-
2
-
-
0034662911
-
Site-directed ligand discovery
-
Erlanson DA, Braisted AC, Raphael DR, Randal M, Stroud RM, Gordon EM, Wells JA. Site-directed ligand discovery. Proc Natl Acad Sci USA 2000;97:9367-9372.
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 9367-9372
-
-
Erlanson, D.A.1
Braisted, A.C.2
Raphael, D.R.3
Randal, M.4
Stroud, R.M.5
Gordon, E.M.6
Wells, J.A.7
-
4
-
-
0037414274
-
Discovery of a potent small molecule il-2 inhibitor through fragment assembly
-
Braisted AC, Oslob JD, Delano WL, Hyde J, McDowell RS, Waal N, Yu C, Arkin MR, Raimundo BC. Discovery of a potent small molecule il-2 inhibitor through fragment assembly. J Am Chem Soc 2003;125:3714-3715.
-
(2003)
J Am Chem Soc
, vol.125
, pp. 3714-3715
-
-
Braisted, A.C.1
Oslob, J.D.2
Delano, W.L.3
Hyde, J.4
McDowell, R.S.5
Waal, N.6
Yu, C.7
Arkin, M.R.8
Raimundo, B.C.9
-
5
-
-
0038274086
-
Discovery of a new phosphotyrosine mimetic for PTP1B using breakaway tethering
-
Erlanson DA, McDowell RS, He MM, Randal M, Simmons RL, Kung J, Waight A, Hansen SK. Discovery of a new phosphotyrosine mimetic for PTP1B using breakaway tethering. J Am Chem Soc 2003;125:5602-5603.
-
(2003)
J Am Chem Soc
, vol.125
, pp. 5602-5603
-
-
Erlanson, D.A.1
McDowell, R.S.2
He, M.M.3
Randal, M.4
Simmons, R.L.5
Kung, J.6
Waight, A.7
Hansen, S.K.8
-
6
-
-
0038010557
-
Discovery and characterization of cooperative ligand binding in the adaptive region of interleukin-2
-
Hyde J, Braisted AC, Randal M, Arkin MR. Discovery and characterization of cooperative ligand binding in the adaptive region of interleukin-2. Biochemistry 2003;42:6475-6483.
-
(2003)
Biochemistry
, vol.42
, pp. 6475-6483
-
-
Hyde, J.1
Braisted, A.C.2
Randal, M.3
Arkin, M.R.4
-
7
-
-
2542643984
-
Integrating fragment assembly and biophysical methods in the chemical advancement of small-molecule antagonists of il-2: An approach for inhibiting protein-protein interactions
-
Raimundo BC, Oslob JD, Braisted AC, Hyde J, McDowell RS, Randal M, Waal ND, Wilkinson J, Yu CH, Arkin MR. Integrating fragment assembly and biophysical methods in the chemical advancement of small-molecule antagonists of il-2: an approach for inhibiting protein-protein interactions. J Med Chem 2004:47; 3111-3130.
-
(2004)
J Med Chem
, vol.47
, pp. 3111-3130
-
-
Raimundo, B.C.1
Oslob, J.D.2
Braisted, A.C.3
Hyde, J.4
McDowell, R.S.5
Randal, M.6
Waal, N.D.7
Wilkinson, J.8
Yu, C.H.9
Arkin, M.R.10
-
8
-
-
0037452709
-
Binding of small molecules to an adaptive protein-protein interface
-
Arkin MR, Randal M, DeLano WL, Hyde J, Luong TN, Oslob JD, Raphael DR, Taylor L, Wang J, McDowell RS, Wells JA, Braisted AC. Binding of small molecules to an adaptive protein-protein interface. Proc Natl Acad Sci USA 2003:100;1603-1608.
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 1603-1608
-
-
Arkin, M.R.1
Randal, M.2
DeLano, W.L.3
Hyde, J.4
Luong, T.N.5
Oslob, J.D.6
Raphael, D.R.7
Taylor, L.8
Wang, J.9
McDowell, R.S.10
Wells, J.A.11
Braisted, A.C.12
-
9
-
-
3142781225
-
Small-molecule inhibitors of protein-protein interactions: Progressing towards the dream
-
Arkin MR, Wells JA. Small-molecule inhibitors of protein-protein interactions: progressing towards the dream. Nat Rev Drug Discov 2004;3:301-317.
-
(2004)
Nat Rev Drug Discov
, vol.3
, pp. 301-317
-
-
Arkin, M.R.1
Wells, J.A.2
-
10
-
-
0344875223
-
Fast protein structure prediction using Monte Carlo simulations with modal moves
-
Carnevali P, Toth G, Toubassi G, Meshkat SN. Fast protein structure prediction using Monte Carlo simulations with modal moves. J Am Chem Soc 2003;125:14244-14245.
-
(2003)
J Am Chem Soc
, vol.125
, pp. 14244-14245
-
-
Carnevali, P.1
Toth, G.2
Toubassi, G.3
Meshkat, S.N.4
-
11
-
-
33645909557
-
Flap opening mechanism of HIV-1 protease
-
Toth G, Borics A. Flap opening mechanism of HIV-1 protease. J Mol Grap Mod 2006;24:465-474.
-
(2006)
J Mol Grap Mod
, vol.24
, pp. 465-474
-
-
Toth, G.1
Borics, A.2
-
12
-
-
33744730369
-
the closing of the flaps of HIV-1 protease induced by substrate binding: A model of flap closing mechanism in retroviral aspartic proteases
-
Toth G, Borics A. the closing of the flaps of HIV-1 protease induced by substrate binding: a model of flap closing mechanism in retroviral aspartic proteases. Biochemistry 2006;45:6606-6614.
-
(2006)
Biochemistry
, vol.45
, pp. 6606-6614
-
-
Toth, G.1
Borics, A.2
-
13
-
-
0029011701
-
A second generation force field for the simulation of proteins and nucleic acids
-
Cornell WD, Cieplak P, Bayly CI, Gould IR, Merz KM, Ferguson DM, Spellmeyer T, Fox T, Caldwell JW, Kollman PA. A second generation force field for the simulation of proteins and nucleic acids. J Am Chem Soc 1995;117:5179-5197.
-
(1995)
J Am Chem Soc
, vol.117
, pp. 5179-5197
-
-
Cornell, W.D.1
Cieplak, P.2
Bayly, C.I.3
Gould, I.R.4
Merz, K.M.5
Ferguson, D.M.6
Spellmeyer, T.7
Fox, T.8
Caldwell, J.W.9
Kollman, P.A.10
-
14
-
-
2942532422
-
Development and testing of a general amber force field
-
Wang J, Wolf RM, Caldwell JW, Kollman PA, Case DA. Development and testing of a general amber force field. J Comput Chem 2004;25:1157-1174.
-
(2004)
J Comput Chem
, vol.25
, pp. 1157-1174
-
-
Wang, J.1
Wolf, R.M.2
Caldwell, J.W.3
Kollman, P.A.4
Case, D.A.5
-
15
-
-
0001041959
-
Fast, efficient generation of high-quality atomic charges. AM1-BCC model: I method
-
Jakalian A, Bush BL, Jack DB, Bayly CI. Fast, efficient generation of high-quality atomic charges. AM1-BCC model: I method. J Comput Chem 2000;21:132-146.
-
(2000)
J Comput Chem
, vol.21
, pp. 132-146
-
-
Jakalian, A.1
Bush, B.L.2
Jack, D.B.3
Bayly, C.I.4
-
16
-
-
0036890178
-
-
Jakalian A, Jack DB, Bayly CI. Fast, Efficient generation of high-quality atomic charges. AM1-BCC model: II parameterization and validation. J Comput Chem 2002;23:1623-1641.
-
Jakalian A, Jack DB, Bayly CI. Fast, Efficient generation of high-quality atomic charges. AM1-BCC model: II parameterization and validation. J Comput Chem 2002;23:1623-1641.
-
-
-
-
17
-
-
4043171970
-
The GB/SA continuum model for solvation. A fast analytical method for the calculation of approximate born radii
-
Qui D, Shenkin PS, Hollinger FP, Still WC. The GB/SA continuum model for solvation. A fast analytical method for the calculation of approximate born radii. J Phys Chem A 1997;101: 3005-3014.
-
(1997)
J Phys Chem A
, vol.101
, pp. 3005-3014
-
-
Qui, D.1
Shenkin, P.S.2
Hollinger, F.P.3
Still, W.C.4
-
19
-
-
0037472825
-
CFF: A new method to incorporate implicit flexibility into an internal coordinate force field
-
Katritch V, Totrov M, Abagyan R. CFF: a new method to incorporate implicit flexibility into an internal coordinate force field. J Comput Chem 2003;24:254-265.
-
(2003)
J Comput Chem
, vol.24
, pp. 254-265
-
-
Katritch, V.1
Totrov, M.2
Abagyan, R.3
-
22
-
-
31544450787
-
Novel procedure for modeling ligand/receptor induced fit effects
-
Sherman W, Day T, Jacobson MP, Friesner RA, Farid R. Novel procedure for modeling ligand/receptor induced fit effects. J Med Chem 2006;49:534-553.
-
(2006)
J Med Chem
, vol.49
, pp. 534-553
-
-
Sherman, W.1
Day, T.2
Jacobson, M.P.3
Friesner, R.A.4
Farid, R.5
-
23
-
-
0026699913
-
Crystal structure of recombinant human interleukin-4
-
Walter MR, Cook WJ, Zhao BG, Cameron RP, Ealick SE, Walter RL, Reichert P, Nagabhushan TL, Trotta PP, Bugg CE. Crystal structure of recombinant human interleukin-4. J Biol Chem 1992;267:20371-20376.
-
(1992)
J Biol Chem
, vol.267
, pp. 20371-20376
-
-
Walter, M.R.1
Cook, W.J.2
Zhao, B.G.3
Cameron, R.P.4
Ealick, S.E.5
Walter, R.L.6
Reichert, P.7
Nagabhushan, T.L.8
Trotta, P.P.9
Bugg, C.E.10
-
24
-
-
0031581852
-
Molecular docking to ensembles of protein structures
-
Knegtel RM, Kuntz ID, Oshiro CM. Molecular docking to ensembles of protein structures. J Mol Biol 1997;266:424-440.
-
(1997)
J Mol Biol
, vol.266
, pp. 424-440
-
-
Knegtel, R.M.1
Kuntz, I.D.2
Oshiro, C.M.3
-
25
-
-
0033135477
-
Docking of flexible ligands to flexible receptors in solution by molecular dynamics simulation
-
Mangoni M, Roccatano D, Di Nola A. Docking of flexible ligands to flexible receptors in solution by molecular dynamics simulation. Proteins 1999;35:153-162.
-
(1999)
Proteins
, vol.35
, pp. 153-162
-
-
Mangoni, M.1
Roccatano, D.2
Di Nola, A.3
-
26
-
-
0032718788
-
The sensitivity of the results of molecular docking to induced fit effects: Application to thrombin, thermolysin and neuraminidase
-
Murray CW, Baxter CA, Frenkel AD. The sensitivity of the results of molecular docking to induced fit effects: application to thrombin, thermolysin and neuraminidase. J Comput Aided Mol Des 1999;13:547-562.
-
(1999)
J Comput Aided Mol Des
, vol.13
, pp. 547-562
-
-
Murray, C.W.1
Baxter, C.A.2
Frenkel, A.D.3
-
27
-
-
0033974667
-
Accommodating protein flexibility in computational drug design
-
Carlson HA, McCammon JA. Accommodating protein flexibility in computational drug design. Mol Pharmacol 2000;57:213-218.
-
(2000)
Mol Pharmacol
, vol.57
, pp. 213-218
-
-
Carlson, H.A.1
McCammon, J.A.2
-
29
-
-
0036323965
-
Ligand-induced changes in the binding sites of proteins
-
Fradera X, De La Cruz X, Silva CH, Gelpi JL, Luque FJ, Orozco M. Ligand-induced changes in the binding sites of proteins. Bioinformatics 2002;18:939-948.
-
(2002)
Bioinformatics
, vol.18
, pp. 939-948
-
-
Fradera, X.1
De La Cruz, X.2
Silva, C.H.3
Gelpi, J.L.4
Luque, F.J.5
Orozco, M.6
-
30
-
-
0036680063
-
Protein flexibility and drug design: How to hit a moving target
-
Carlson HA. Protein flexibility and drug design: how to hit a moving target. Curr Opin Chem Biol 2002:6;447-452.
-
(2002)
Curr Opin Chem Biol
, vol.6
, pp. 447-452
-
-
Carlson, H.A.1
-
31
-
-
21644473891
-
Representing Receptor Flexibility in Ligand Docking Through Relevant Normal Modes
-
Cavasotto CN, Kovacs JA, Abagyan RA. Representing Receptor Flexibility in Ligand Docking Through Relevant Normal Modes. J Am Chem Soc 2005;127:9632-9640.
-
(2005)
J Am Chem Soc
, vol.127
, pp. 9632-9640
-
-
Cavasotto, C.N.1
Kovacs, J.A.2
Abagyan, R.A.3
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