-
1
-
-
0033974667
-
Accommodating protein flexibility in computational drug design
-
H. Carlson, J. McCammon, Accommodating protein flexibility in computational drug design, Mol. Pharmacol. 57 (2000) 213-218.
-
(2000)
Mol. Pharmacol.
, vol.57
, pp. 213-218
-
-
Carlson, H.1
McCammon, J.2
-
2
-
-
0001105311
-
Method for including the dynamic fluctuations of a protein in computer-aided drug design
-
H. Carlson, K. Masukawa, J. McCammon, Method for including the dynamic fluctuations of a protein in computer-aided drug design, J. Phys. Chem. A 103 (1999) 10213-10219.
-
(1999)
J. Phys. Chem. A
, vol.103
, pp. 10213-10219
-
-
Carlson, H.1
Masukawa, K.2
McCammon, J.3
-
3
-
-
0028693767
-
Prediction of the binding sites of huperizine A in acetylcholinesterase by docking studies
-
Y.-P. Pang, A. Kozikowski, Prediction of the binding sites of huperizine A in acetylcholinesterase by docking studies, J. Comput. Aided Mol. Des. 8 (1994) 669-681.
-
(1994)
J. Comput. Aided Mol. Des.
, vol.8
, pp. 669-681
-
-
Pang, Y.-P.1
Kozikowski, A.2
-
4
-
-
0031581852
-
Molecular docking to ensembles of protein structures
-
R. Knegtel, I. Kuntz, C. Oshiro, Molecular docking to ensembles of protein structures, J. Mol. Biol. 266 (1997) 424-440.
-
(1997)
J. Mol. Biol.
, vol.266
, pp. 424-440
-
-
Knegtel, R.1
Kuntz, I.2
Oshiro, C.3
-
5
-
-
0030111106
-
Molcular docking towards drug discovery
-
D. Gschwend, A. Good, I. Kuntz, Molcular docking towards drug discovery, J. Mol. Rec. 9 (1996) 175-186.
-
(1996)
J. Mol. Rec.
, vol.9
, pp. 175-186
-
-
Gschwend, D.1
Good, A.2
Kuntz, I.3
-
6
-
-
0032190489
-
Screening a peptidyl database for potential ligands to proteins with side-chain flexibility
-
V. Schnecke, C. Swanson, E. Getzoff, J. Tainer, L. Kuhn, Screening a peptidyl database for potential ligands to proteins with side-chain flexibility, Proteins 33 (1998) 74-87.
-
(1998)
Proteins
, vol.33
, pp. 74-87
-
-
Schnecke, V.1
Swanson, C.2
Getzoff, E.3
Tainer, J.4
Kuhn, L.5
-
7
-
-
0031717170
-
Predicting structural effects in HIV-1 protease mutant complexes with flexible ligand docking and protein side chain optimization
-
L. Schaffer, G. Verkhivker, Predicting structural effects in HIV-1 protease mutant complexes with flexible ligand docking and protein side chain optimization, Proteins 33 (1998) 295-310.
-
(1998)
Proteins
, vol.33
, pp. 295-310
-
-
Schaffer, L.1
Verkhivker, G.2
-
8
-
-
0028158936
-
Ligand docking to proteins with discrete side-chain flexibility
-
A. Leach, Ligand docking to proteins with discrete side-chain flexibility, J. Mol. Biol. 235 (1994) 345-356.
-
(1994)
J. Mol. Biol.
, vol.235
, pp. 345-356
-
-
Leach, A.1
-
9
-
-
0031592919
-
Flexible docking of a ligand peptide to a receptor protein by multicanonical molecular dynamics simulation
-
N. Nakajima, J. Higo, A. Kidera, H. Nakamura, Flexible docking of a ligand peptide to a receptor protein by multicanonical molecular dynamics simulation, Chem. Phys. Lett. 278 (1997) 297-301.
-
(1997)
Chem. Phys. Lett.
, vol.278
, pp. 297-301
-
-
Nakajima, N.1
Higo, J.2
Kidera, A.3
Nakamura, H.4
-
10
-
-
0025997350
-
ICI D1694, a quinazoline antifolate thymidylate synthase inhibitor that is a potent inhibitor of L1210 tumor cell growth in vitro and in vivo: A new agent for clinical study
-
A. Jackman, G. Taylor, W. Gibson, R. Kimbell, M. Brown, A. Calvert, I. Judson, L. Hughes, ICI D1694, a quinazoline antifolate thymidylate synthase inhibitor that is a potent inhibitor of L1210 tumor cell growth in vitro and in vivo: a new agent for clinical study, Cancer Res. 51 (1991) 5579-5586.
-
(1991)
Cancer Res.
, vol.51
, pp. 5579-5586
-
-
Jackman, A.1
Taylor, G.2
Gibson, W.3
Kimbell, R.4
Brown, M.5
Calvert, A.6
Judson, I.7
Hughes, L.8
-
11
-
-
0019368721
-
A potent antitumor quinazoline inhibitor of thymidylate synthetase: Synthesis, biological properties, and therapeutic results in mice
-
T. Jones, A. Calvert, A. Jackman, S. Brown, M. Jones, K. Harrap, A potent antitumor quinazoline inhibitor of thymidylate synthetase: synthesis, biological properties, and therapeutic results in mice, Eur. J. Cancer 17 (1981) 11-19.
-
(1981)
Eur. J. Cancer
, vol.17
, pp. 11-19
-
-
Jones, T.1
Calvert, A.2
Jackman, A.3
Brown, S.4
Jones, M.5
Harrap, K.6
-
12
-
-
0029804033
-
2-Amino-4-oxo-5-substituted-pyrrole[2,3-d]pyrimidines as non-classical antifolate inhibitors of thymidylate synthase
-
A. Gangjee, F. Mavandadi, R. Kisliuk, J. McGuire, S. Queener, 2-Amino-4-oxo-5-substituted-pyrrole[2,3-d]pyrimidines as non-classical antifolate inhibitors of thymidylate synthase, J. Med. Chem. 39 (1996) 4563-4568.
-
(1996)
J. Med. Chem.
, vol.39
, pp. 4563-4568
-
-
Gangjee, A.1
Mavandadi, F.2
Kisliuk, R.3
McGuire, J.4
Queener, S.5
-
13
-
-
0026554077
-
Crystal structure-based drug design and synthesis of benz[cd]indole-containing inhibitors of thymidylate synthase
-
M. Varney, G. Marzoni, C. Palmer, J. Deal, S. Webber, K. Welsh, R. Bacquet, C. Bartlett, C. Morse, C. Booth, S. Herrmann, E. Howland, R. Ward, J. White, Crystal structure-based drug design and synthesis of benz[cd]indole-containing inhibitors of thymidylate synthase, J. Med. Chem. 35 (1992) 663-676.
-
(1992)
J. Med. Chem.
, vol.35
, pp. 663-676
-
-
Varney, M.1
Marzoni, G.2
Palmer, C.3
Deal, J.4
Webber, S.5
Welsh, K.6
Bacquet, R.7
Bartlett, C.8
Morse, C.9
Booth, C.10
Herrmann, S.11
Howland, E.12
Ward, R.13
White, J.14
-
14
-
-
0027477992
-
Biochemical and cellular pharmacology of 1843U89, a novel benzoquinazoline inhibitor of thymidylate synthase
-
I. Duch, S. Banks, I. Dev, S. Dickerson, R. Ferone, L. Heath, J. Humphreys, V. Knick, W. Pendergast, S. Singer, G. Smith, K. Waters, H. Wilson, Biochemical and cellular pharmacology of 1843U89, a novel benzoquinazoline inhibitor of thymidylate synthase, Cancer Res. 53 (1993) 810-818.
-
(1993)
Cancer Res.
, vol.53
, pp. 810-818
-
-
Duch, I.1
Banks, S.2
Dev, I.3
Dickerson, S.4
Ferone, R.5
Heath, L.6
Humphreys, J.7
Knick, V.8
Pendergast, W.9
Singer, S.10
Smith, G.11
Waters, K.12
Wilson, H.13
-
15
-
-
0034737311
-
The crystal structure of thymidylate synthase from Pneumocystis carinii reveals a fungal insert important for drug design
-
A. Anderson, K. Perry, D. Freymann, R. Stroud, The crystal structure of thymidylate synthase from Pneumocystis carinii reveals a fungal insert important for drug design, J. Mol. Biol. 297 (2000) 645-657.
-
(2000)
J. Mol. Biol.
, vol.297
, pp. 645-657
-
-
Anderson, A.1
Perry, K.2
Freymann, D.3
Stroud, R.4
-
16
-
-
0027138169
-
2-Thio derivatives of dUrd and 5-fluoro-dUrd and their 5′-monophosphates: Synthesis, interaction with tumor thymidylate synthase, and in vitro anti-tumor activity
-
M. Bretner, T. Kulikowski, J. Dzik, M. Balinska, W. Rode, D. Shugar, 2-Thio derivatives of dUrd and 5-fluoro-dUrd and their 5′-monophosphates: synthesis, interaction with tumor thymidylate synthase, and in vitro anti-tumor activity, J. Med. Chem. 36 (1993) 3611-3617.
-
(1993)
J. Med. Chem.
, vol.36
, pp. 3611-3617
-
-
Bretner, M.1
Kulikowski, T.2
Dzik, J.3
Balinska, M.4
Rode, W.5
Shugar, D.6
-
17
-
-
0021015054
-
Biochemical effects of a quinazoline inhibitor of thymidylate synthase, CB3717, on human lymphoblastoid cells
-
R. Jackson, A. Jackman, H. Calvert, Biochemical effects of a quinazoline inhibitor of thymidylate synthase, CB3717, on human lymphoblastoid cells, Biochem. Pharmacol. 32 (1983) 3783-3790.
-
(1983)
Biochem. Pharmacol.
, vol.32
, pp. 3783-3790
-
-
Jackson, R.1
Jackman, A.2
Calvert, H.3
-
18
-
-
0027517619
-
Benzoquinazoline inhibitors of thymidylate synthase: Enzyme inhibitory activity and cytotoxicity of some sulfonamidobenzolylglutamate and related derivatives
-
W. Pendergast, S. Dickerson, J. Johnson, I. Dev, R. Ferone, D. Duch, G. Smith, Benzoquinazoline inhibitors of thymidylate synthase: enzyme inhibitory activity and cytotoxicity of some sulfonamidobenzolylglutamate and related derivatives, J. Med. Chem. 36 (1993) 3464-3471.
-
(1993)
J. Med. Chem.
, vol.36
, pp. 3464-3471
-
-
Pendergast, W.1
Dickerson, S.2
Johnson, J.3
Dev, I.4
Ferone, R.5
Duch, D.6
Smith, G.7
-
19
-
-
0027522358
-
Structure-based discovery of inhibitors of thymidylate synthase
-
B. Shoichet, R. Stroud, D. Santi, I. Kuntz, K. Perry, Structure-based discovery of inhibitors of thymidylate synthase, Science 259 (1993) 1445-1450.
-
(1993)
Science
, vol.259
, pp. 1445-1450
-
-
Shoichet, B.1
Stroud, R.2
Santi, D.3
Kuntz, I.4
Perry, K.5
-
20
-
-
0033514283
-
Structure-based design of inhibitors specific for bacterial thymidylate synthase
-
T. Stout, D. Tondi, M. Rinaldi, D. Barlocco, P. Pecorari, D. Santi, I. Kuntz, R. Stroud, B. Shoichet, P. Costi, Structure-based design of inhibitors specific for bacterial thymidylate synthase, Biochemistry 38 (1999) 1607-1617.
-
(1999)
Biochemistry
, vol.38
, pp. 1607-1617
-
-
Stout, T.1
Tondi, D.2
Rinaldi, M.3
Barlocco, D.4
Pecorari, P.5
Santi, D.6
Kuntz, I.7
Stroud, R.8
Shoichet, B.9
Costi, P.10
-
21
-
-
0031278012
-
Thymidylate synthase: Structure, inhibition, and strained conformations during catalysis
-
W. Montfort, A. Weichsel, Thymidylate synthase: structure, inhibition, and strained conformations during catalysis, Pharmacol. Ther. 76 (1997) 29-43.
-
(1997)
Pharmacol. Ther.
, vol.76
, pp. 29-43
-
-
Montfort, W.1
Weichsel, A.2
-
22
-
-
0345426287
-
A structural mechanism for half-the-sites reactivity in an enzyme, thymidylate synthase, involves a relay of changes between subunits
-
A. Anderson, R. O'Neil, W. DeLano, R. Stroud, A structural mechanism for half-the-sites reactivity in an enzyme, thymidylate synthase, involves a relay of changes between subunits, Biochemistry 38 (1999) 13829-13836.
-
(1999)
Biochemistry
, vol.38
, pp. 13829-13836
-
-
Anderson, A.1
O'Neil, R.2
DeLano, W.3
Stroud, R.4
-
23
-
-
84986432941
-
Automated docking with grid-based energy evaluation
-
E. Meng, B. Shoichet, I. Kuntz, Automated docking with grid-based energy evaluation, J. Comp. Chem. 13 (1992) 505-524.
-
(1992)
J. Comp. Chem.
, vol.13
, pp. 505-524
-
-
Meng, E.1
Shoichet, B.2
Kuntz, I.3
-
24
-
-
0025311258
-
Structure, multiple site binding, and segmental accommodation in thymidylate synthase on binding dump and an anti-folate
-
W. Montfort, K. Perry, E. Fauman, J. Finer-Moore, G. Maley, L. Hardy, F. Maley, R. Stroud, Structure, multiple site binding, and segmental accommodation in thymidylate synthase on binding dump and an anti-folate, Biochemistry 29 (1990) 6964-6977.
-
(1990)
Biochemistry
, vol.29
, pp. 6964-6977
-
-
Montfort, W.1
Perry, K.2
Fauman, E.3
Finer-Moore, J.4
Maley, G.5
Hardy, L.6
Maley, F.7
Stroud, R.8
-
25
-
-
12644289292
-
The structure of glycogen phosphorylase b with an alkyldihydropyridine-dicarboxylic acid compound, a novel and potent inhibitor
-
S. Zographos, N. Oikonomakos, K. Tsitsanou, D. Leonidas, E. Chrysina, V. Skamnaki, H. Bischoff, S. Goldmann, K. Watson, L. Johnson, The structure of glycogen phosphorylase b with an alkyldihydropyridine-dicarboxylic acid compound, a novel and potent inhibitor, Structure 5 (1997) 1413-1425.
-
(1997)
Structure
, vol.5
, pp. 1413-1425
-
-
Zographos, S.1
Oikonomakos, N.2
Tsitsanou, K.3
Leonidas, D.4
Chrysina, E.5
Skamnaki, V.6
Bischoff, H.7
Goldmann, S.8
Watson, K.9
Johnson, L.10
-
26
-
-
0027378377
-
Refined 1.8 Å structure of human aldose reductase complexed with the potent inhibitor zopolrestat
-
D. Wilson, I. Tarle, J. Petrash, F. Quiocho, Refined 1.8 Å structure of human aldose reductase complexed with the potent inhibitor zopolrestat, Proc. Natl. Acad. Sci. USA 90 (1993) 9847-9851.
-
(1993)
Proc. Natl. Acad. Sci. USA
, vol.90
, pp. 9847-9851
-
-
Wilson, D.1
Tarle, I.2
Petrash, J.3
Quiocho, F.4
-
27
-
-
0031570301
-
A 'specificity' pocket inferred from the crystal structures of the complexes of aldose reductase with the pharmaceutically important inhibitors tolrestat and sorbinol
-
A. Urzhumtsev, F. Tete-Favier, A. Mitschler, J. Barbanton, P. Barth, L. Urzhumtseva, J. Biellman, A. Podjarny, D. Moras, A 'specificity' pocket inferred from the crystal structures of the complexes of aldose reductase with the pharmaceutically important inhibitors tolrestat and sorbinol, Structure 5 (1997) 601-612.
-
(1997)
Structure
, vol.5
, pp. 601-612
-
-
Urzhumtsev, A.1
Tete-Favier, F.2
Mitschler, A.3
Barbanton, J.4
Barth, P.5
Urzhumtseva, L.6
Biellman, J.7
Podjarny, A.8
Moras, D.9
-
28
-
-
0028947588
-
High resolution structures of HIV-1 RT from four RT-inhibitor complexes
-
J. Ren, R. Esnouf, E. Garman, D. Somers, C. Ross, I. Kirby, J. Keeling, G. Dardy, Y. Jones, D. Stuart, D. Stammers, High resolution structures of HIV-1 RT from four RT-inhibitor complexes, Nat. Struct. Biol. 2 (1995) 293-302.
-
(1995)
Nat. Struct. Biol.
, vol.2
, pp. 293-302
-
-
Ren, J.1
Esnouf, R.2
Garman, E.3
Somers, D.4
Ross, C.5
Kirby, I.6
Keeling, J.7
Dardy, G.8
Jones, Y.9
Stuart, D.10
Stammers, D.11
-
29
-
-
0033559918
-
Hydrogen bonding, hydrophobic interactions, and failure of the rigid receptor hypothesis
-
A. Davis, S. Teague, Hydrogen bonding, hydrophobic interactions, and failure of the rigid receptor hypothesis, Angew. Chem. 38 (1999) 736-749.
-
(1999)
Angew. Chem.
, vol.38
, pp. 736-749
-
-
Davis, A.1
Teague, S.2
-
30
-
-
0034663722
-
The penultimate rotamer library
-
S. Lovell, J. Word, J. Richardson, D. Richardson, The penultimate rotamer library, Proteins 40 (2000) 389-408.
-
(2000)
Proteins
, vol.40
, pp. 389-408
-
-
Lovell, S.1
Word, J.2
Richardson, J.3
Richardson, D.4
-
31
-
-
3543012707
-
Crystallography and NMR System: A new software suite for macromolecular structure determination
-
A. Brunger, Crystallography and NMR System: a new software suite for macromolecular structure determination, Acta Crystallogr. D 54 (1998) 905-921.
-
(1998)
Acta Crystallogr. D
, vol.54
, pp. 905-921
-
-
Brunger, A.1
-
32
-
-
0030623575
-
All in one: A highly detailed rotamer library improves both accuracy and speed in the modeling of side chains by dead-end elimination
-
M. De Maeyer, J. Desmet, I. Lasteres, All in one: a highly detailed rotamer library improves both accuracy and speed in the modeling of side chains by dead-end elimination, Fold. Des. 2 (1997) 53-66.
-
(1997)
Fold. Des.
, vol.2
, pp. 53-66
-
-
De Maeyer, M.1
Desmet, J.2
Lasteres, I.3
-
33
-
-
0026232320
-
Purification and characterization of recombinant Pneumocystis carinii thymidylate synthase
-
D. Santi, U. Edman, S. Minkin, P. Greene, Purification and characterization of recombinant Pneumocystis carinii thymidylate synthase, Protein Express. Purif. 2 (1991) 350-354.
-
(1991)
Protein Express. Purif.
, vol.2
, pp. 350-354
-
-
Santi, D.1
Edman, U.2
Minkin, S.3
Greene, P.4
-
34
-
-
0002242695
-
Direct spectrophotometric evidence for the oxidation of tetrahydrofolate during the enzymatic synthesis of thymidylate
-
A. Wahba, M. Friedkin, Direct spectrophotometric evidence for the oxidation of tetrahydrofolate during the enzymatic synthesis of thymidylate, J. Biol. Chem. 236 (1961) PC11-PC12.
-
(1961)
J. Biol. Chem.
, vol.236
-
-
Wahba, A.1
Friedkin, M.2
-
35
-
-
0015327378
-
A linear equation that describes the steady-state kinetics of enzymes and subcellular particles interacting with tightly bound inhibitors
-
P. Henderson, A linear equation that describes the steady-state kinetics of enzymes and subcellular particles interacting with tightly bound inhibitors, Biochem. J. 127 (1972) 321-333.
-
(1972)
Biochem. J.
, vol.127
, pp. 321-333
-
-
Henderson, P.1
-
36
-
-
0040235789
-
-
SERC, Daresbury Laboratory, Warrington
-
Z. Otwinowski, DENZO 1-56-62, in: SERC, Daresbury Laboratory, Warrington, 1993.
-
(1993)
DENZO 1-56-62
-
-
Otwinowski, Z.1
-
37
-
-
0028103275
-
The CCP4 suite of programs for protein crystallography
-
Collaborative Computational Project Number 4, The CCP4 suite of programs for protein crystallography, Acta Crystallogr. D 50 (1994) 760-763.
-
(1994)
Acta Crystallogr. D
, vol.50
, pp. 760-763
-
-
-
38
-
-
84920325457
-
AMoRe: An automated package for molecular replacement
-
J. Navaza, AMoRe: an automated package for molecular replacement, Acta Crystallogr. A 50 (1994) 157-163.
-
(1994)
Acta Crystallogr. A
, vol.50
, pp. 157-163
-
-
Navaza, J.1
-
39
-
-
84889120137
-
Improved methods for building protein models in electron density maps and the location of errors in these models
-
T. Jones, J.-Y. Zou, S. Cowan, M. Kjeldgaard, Improved methods for building protein models in electron density maps and the location of errors in these models, Acta Crystallogr. A 47 (1991) 110-119.
-
(1991)
Acta Crystallogr. A
, vol.47
, pp. 110-119
-
-
Jones, T.1
Zou, J.-Y.2
Cowan, S.3
Kjeldgaard, M.4
-
40
-
-
6244283606
-
Critical evaluation of search algorithms used in automated molecular docking
-
T. Ewing, I. Kuntz, Critical evaluation of search algorithms used in automated molecular docking, J. Comp. Chem. 18 (1997) 1175-1189.
-
(1997)
J. Comp. Chem.
, vol.18
, pp. 1175-1189
-
-
Ewing, T.1
Kuntz, I.2
-
41
-
-
0021757436
-
A new force field for molecular mechanics simulation of nucleic acids and proteins
-
S. Weiner, P. Kollman, D. Case, U. Singh, C. Ohio, G. Alagona, S. Profeta, P. Weiner, A new force field for molecular mechanics 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.1
Kollman, P.2
Case, D.3
Singh, U.4
Ohio, C.5
Alagona, G.6
Profeta, S.7
Weiner, P.8
-
42
-
-
84986518987
-
Molecular docking using shape descriptors
-
B. Shoichet, D. Bodian, I. Kuntz, Molecular docking using shape descriptors, J. Comput. Chem. 13 (1992) 380-397.
-
(1992)
J. Comput. Chem.
, vol.13
, pp. 380-397
-
-
Shoichet, B.1
Bodian, D.2
Kuntz, I.3
-
43
-
-
84986467005
-
Conformational analysis of flexible ligands in macromolecular receptor sites
-
A. Leach, I. Kuntz, Conformational analysis of flexible ligands in macromolecular receptor sites, J. Comput. Chem. 13 (1992) 730-748.
-
(1992)
J. Comput. Chem.
, vol.13
, pp. 730-748
-
-
Leach, A.1
Kuntz, I.2
|