-
2
-
-
0003615947
-
Virtual screening for bioactive molecules
-
Wiley-VCH, New York
-
Virtual screening for bioactive molecules, in: H.J. Böhm, G. Schneider (Eds.), Methods and Principles in Medicinal Chemistry, Wiley-VCH, New York, 2000, p. 10.
-
(2000)
Methods and Principles in Medicinal Chemistry
, pp. 10
-
-
Böhm, H.J.1
Schneider, G.2
-
4
-
-
0000681927
-
Pharmacophore-based molecular docking
-
O.F. Guner (Ed), International University line La Jolla, USA
-
B.E. Thomas, D. Joseph-McCarthy, J.C. Alvarez, Pharmacophore-based molecular docking, in: O.F. Guner (Ed), Pharmacophore Perception, Development, and Use in Drug Design, International University line La Jolla, USA, 2000, pp. 351-367.
-
(2000)
Pharmacophore Perception, Development, and Use in Drug Design
, pp. 351-367
-
-
Thomas, B.E.1
Joseph-McCarthy, D.2
Alvarez, J.C.3
-
5
-
-
6244283606
-
Critical evaluation of search algorithms for automated molecular docking and database screening
-
A Ewing T.J., Kuntz I.D. Critical evaluation of search algorithms for automated molecular docking and database screening. J. Comput. Chem. 18:1997;1175-1189.
-
(1997)
J. Comput. Chem.
, vol.18
, pp. 1175-1189
-
-
A Ewing, T.J.1
Kuntz, I.D.2
-
6
-
-
0001139413
-
Automated flexible ligand docking method and its application for database search
-
Makino S., Kuntz I.D. Automated flexible ligand docking method and its application for database search. J. Comput. Chem. 18:1997;1812-1825.
-
(1997)
J. Comput. Chem.
, vol.18
, pp. 1812-1825
-
-
Makino, S.1
Kuntz, I.D.2
-
7
-
-
0031965676
-
Flexible ligand docking using conformational ensembles
-
Lorber D.M., Shoichet B.K. Flexible ligand docking using conformational ensembles. Protein Sci. 6:1998;938-950.
-
(1998)
Protein Sci.
, vol.6
, pp. 938-950
-
-
Lorber, D.M.1
Shoichet, B.K.2
-
8
-
-
0030076041
-
Placement of medium-sized molecular fragments into active sites of proteins
-
Rarey M., Wefing S., Lengauer T. Placement of medium-sized molecular fragments into active sites of proteins. J. Comput. Aided Mol. Des. 10:1996;41-54.
-
(1996)
J. Comput. Aided Mol. Des.
, vol.10
, pp. 41-54
-
-
Rarey, M.1
Wefing, S.2
Lengauer, T.3
-
9
-
-
0031552362
-
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. 267:1997;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
-
10
-
-
0001750717
-
New approach to molecular docking and its application to virtual screening of chemical databases
-
Baxter C.A., Murray C.W., Waszkowycz B., Li J., Sykes R.A., Bone R.G.A., Perkins T.D.J., Wylie W. New approach to molecular docking and its application to virtual screening of chemical databases. J. Chem. Inf. Comput. Sci. 40:2000;254-262.
-
(2000)
J. Chem. Inf. Comput. Sci.
, vol.40
, pp. 254-262
-
-
Baxter, C.A.1
Murray, C.W.2
Waszkowycz, B.3
Li, J.4
Sykes, R.A.5
Bone, R.G.A.6
Perkins, T.D.J.7
Wylie, W.8
-
12
-
-
85031177524
-
-
Department of Pharmaceutical Chemistry, 512 Parnassus, University of California, San Francisco, CA 94143-0446, USA
-
DOCK, developed and distributed by the Kuntz group, Department of Pharmaceutical Chemistry, 512 Parnassus, University of California, San Francisco, CA 94143-0446, USA (URL: http://www.cmpharm.ucsf.edu/kuntz ).
-
DOCK, Developed and Distributed by the Kuntz Group
-
-
-
13
-
-
0033954256
-
The Protein Data Bank
-
Berman H.M., Westbrook J., Feng Z., Gilliland G., Bhat T.N., Weissig H., Shindyalov I.N., Bourne P.E. The Protein Data Bank. Nucl. Acid Res. 28:2000;235-242.
-
(2000)
Nucl. Acid Res.
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
Shindyalov, I.N.7
Bourne, P.E.8
-
14
-
-
0027697487
-
Comparison of conformations of small molecule structures from the Protein Data Bank with those generated by Concord, Cobra, ChemDBS-3D, and Converter and those extracted from the Cambridge Structural Database
-
Ricketts E.M., Bradshaw J., Hann M.M., Hayes F., Tanna N., Ricketts D.M. Comparison of conformations of small molecule structures from the Protein Data Bank with those generated by Concord, Cobra, ChemDBS-3D, and Converter and those extracted from the Cambridge Structural Database. J. Chem. Inf. Comput. Sci. 33:1993;905-925.
-
(1993)
J. Chem. Inf. Comput. Sci.
, vol.33
, pp. 905-925
-
-
Ricketts, E.M.1
Bradshaw, J.2
Hann, M.M.3
Hayes, F.4
Tanna, N.5
Ricketts, D.M.6
-
16
-
-
85031167332
-
-
1699 South Hanley Road, Suite 303, St Louis, MO 63144, USA
-
Sybyl, developed and distributed by Tripos Inc., 1699 South Hanley Road, Suite 303, St Louis, MO 63144, USA (URL: http://www.tripos.com ).
-
Sybyl, Developed and Distributed by Tripos Inc.
-
-
-
18
-
-
85031169448
-
-
9685 North Scanton Road, San Diego, CA 92121, USA
-
CONFIRM, part of the CATALYST 3D (version 3.9) database searching and Pharmacophore hypothesis software, developed and distributed by Accelrys, 9685 North Scanton Road, San Diego, CA 92121, USA (URL: http://www.accelrys.com ).
-
CONFIRM, Part of the CATALYST 3D (Version 3.9) Database Searching and Pharmacophore Hypothesis Software, Developed and Distributed by Accelrys
-
-
-
19
-
-
12444310606
-
CONFORT: A rational conformation analysis tool
-
COMP-011 (Abstract Paper)
-
R. Balducci, R.S. Pearlman, CONFORT: A rational conformation analysis tool. Am. Chem. Soc. 217 (1999) COMP-011 (Abstract Paper).
-
(1999)
Am. Chem. Soc.
, vol.217
-
-
Balducci, R.1
Pearlman, R.S.2
-
22
-
-
0037571112
-
Merck molecular force field. Part I: Basis, form, scope, parameterization, and performance of MMFF94
-
Halgren T.A. Merck molecular force field. Part I: Basis, form, scope, parameterization, and performance of MMFF94. J. Comput. Chem. 17:1996;490-519.
-
(1996)
J. Comput. Chem.
, vol.17
, pp. 490-519
-
-
Halgren, T.A.1
-
23
-
-
33645941402
-
The OPLS [optimized potentials for liquid simulations] potential functions for proteins
-
Jorgensen W.L., Tirado-Rives J. The OPLS [optimized potentials for liquid simulations] potential functions for proteins. J. Am. Chem. Soc. 110:1988;1657-1666.
-
(1988)
J. Am. Chem. Soc.
, vol.110
, pp. 1657-1666
-
-
Jorgensen, W.L.1
Tirado-Rives, J.2
-
24
-
-
0021757436
-
A new force field for molecular mechanical simulation of nucleic acids and proteins
-
Weiner S.J., Kollman P.A., Case A.D., Singh U.C., Ghio C., Alagona G., Profeta S. Jr., Weiner P. A new force field for molecular mechanical simulation of nucleic acids and proteins. J. Am. Chem. Soc. 106:1984;765-784.
-
(1984)
J. Am. Chem. Soc.
, vol.106
, pp. 765-784
-
-
Weiner, S.J.1
Kollman, P.A.2
Case, A.D.3
Singh, U.C.4
Ghio, C.5
Alagona, G.6
Profeta S., Jr.7
Weiner, P.8
-
25
-
-
0024821263
-
Molecular mechanics: The MM3 force field for hydrocarbons. Part 1
-
(Schrödinger implementation differs from the original by use of a Coulomb's law treatment of electrostatics and torsional barrier treatment of conjugation)
-
Allinger N.L., Yuh Y.H., Lii J.H. Molecular mechanics: the MM3 force field for hydrocarbons. Part 1. J. Am. Chem. Soc. 111:1989;8551-8566. (Schrödinger implementation differs from the original by use of a Coulomb's law treatment of electrostatics and torsional barrier treatment of conjugation).
-
(1989)
J. Am. Chem. Soc.
, vol.111
, pp. 8551-8566
-
-
Allinger, N.L.1
Yuh, Y.H.2
Lii, J.H.3
-
26
-
-
0005979973
-
Conformational energies of protein-bound ligands
-
T. Liljefors, J. Bostrom, P.-O. Norrby, Conformational energies of protein-bound ligands, vol. 42, in: Proceedings of the Alfred Benzon Symposium on Rational Molecular Design in Drug Research, 1998, pp. 246-263.
-
(1998)
Proceedings of the Alfred Benzon Symposium on Rational Molecular Design in Drug Research
, vol.42
, pp. 246-263
-
-
Liljefors, T.1
Bostrom, J.2
Norrby, P.-O.3
-
27
-
-
85031172676
-
Validation study of conformer generators using PDB ligand structures
-
CINF-087 (Abstract Paper)
-
D.H. Robertson, M. Jalaie, D.J. Cummins, M. Vieth, Validation study of conformer generators using PDB ligand structures, Am. Chem. Soc. 221 (2001) CINF-087 (Abstract Paper).
-
(2001)
Am. Chem. Soc.
, vol.221
-
-
Robertson, D.H.1
Jalaie, M.2
Cummins, D.J.3
Vieth, M.4
-
28
-
-
0035555863
-
Reproducing the conformations of protein-bound ligands: A critical evaluation of several popular conformational searching tools
-
Bostrom J. Reproducing the conformations of protein-bound ligands: a critical evaluation of several popular conformational searching tools. J. Comput. Aided Mol. Des. 15:2001;1137-1152.
-
(2001)
J. Comput. Aided Mol. Des.
, vol.15
, pp. 1137-1152
-
-
Bostrom, J.1
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