-
1
-
-
0025988461
-
Automatic creation of drug candidate structures based on receptor structure. Starting point for artificial lead generation
-
Nishibata, Y.; Itai, A. Automatic creation of drug candidate structures based on receptor structure. Starting point for artificial lead generation. Tetrahedron 1991, 47, 8985-8990.
-
(1991)
Tetrahedron
, vol.47
, pp. 8985-8990
-
-
Nishibata, Y.1
Itai, A.2
-
2
-
-
0026813925
-
The computer program LUDI: A new method for the de novo design of enzyme inhibitors
-
Bohm, H. J. LUDI: The computer program LUDI: A new method for the de novo design of enzyme inhibitors. J. Comput.-Aided Mol. Des. 1992, 6, 61-78.
-
(1992)
J. Comput.-Aided Mol. Des
, vol.6
, pp. 61-78
-
-
Bohm, H.J.L.1
-
3
-
-
84879551717
-
-
Molecular Modeling System; Tripos Inc, St. Louis, MO
-
SYBYL 7.3, Molecular Modeling System; Tripos Inc.: St. Louis, MO, 63144-2913
-
SYBYL 7.3
, pp. 63144-62913
-
-
-
4
-
-
1842686769
-
De novo design and synthesis of HIV-1 integrase inhibitors
-
Makhija, M. T.; Kasliwal, R. T.; Kulkarni, V. M.; Neamati, N. De novo design and synthesis of HIV-1 integrase inhibitors. Bioorg. Med. Chem. 2004, 12, 2317-2333.
-
(2004)
Bioorg. Med. Chem
, vol.12
, pp. 2317-2333
-
-
Makhija, M.T.1
Kasliwal, R.T.2
Kulkarni, V.M.3
Neamati, N.4
-
5
-
-
0037777697
-
SYNOPSIS: SYNthesize and OPtimize System in Silico
-
Vinkers, H. M.; de Jonge, M. R.; Daeyaert, F. F. D.; Heeres, J.; Koymans, L. M. H.; van Lenthe, J. H.; Lewi, P. J.; Timmerman, H.; Aken, K. V.; Janssen, P. A. SYNOPSIS: SYNthesize and OPtimize System in Silico. J. Med. Chem. 2003, 46, 2765-2773.
-
(2003)
J. Med. Chem
, vol.46
, pp. 2765-2773
-
-
Vinkers, H.M.1
de Jonge, M.R.2
Daeyaert, F.F.D.3
Heeres, J.4
Koymans, L.M.H.5
van Lenthe, J.H.6
Lewi, P.J.7
Timmerman, H.8
Aken, K.V.9
Janssen, P.A.10
-
6
-
-
0032058905
-
RECAP - retrosynthetic combinatorial analysis procedure: A powerful new technique for identifying privileged molecular fragments with useful applications in combinatorial chemistry
-
Lewell, X. Q.; Judd, D. B.; Watson, S. P.; Hann, M. M. RECAP - retrosynthetic combinatorial analysis procedure: A powerful new technique for identifying privileged molecular fragments with useful applications in combinatorial chemistry. J. Chem. Inf. Comput. Sci. 1998, 38, 511-522.
-
(1998)
J. Chem. Inf. Comput. Sci
, vol.38
, pp. 511-522
-
-
Lewell, X.Q.1
Judd, D.B.2
Watson, S.P.3
Hann, M.M.4
-
7
-
-
85135598703
-
-
Cramer, R. D.; Soltanshahi, F.; Jilek, R.; Campbell, B. AllChem: Generating and searching 10(20) synthetically accessible structures. J. Comput.-Aided Mol. Des. 2007, 21 (6), 341-350.
-
Cramer, R. D.; Soltanshahi, F.; Jilek, R.; Campbell, B. AllChem: Generating and searching 10(20) synthetically accessible structures. J. Comput.-Aided Mol. Des. 2007, 21 (6), 341-350.
-
-
-
-
8
-
-
33749250361
-
Molecular complexity analysis of de novo designed ligands
-
Boda, K.; Johnson, A. P. Molecular complexity analysis of de novo designed ligands. J. Med. Chem. 2006, 49, 5869-5879.
-
(2006)
J. Med. Chem
, vol.49
, pp. 5869-5879
-
-
Boda, K.1
Johnson, A.P.2
-
9
-
-
3242688618
-
A validation study on the practical use of automated de novo design
-
Stahl, M.; Todorov, N. P.; James, T.; Mauser, H.; Boehm, H. J.; Dean, P. M. A validation study on the practical use of automated de novo design. J. Comput.-Aided Mol. Des. 2002, 16 (7), 459-478.
-
(2002)
J. Comput.-Aided Mol. Des
, vol.16
, Issue.7
, pp. 459-478
-
-
Stahl, M.1
Todorov, N.P.2
James, T.3
Mauser, H.4
Boehm, H.J.5
Dean, P.M.6
-
10
-
-
23844449940
-
Computer-based de novo design of drug-like molecules
-
Schneider, G.; Fechner, U. Computer-based de novo design of drug-like molecules. Nature Rev. 2005, 4, 649-663.
-
(2005)
Nature Rev
, vol.4
, pp. 649-663
-
-
Schneider, G.1
Fechner, U.2
-
11
-
-
0028297112
-
Application of the three-dimensional structures of protein target molecules in structure-based drug design
-
Greer, J;, Erickson, J. W.; Baldwin, J. J.; Varney, M. D. Application of the three-dimensional structures of protein target molecules in structure-based drug design. J. Med. Chem. 1994, 37, 1035-1054.
-
(1994)
J. Med. Chem
, vol.37
, pp. 1035-1054
-
-
Greer, J.1
Erickson, J.W.2
Baldwin, J.J.3
Varney, M.D.4
-
12
-
-
0034548887
-
Protein structure-based de novo design and synthesis of aldose reductase inhibitors
-
Iwata, Y.; Naito, S.; Itai, A.; Miyamoto, S. Protein structure-based de novo design and synthesis of aldose reductase inhibitors. Drug Des. Discovery 2001, 17, 349-359.
-
(2001)
Drug Des. Discovery
, vol.17
, pp. 349-359
-
-
Iwata, Y.1
Naito, S.2
Itai, A.3
Miyamoto, S.4
-
13
-
-
0041418274
-
Recent Advances in de novo design strategy for practical lead identification
-
Honma, T. Recent Advances in de novo design strategy for practical lead identification. Med. Res. Rev. 2003, 23, 606-632.
-
(2003)
Med. Res. Rev
, vol.23
, pp. 606-632
-
-
Honma, T.1
-
14
-
-
0043157766
-
Computer-aided design of a factor Xa inhibtor by using MCSS functionality maps and a CAVEAT linker search
-
Takano, Y.; Koizumi, M.; Takarada, R.; Takimoto, K.M.; Czerminski, R.; Koike, T. Computer-aided design of a factor Xa inhibtor by using MCSS functionality maps and a CAVEAT linker search. J. Mol. Graph. Model. 2003, 22 (2), 105-114
-
(2003)
J. Mol. Graph. Model
, vol.22
, Issue.2
, pp. 105-114
-
-
Takano, Y.1
Koizumi, M.2
Takarada, R.3
Takimoto, K.M.4
Czerminski, R.5
Koike, T.6
-
15
-
-
0037431396
-
De novo design, synthesis, and evaluation of novel nonsteroidal phenanthrene ligands for the estrogen receptor
-
Schmidt, J. M.; Mercure, J.; Tremblay, G. B.; Page, M.; Kalbakji, A.; Feher, M.; Dunn-Dufault, R.; Peter, M. G.; Redden, P. R. De novo design, synthesis, and evaluation of novel nonsteroidal phenanthrene ligands for the estrogen receptor. J. Med. Chem. 2003, 46, 1408-1418.
-
(2003)
J. Med. Chem
, vol.46
, pp. 1408-1418
-
-
Schmidt, J.M.1
Mercure, J.2
Tremblay, G.B.3
Page, M.4
Kalbakji, A.5
Feher, M.6
Dunn-Dufault, R.7
Peter, M.G.8
Redden, P.R.9
-
16
-
-
1642458726
-
Scaffold hopping in de novo design. Ligand generation in the absence of receptor information
-
Lloyd, D. G.; Buenemann, C. L.; Todorov, N. P.; Manallack, D. T.; Dean P. M. Scaffold hopping in de novo design. Ligand generation in the absence of receptor information. J. Med. Chem. 2004, 47, 494-496.
-
(2004)
J. Med. Chem
, vol.47
, pp. 494-496
-
-
Lloyd, D.G.1
Buenemann, C.L.2
Todorov, N.P.3
Manallack, D.T.4
Dean, P.M.5
-
17
-
-
16644376474
-
Evaluation and application of multiple scoring functions for a virtual screening experiment
-
Xing, L.; Hodgkin, E.; Liu, Q.; Sedlock, D. Evaluation and application of multiple scoring functions for a virtual screening experiment. J. Comput.-Aided Mol. Des. 2004, 18, 333-344.
-
(2004)
J. Comput.-Aided Mol. Des
, vol.18
, pp. 333-344
-
-
Xing, L.1
Hodgkin, E.2
Liu, Q.3
Sedlock, D.4
-
18
-
-
1942471391
-
Assessing scoring functions for Protein-Ligand Interactions
-
Ferrara, P.; Gohlke, H.; Price, D. J.; Klebe, G.; Brooks, III, C. L. Assessing scoring functions for Protein-Ligand Interactions. J. Med. Chem. 2004, 47, 3032-3047.
-
(2004)
J. Med. Chem
, vol.47
, pp. 3032-3047
-
-
Ferrara, P.1
Gohlke, H.2
Price, D.J.3
Klebe, G.4
Brooks III, C.L.5
-
19
-
-
0035966871
-
Detailed analysis of scoring functions for virtual screening
-
Stahl, M.; Rarey, M. Detailed analysis of scoring functions for virtual screening. J. Med. Chem. 2001, 44, 1035-1042.
-
(2001)
J. Med. Chem
, vol.44
, pp. 1035-1042
-
-
Stahl, M.1
Rarey, M.2
-
20
-
-
33646740651
-
Parameter estimation for scoring protein-ligand interactions using negative training data
-
Pham, T. A.: Jain, A. J. Parameter estimation for scoring protein-ligand interactions using negative training data. J. Med. Chem., 2006, 49, 5856-5868.
-
(2006)
J. Med. Chem
, vol.49
, pp. 5856-5868
-
-
Pham, T.A.1
Jain, A.J.2
-
21
-
-
4644235643
-
Virtual screening in lead discovery and optimization
-
Jain, A. N. Virtual screening in lead discovery and optimization. Curr. Opin. Drug Discovery Dev. 2004, 7, 396-403.
-
(2004)
Curr. Opin. Drug Discovery Dev
, vol.7
, pp. 396-403
-
-
Jain, A.N.1
-
22
-
-
0037434582
-
Fully automatic flexible molecular docking using a molecular similarity-based search engine
-
Jain, A. N. Surflex: Fully automatic flexible molecular docking using a molecular similarity-based search engine. J. Med. Chem., 2003, 46, 499-511.
-
(2003)
J. Med. Chem
, vol.46
, pp. 499-511
-
-
Jain, A.N.S.1
-
23
-
-
35848963094
-
-
Unpublished
-
Unpublished.
-
-
-
-
24
-
-
20144369541
-
Virtual screening for β-secretase (BACE1) inhibitors Reveals the importance of protonation states at asp32 and asp228
-
Polgar, T.; Keseru, G. M. Virtual screening for β-secretase (BACE1) inhibitors Reveals the importance of protonation states at asp32 and asp228. J. Med. Chem. 2005, 48, 3749-3755.
-
(2005)
J. Med. Chem
, vol.48
, pp. 3749-3755
-
-
Polgar, T.1
Keseru, G.M.2
-
25
-
-
0037103119
-
Successful virtual screening for novel inhibitors of human carbonic anhydrase: Strategy and experimental conformation
-
Gruneberg, S.; Stubbs, M. T.; Klebe, G. Successful virtual screening for novel inhibitors of human carbonic anhydrase: strategy and experimental conformation. 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
-
26
-
-
1842450527
-
Identification of compounds with nanomolar binding affinity for checkpoint kinase-1 using knowledge-based virtual screening
-
Lyne, P. D.; Kenny, P. W.; Cosgrove, D. A.; Deng, C.; Zabludoff, S.; Wendoloski, J. J.; Ashwell, S. Identification of compounds with nanomolar binding affinity for checkpoint kinase-1 using knowledge-based virtual screening. J. Med. Chem. 2004, 47, 1962-1968.
-
(2004)
J. Med. Chem
, vol.47
, pp. 1962-1968
-
-
Lyne, P.D.1
Kenny, P.W.2
Cosgrove, D.A.3
Deng, C.4
Zabludoff, S.5
Wendoloski, J.J.6
Ashwell, S.7
-
27
-
-
35848938223
-
-
MDL Information Systems, Inc., 14600 Catalina Street, San Leandro, CA 94577.
-
MDL Information Systems, Inc., 14600 Catalina Street, San Leandro, CA 94577.
-
-
-
-
28
-
-
33751204422
-
-
Erlanson, D. A. fragment-based lead discovery: A chemical update. Curr. Opin. Biotechnol. 2006, 17 (6), 643-652.
-
Erlanson, D. A. fragment-based lead discovery: A chemical update. Curr. Opin. Biotechnol. 2006, 17 (6), 643-652.
-
-
-
-
29
-
-
13844312649
-
ZINC - a free database of commercially available compounds for virtual screening
-
Irwin, J. J.; Shoichet, B. K. ZINC - a free database of commercially available compounds for virtual screening. J. Chem. Inf. Model. 2005, 45, 177-182.
-
(2005)
J. Chem. Inf. Model
, vol.45
, pp. 177-182
-
-
Irwin, J.J.1
Shoichet, B.K.2
-
30
-
-
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. Nucleic Acids Res. 2000, 28, 235-242.
-
(2000)
Nucleic Acids 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
-
31
-
-
18344395134
-
Inhibition of p38 MAP kinase by utilizing a novel allosteric binding site
-
Pargellis, C.; Tong, L.; Churchill, L.; Cirillo, P. F.; Gilmore, T.; Graham, A. G.; Grob, P. M.; Hickey, E. R.; Moss, N.; Pav, S., Regan, J. Inhibition of p38 MAP kinase by utilizing a novel allosteric binding site. Nat. Struct. Biol. 2002, 9 (4), 268-272.
-
(2002)
Nat. Struct. Biol
, vol.9
, Issue.4
, pp. 268-272
-
-
Pargellis, C.1
Tong, L.2
Churchill, L.3
Cirillo, P.F.4
Gilmore, T.5
Graham, A.G.6
Grob, P.M.7
Hickey, E.R.8
Moss, N.9
Pav, S.10
Regan, J.11
-
32
-
-
0030954172
-
Highly specific inhibitor of human p38 MAP kinase binds in the ATP pocket
-
Tong, L.; Pav, S.; White, D.; Rogers, S.; Crane, K.; Cywin, C. A. Highly specific inhibitor of human p38 MAP kinase binds in the ATP pocket. Nat. Struct. Biol. 1997, 4, 311-316.
-
(1997)
Nat. Struct. Biol
, vol.4
, pp. 311-316
-
-
Tong, L.1
Pav, S.2
White, D.3
Rogers, S.4
Crane, K.5
Cywin, C.A.6
|