistry , vol.37 , pp. 5730-5737
    • Hamaguchi, N.1    True, T.A.2    Goetz, A.S.3    Stouffer, M.J.4    Lybrand, T.P.5    Jeffs, P.W.6
  • 71
    • 21044451732 scopus 로고    scopus 로고
    • GPCR anti-target modeling: Pharmacophore models for biogenic amine binding GPCRs to avoid GPCR-mediated side-effects
    • Klabunde, T.; Evers, A. GPCR anti-target modeling: pharmacophore models for biogenic amine binding GPCRs to avoid GPCR-mediated side-effects. ChemBioChem 2005, 6, 876-889.
    • (2005) ChemBioChem , vol.6 , pp. 876-889
    • Klabunde, T.1    Evers, A.2
  • 72
    • 10044263240 scopus 로고    scopus 로고
    • Similarity to molecules in the training set is a good discriminator for prediction accuracy in QSAR
    • Sheridan, R. P.; Feuston, B. P.; Maiorov, V. N.; Kearsley, S. K. Similarity to molecules in the training set is a good discriminator for prediction accuracy in QSAR. J. Chem. Inf. Comput. Sci. 2004, 44, 1912-1928.
    • (2004) J. Chem. Inf. Comput. Sci. , vol.44 , pp. 1912-1928
    • Sheridan, R.P.1    Feuston, B.P.2    Maiorov, V.N.3    Kearsley, S.K.4
  • 73
    • 0032190489 scopus 로고    scopus 로고
    • Screening a peptidyl database for potential ligands to proteins with side-chain flexibility
    • Schnecke, V.; Swanson, C. A.; Getzoff, E. D.; Tainer, J. A.; Kuhn, L. A. Screening a peptidyl database for potential ligands to proteins with side-chain flexibility. Proteins 1998, 33, 74-87.
    • (1998) Proteins , vol.33 , pp. 74-87
    • Schnecke, V.1    Swanson, C.A.2    Getzoff, E.D.3    Tainer, J.A.4    Kuhn, L.A.5
  • 74
    • 0033289634 scopus 로고    scopus 로고
    • Database screening for HIV protease ligands: The influence of binding-site conformation and representation on ligand selectivity
    • Schnecke, V.; Kuhn, L. A. Database screening for HIV protease ligands: the influence of binding-site conformation and representation on ligand selectivity. Proc. Int. Conf. Intell. Syst. Mol. Biol. 7th 1999, 242-251.
    • (1999) Proc. Int. Conf. Intell. Syst. Mol. Biol. 7th , pp. 242-251
    • Schnecke, V.1    Kuhn, L.A.2
  • 75
    • 0035025191 scopus 로고    scopus 로고
    • DOCK 4.0: Search strategies for automated molecular docking of flexible molecule databases
    • Ewing, T. J.; Makino, S.; Skillman, A. G.; Kuntz, I. D. DOCK 4.0: search strategies for automated molecular docking of flexible molecule databases. J. Comput.-Aided Mol. Des. 2001, 15, 411-428.
    • (2001) J. Comput.-Aided Mol. Des. , vol.15 , pp. 411-428
    • Ewing, T.J.1    Makino, S.2    Skillman, A.G.3    Kuntz, I.D.4
  • 76
    • 0038460858 scopus 로고    scopus 로고
    • Information decay in molecular docking screens against holo, apo, and modeled conformations of enzymes
    • McGovern, S. L.; Shoichet, B. K. Information decay in molecular docking screens against holo, apo, and modeled conformations of enzymes. J. Med. Chem. 2003, 46, 2895-2907.
    • (2003) J. Med. Chem. , vol.46 , pp. 2895-2907
    • McGovern, S.L.1    Shoichet, B.K.2
  • 78
    • 0029894013 scopus 로고    scopus 로고
    • The properties of known drugs. 1. Molecular frameworks
    • Bemis, G. W.; Murcko, M. A. The properties of known drugs. 1. Molecular frameworks. J. Med. Chem. 1996, 39, 2887-2893.
    • (1996) J. Med. Chem. , vol.39 , pp. 2887-2893
    • Bemis, G.W.1    Murcko, M.A.2
  • 79
    • 0242301182 scopus 로고    scopus 로고
    • Ligand-supported homology modelling of protein binding-sites using knowledge-based potentials
    • Evers, A.; Gohlke, H.; Klebe, G. Ligand-supported homology modelling of protein binding-sites using knowledge-based potentials. J. Mol. Biol. 2003, 334, 327-345.
    • (2003) J. Mol. Biol. , vol.334 , pp. 327-345
    • Evers, A.1    Gohlke, H.2    Klebe, G.3
  • 80
    • 12444278563 scopus 로고    scopus 로고
    • Analysis and optimization of structure-based virtual screening protocols. 2. Examination of docked ligand orientation sampling methodology: Mapping a pharmacophore for success
    • Good, A. C.; Cheney, D. L.; Sitkoff, D. F.; Tokarski, J. S.; Stouch, T. R.; Bassolino, D. A.; Krystek, S. R.; Li, Y.; Mason, J. S.; Perkins, T. D. Analysis and optimization of structure-based virtual screening protocols. 2. Examination of docked ligand orientation sampling methodology: mapping a pharmacophore for success. J. Mol. Graphics Modell. 2003, 22, 31-40.
    • (2003) J. Mol. Graphics Modell. , vol.22 , pp. 31-40
    • Good, A.C.1    Cheney, D.L.2    Sitkoff, D.F.3    Tokarski, J.S.4    Stouch, T.R.5    Bassolino, D.A.6    Krystek, S.R.7    Li, Y.8    Mason, J.S.9    Perkins, T.D.10
  • 81
    • 0034284367 scopus 로고    scopus 로고
    • Similarity-driven flexible ligand docking
    • Fradera, X.; Knegtel, R. M.; Mestres, J. Similarity-driven flexible ligand docking. Proteins 2000, 40, 623-636.
    • (2000) Proteins , vol.40 , pp. 623-636
    • Fradera, X.1    Knegtel, R.M.2    Mestres, J.3
  • 83
    • 0031226772 scopus 로고    scopus 로고
    • Empirical scoring functions: I. The development of a fast empirical scoring function to estimate the binding affinity of ligands in receptor complexes
    • Eldridge, M. D.; Murray, C. W.; Auton, T. R.; Paolini, G. V.; Mee, R. P. Empirical scoring functions: I. The development of a fast empirical scoring function to estimate the binding affinity of ligands in receptor complexes. J. Comput.-Aided Mol. Des. 1997, 11, 425-445.
    • (1997) J. Comput.-Aided Mol. Des. , vol.11 , pp. 425-445
    • Eldridge, M.D.1    Murray, C.W.2    Auton, T.R.3    Paolini, G.V.4    Mee, R.P.5
  • 84
    • 0033545622 scopus 로고    scopus 로고
    • A general and fast scoring function for protein-ligand interactions: A simplified potential approach
    • Muegge, I.; Martin, Y. C. A general and fast scoring function for protein-ligand interactions: a simplified potential approach. J. Med. Chem. 1999, 42, 791-804.
    • (1999) J. Med. Chem. , vol.42 , pp. 791-804
    • Muegge, I.1    Martin, Y.C.2
  • 85
    • 0034645763 scopus 로고    scopus 로고
    • Knowledge-based scoring function to predict protein-ligand interactions
    • Gohlke, H.; Hendlich, M.; Klebe, G. Knowledge-based scoring function to predict protein-ligand interactions. J. Mol. Biol. 2000, 295, 337-356.
    • (2000) J. Mol. Biol. , vol.295 , pp. 337-356
    • Gohlke, H.1    Hendlich, M.2    Klebe, G.3
  • 88
    • 0034727854 scopus 로고    scopus 로고
    • A potent, long-acting, orally active (2R)-2-[(1R)-3,3- difluorocyclopentyl]-2-hydroxy-2-phenylacetamide: Novel muscarinic M(3) receptor antagonist with high selectivity for M(3) over M(2) receptors
    • Mitsuya, M.; Kobayashi, K.; Kawakami, K.; Satoh, A.; Ogino, Y.; Kakikawa, T.; Ohtake, N.; Kimura, T.; Hirose, H.; Sato, A.; Numazawa, T.; Hasegawa, T.; Noguchi, K.; Mase, T. A potent, long-acting, orally active (2R)-2-[(1R)-3,3- difluorocyclopentyl]-2-hydroxy-2-phenylacetamide: novel muscarinic M(3) receptor antagonist with high selectivity for M(3) over M(2) receptors. J. Med. Chem. 2000, 43, 5017-5029.
    • (2000) J. Med. Chem. , vol.43 , pp. 5017-5029
    • Mitsuya, M.1    Kobayashi, K.2    Kawakami, K.3    Satoh, A.4    Ogino, Y.5    Kakikawa, T.6    Ohtake, N.7    Kimura, T.8    Hirose, H.9    Sato, A.10    Numazawa, T.11    Hasegawa, T.12    Noguchi, K.13    Mase, T.14


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