-
1
-
-
0013615206
-
Amino acid metabolism
-
2nd ed, John Wiley & Sons, Inc, New York
-
Voet, D.; Voet, J. Amino acid metabolism. In Biochemistry, 2nd ed.; John Wiley & Sons, Inc.: New York, 1995; p 762.
-
(1995)
Biochemistry
, pp. 762
-
-
Voet, D.1
Voet, J.2
-
2
-
-
0025361947
-
Dihydrofolate Reductase as a Therapeutic Target
-
Schweitzer, B. I.; Dicker, A. P.; Bertino, J. R. Dihydrofolate Reductase as a Therapeutic Target. FASEB J. 1990, 4, 2441-2452.
-
(1990)
FASEB J
, vol.4
, pp. 2441-2452
-
-
Schweitzer, B.I.1
Dicker, A.P.2
Bertino, J.R.3
-
3
-
-
26944489929
-
University Data-Mining and Docking Competition - Computational Models on the Catwalk
-
Parker, C. N. McMaster University Data-Mining and Docking Competition - Computational Models on the Catwalk. J. Biomol. Screen. 2005, 10, 647-648.
-
(2005)
J. Biomol. Screen
, vol.10
, pp. 647-648
-
-
Parker, C.1
McMaster, N.2
-
4
-
-
26944477332
-
Evaluating the High-Throughput Screening Computations
-
Lang, P. T.; Kuntz, I. D.; Maggiora, G. M.; Bajorath, J. Evaluating the High-Throughput Screening Computations. J. Biomol. Screen. 2005, 10, 649-652.
-
(2005)
J. Biomol. Screen
, vol.10
, pp. 649-652
-
-
Lang, P.T.1
Kuntz, I.D.2
Maggiora, G.M.3
Bajorath, J.4
-
5
-
-
0033955055
-
Protein Dynamics in Enzymatic Catalysis: Exploration of Dihydrofolate Reductase
-
Radkiewicz, J. L.; Brooks, C. L., III Protein Dynamics in Enzymatic Catalysis: Exploration of Dihydrofolate Reductase. J. Am. Chem. Soc. 2000, 122, 225-231.
-
(2000)
J. Am. Chem. Soc
, vol.122
, pp. 225-231
-
-
Radkiewicz, J.L.1
Brooks III, C.L.2
-
6
-
-
0037022683
-
Network of coupled promoting motions in enzyme catalysis
-
Agarwal, P. K.; Billeter, S. R.; Rajagopalan, P. T. R.; Benkovic, S. J.; Hammes-Schiffer, S. Network of coupled promoting motions in enzyme catalysis. Proc. Natl. Acad. Sci. U.S.A. 2002, 99, 2794-2799.
-
(2002)
Proc. Natl. Acad. Sci. U.S.A
, vol.99
, pp. 2794-2799
-
-
Agarwal, P.K.1
Billeter, S.R.2
Rajagopalan, P.T.R.3
Benkovic, S.J.4
Hammes-Schiffer, S.5
-
7
-
-
0037188007
-
Nuclear Quantum Effects and Enzyme Dynamics in Dihydrofolate Reductase Catalysis
-
Agarwal, P. K.; Billeter, S. R.; Hammes-Schiffer, S. Nuclear Quantum Effects and Enzyme Dynamics in Dihydrofolate Reductase Catalysis. J. Phys. Chem. B 2002, 106, 3283-3293.
-
(2002)
J. Phys. Chem. B
, vol.106
, pp. 3283-3293
-
-
Agarwal, P.K.1
Billeter, S.R.2
Hammes-Schiffer, S.3
-
8
-
-
0034677111
-
-
Feeney, J. NMR Studies of Ligand Binding to Dihydrofolate Reductase. Angew. Chem. Int. Ed. 2000, 39, 290-312.
-
Feeney, J. NMR Studies of Ligand Binding to Dihydrofolate Reductase. Angew. Chem. Int. Ed. 2000, 39, 290-312.
-
-
-
-
9
-
-
33748781457
-
The Dynamic Energy Landscape of Dihydrofolate Reductase Catalysis
-
Boehr, D. D.; McElheny, D.; Dyson, H. J.; Wright, P. E. The Dynamic Energy Landscape of Dihydrofolate Reductase Catalysis. Science 2006, 313, 1638-1642.
-
(2006)
Science
, vol.313
, pp. 1638-1642
-
-
Boehr, D.D.1
McElheny, D.2
Dyson, H.J.3
Wright, P.E.4
-
10
-
-
0035928796
-
Backbone Dynamics in Dihydrofolate Reductase Complexes: Role of Loop Flexibility in the Catalytic Mechanism
-
Osborne, M. J.; Schnell, J.; Benkovic, S. J.; Dyson, H. J.; Wright, P. E. Backbone Dynamics in Dihydrofolate Reductase Complexes: Role of Loop Flexibility in the Catalytic Mechanism. Biochemistry 2001, 40, 9846-9859.
-
(2001)
Biochemistry
, vol.40
, pp. 9846-9859
-
-
Osborne, M.J.1
Schnell, J.2
Benkovic, S.J.3
Dyson, H.J.4
Wright, P.E.5
-
11
-
-
0031015737
-
Loop and Subdomain Movements in the Mechanism of Escherichia Coli Dihydrofolate Reductase: Crystallographic Evidence
-
Sawaya, M. R.; Kraut, J. Loop and Subdomain Movements in the Mechanism of Escherichia Coli Dihydrofolate Reductase: Crystallographic Evidence. Biochemistry 1997, 36, 586-603.
-
(1997)
Biochemistry
, vol.36
, pp. 586-603
-
-
Sawaya, M.R.1
Kraut, J.2
-
13
-
-
0031808658
-
Stretching Exercises - Flexibility in Dihydrofolate Reductase Catalysis
-
Miller, G. P.; Benkovic, S. J. Stretching Exercises - Flexibility in Dihydrofolate Reductase Catalysis. Chem. Biol. 1998, 5, R105-R113.
-
(1998)
Chem. Biol
, vol.5
-
-
Miller, G.P.1
Benkovic, S.J.2
-
14
-
-
3042660150
-
Structure, Dynamics, and Catalytic Function of Dihydrofolate Reductase
-
Schnell, J. R.; Dyson, H. J.; Wright, P. E. Structure, Dynamics, and Catalytic Function of Dihydrofolate Reductase. Annu. Rev. Biophys. Biomol. Struct. 2004, 33, 119-140.
-
(2004)
Annu. Rev. Biophys. Biomol. Struct
, vol.33
, pp. 119-140
-
-
Schnell, J.R.1
Dyson, H.J.2
Wright, P.E.3
-
15
-
-
0001105311
-
Method for Including the Dynamic Fluctuations of a Protein in Computer-Aided Drug Design
-
Carlson, H. A.; Masukawa, K. M.; McCammon, J. A. Method for Including the Dynamic Fluctuations of a Protein in Computer-Aided Drug Design. J. Phys. Chem. A 1999, 103, 10213-10219.
-
(1999)
J. Phys. Chem. A
, vol.103
, pp. 10213-10219
-
-
Carlson, H.A.1
Masukawa, K.M.2
McCammon, J.A.3
-
16
-
-
0034212669
-
Developing a Dynamic Pharmacophore Model for HIV-1 Integrase
-
Carlson, H. A.; Masukawa, K. M.; Rubins, K.; Bushman, F. D.; Jorgensen, W. L.; Lins, R. D.; Briggs, J. M.; McCammon, J. A. Developing a Dynamic Pharmacophore Model for HIV-1 Integrase. J. Med. Chem. 2000, 43, 2100-2114.
-
(2000)
J. Med. Chem
, vol.43
, pp. 2100-2114
-
-
Carlson, H.A.1
Masukawa, K.M.2
Rubins, K.3
Bushman, F.D.4
Jorgensen, W.L.5
Lins, R.D.6
Briggs, J.M.7
McCammon, J.A.8
-
17
-
-
6344245774
-
-
Meagher, K. L.; Carlson, H. A. Incorporating Protein Flexibility in Structure-Based Drug Discovery: Using HIV-1 Protease as a Test Case. J. Am. Chem. Soc. 2004, 126, 13276-13281.
-
Meagher, K. L.; Carlson, H. A. Incorporating Protein Flexibility in Structure-Based Drug Discovery: Using HIV-1 Protease as a Test Case. J. Am. Chem. Soc. 2004, 126, 13276-13281.
-
-
-
-
18
-
-
33745123314
-
Refining the Multiple Protein Structure Pharmacophore Method: Consistency Across Three Independem HIV-1 Protease Models
-
Meagher, K. L.; Lerner, M. G.; Carlson, H. A. Refining the Multiple Protein Structure Pharmacophore Method: Consistency Across Three Independem HIV-1 Protease Models. J. Med. Chem. 2006, 49, 3478-3484.
-
(2006)
J. Med. Chem
, vol.49
, pp. 3478-3484
-
-
Meagher, K.L.1
Lerner, M.G.2
Carlson, H.A.3
-
19
-
-
33947662384
-
Protein Flexibility and Species Specificity in Structure-Based Drug Discovery: Dihydrofolate Reductase as a Test System
-
Bowman, A. L.; Lerner, M. G.; Carlson, H. A. Protein Flexibility and Species Specificity in Structure-Based Drug Discovery: Dihydrofolate Reductase as a Test System. J. Am. Chem. Soc. 2007, 129, 3634-3640.
-
(2007)
J. Am. Chem. Soc
, vol.129
, pp. 3634-3640
-
-
Bowman, A.L.1
Lerner, M.G.2
Carlson, H.A.3
-
20
-
-
34447271743
-
Exploring Sources of Multiple Protein Conformations in Structure-Based Drug Design
-
Damm, K. L.; Carlson, H. A. Exploring Sources of Multiple Protein Conformations in Structure-Based Drug Design. J. Am. Chem. Soc. 2007, 129, 8225-8235.
-
(2007)
J. Am. Chem. Soc
, vol.129
, pp. 8225-8235
-
-
Damm, K.L.1
Carlson, H.A.2
-
22
-
-
0029633186
-
AMBER, a Package of Computer-Programs for Applying Molecular Mechanics, Normal-Mode Analysis, Molecular-Dynamics and Free-Energy Calculations to Simulate the Structural and Energetic Properties of Molecules
-
Pearlman, D. A.; Case, D. A.; Caldwell, J. W.; Ross, W. S.; Cheatham, T. E., III; Debolt, S.; Ferguson, D. M.; Seibel, G. L.; Kollman, P. A. AMBER, a Package of Computer-Programs for Applying Molecular Mechanics, Normal-Mode Analysis, Molecular-Dynamics and Free-Energy Calculations to Simulate the Structural and Energetic Properties of Molecules. Comput. Phys. Commun. 1995, 91, 1-41.
-
(1995)
Comput. Phys. Commun
, vol.91
, pp. 1-41
-
-
Pearlman, D.A.1
Case, D.A.2
Caldwell, J.W.3
Ross, W.S.4
Cheatham III, T.E.5
Debolt, S.6
Ferguson, D.M.7
Seibel, G.L.8
Kollman, P.A.9
-
23
-
-
0032744506
-
Redesign of the Coenzyme Specificity in L-Lactate Dehydrogenase from Bacillus Stearothermophilus using Site-Directed Mutagenesis and Media Engineering
-
Holmberg, N.; Ryde, U.; Bulow, L. Redesign of the Coenzyme Specificity in L-Lactate Dehydrogenase from Bacillus Stearothermophilus using Site-Directed Mutagenesis and Media Engineering. Protein Eng. 1999, 12, 851-856.
-
(1999)
Protein Eng
, vol.12
, pp. 851-856
-
-
Holmberg, N.1
Ryde, U.2
Bulow, L.3
-
24
-
-
0004016501
-
Comparison of Simple Potential Functions for Simulating Liquid Water
-
Jorgensen, W. L.; Chandrasekhar, J.; Madura, J. D.; Impey, R. W.; Klein, M. L. Comparison of Simple Potential Functions for Simulating Liquid Water. J. Chem. Phys. 1983, 79, 926-935.
-
(1983)
J. Chem. Phys
, vol.79
, pp. 926-935
-
-
Jorgensen, W.L.1
Chandrasekhar, J.2
Madura, J.D.3
Impey, R.W.4
Klein, M.L.5
-
25
-
-
0004268506
-
-
University of California, San Francisco: San Francisco, CA
-
Case, D. A.; Pearlman, D. A.; Caldwell, J. W.; Cheatham, T. E., III; Ross, W. S.; Simmerling, C. L.; Darden, T. A.; Merz, K. M.; Stanton, R. V.; Cheng, A. L.; Vincent, J. J.; Crowley, M.; Tsui, V.; Radmer, R. J.; Duan, Y.; Pitera, J.; Massova, I.; Seibel, G. L.; Singh, U. C.; Weiner, P. K.; Kollman, P. A. AMBER 6; University of California, San Francisco: San Francisco, CA, 1996.
-
(1996)
AMBER 6
-
-
Case, D.A.1
Pearlman, D.A.2
Caldwell, J.W.3
Cheatham III, T.E.4
Ross, W.S.5
Simmerling, C.L.6
Darden, T.A.7
Merz, K.M.8
Stanton, R.V.9
Cheng, A.L.10
Vincent, J.J.11
Crowley, M.12
Tsui, V.13
Radmer, R.J.14
Duan, Y.15
Pitera, J.16
Massova, I.17
Seibel, G.L.18
Singh, U.C.19
Weiner, P.K.20
Kollman, P.A.21
more..
-
26
-
-
33845365904
-
A 2.13 Angstrom Structure of E-coli Dihydrofolate Reductase Bound to a Novel Competitive Inhibitor Reveals a New Binding Surface Involving the M20 Loop Region
-
Summerfield, R. L.; Daigle, D. M.; Mayer, S.; Mallik, D.; Hughes, D. W.; Jackson, S. G.; Sulek, M.; Organ, M. G.; Brown, E. D.; Junop, M. S. A 2.13 Angstrom Structure of E-coli Dihydrofolate Reductase Bound to a Novel Competitive Inhibitor Reveals a New Binding Surface Involving the M20 Loop Region. J. Med. Chem. 2006, 49, 6977-6986.
-
(2006)
J. Med. Chem
, vol.49
, pp. 6977-6986
-
-
Summerfield, R.L.1
Daigle, D.M.2
Mayer, S.3
Mallik, D.4
Hughes, D.W.5
Jackson, S.G.6
Sulek, M.7
Organ, M.G.8
Brown, E.D.9
Junop, M.S.10
-
27
-
-
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
-
28
-
-
37249060128
-
-
Jorgensen, W. L. BOSS, Version 4.2; Yale University: New Haven, CT, 2000
-
Jorgensen, W. L. BOSS, Version 4.2; Yale University: New Haven, CT, 2000.
-
-
-
-
29
-
-
0029912748
-
Development and Testing of the OPLS All-Atom Force Field on Conformational Energetics and Properties of Organic Liquids
-
Jorgensen, W. L.; Maxwell, D. S.; Tirado-Rives, J. Development and Testing of the OPLS All-Atom Force Field on Conformational Energetics and Properties of Organic Liquids. J. Am. Chem. Soc. 1996, 118, 11225-11236.
-
(1996)
J. Am. Chem. Soc
, vol.118
, pp. 11225-11236
-
-
Jorgensen, W.L.1
Maxwell, D.S.2
Tirado-Rives, J.3
-
30
-
-
33744807436
-
Gaussian-Weighted RMSD Superposition of Proteins: A Structural Comparison for Flexible Proteins and Predicted Protein Structures
-
Damm, K. L.; Carlson, H. A. Gaussian-Weighted RMSD Superposition of Proteins: A Structural Comparison for Flexible Proteins and Predicted Protein Structures. Biophys. J. 2006, 90, 4558-4573.
-
(2006)
Biophys. J
, vol.90
, pp. 4558-4573
-
-
Damm, K.L.1
Carlson, H.A.2
-
31
-
-
37249057288
-
-
Chemical Computing Group: Montreal, Canada
-
MOE, v2005.06; Chemical Computing Group: Montreal, Canada, 2005.
-
(2005)
MOE, v2005.06
-
-
-
32
-
-
0004305176
-
-
MDL Information Systems Inc, San Leandro, CA
-
Comprehensive Medicinal Chemistry; MDL Information Systems Inc.: San Leandro, CA, 2005.
-
(2005)
Comprehensive Medicinal Chemistry
-
-
-
33
-
-
37249089179
-
-
1.8.b1; OpenEye Scientific Software, Inc, Santa Fe, NM
-
OMEGA, Version 1.8.b1; OpenEye Scientific Software, Inc.: Santa Fe, NM, 2004.
-
(2004)
OMEGA, Version
-
-
-
34
-
-
0033056708
-
Folding Funnels, Binding Funnels, and Protein Function
-
Tsai, C. J.; Kumar, S.; Ma, B. Y.; Nussinov, R. Folding Funnels, Binding Funnels, and Protein Function. Protein Sci. 1999, 8, 1181-1190.
-
(1999)
Protein Sci
, vol.8
, pp. 1181-1190
-
-
Tsai, C.J.1
Kumar, S.2
Ma, B.Y.3
Nussinov, R.4
-
35
-
-
0037402655
-
Automated Generation of MCSS-Derived Pharmacophoric DOCK Site Points for Searching Multiconformation Databases
-
Joseph-McCarthy, D.; Alvarez, J. C. Automated Generation of MCSS-Derived Pharmacophoric DOCK Site Points for Searching Multiconformation Databases. Proteins: Struct., Funct., Bioinf. 2003, 51, 189-202.
-
(2003)
Proteins: Struct., Funct., Bioinf
, vol.51
, pp. 189-202
-
-
Joseph-McCarthy, D.1
Alvarez, J.C.2
-
36
-
-
0037402105
-
Pharmacophore-Based Molecular Docking to Account for Ligand Flexibility
-
Joseph-McCarthy, D.; Thomas, B. E.; Belmarsh, M.; Moustakas, D.; Alvarez, J. C. Pharmacophore-Based Molecular Docking to Account for Ligand Flexibility. Proteins: Struct., Funct., Bioinf. 2003, 51, 172-188.
-
(2003)
Proteins: Struct., Funct., Bioinf
, vol.51
, pp. 172-188
-
-
Joseph-McCarthy, D.1
Thomas, B.E.2
Belmarsh, M.3
Moustakas, D.4
Alvarez, J.C.5
-
37
-
-
0025916872
-
Functionality Maps of Binding-Sites - a Multiple Copy Simultaneous Search Method
-
Miranker, A.; Karplus, M. Functionality Maps of Binding-Sites - a Multiple Copy Simultaneous Search Method. Proteins: Struct., Funct., Bioinf. 1991, 11, 29-34.
-
(1991)
Proteins: Struct., Funct., Bioinf
, vol.11
, pp. 29-34
-
-
Miranker, A.1
Karplus, M.2
|