-
1
-
-
33645050104
-
Cytochrome P450s and other enzymes in drug metabolism and toxicity
-
Guengerich FP. Cytochrome P450s and other enzymes in drug metabolism and toxicity. AAPS J 2006;8:E101-E11
-
(2006)
AAPS J
, vol.8
-
-
Guengerich, F.P.1
-
2
-
-
77952547981
-
The effects of type II binding on metabolic stability and binding affinity in cytochrome P450 CYP3A4
-
Peng C-C, Pearson JT, Rock DA, et al. The effects of type II binding on metabolic stability and binding affinity in cytochrome P450 CYP3A4. Arch Biochem Biophys 2010;497: 68-81
-
(2010)
Arch Biochem Biophys
, vol.497
, pp. 68-81
-
-
Peng, C.-C.1
Pearson, J.T.2
Rock, D.A.3
-
3
-
-
84862278754
-
Mechanism-based inactivation (MBI) of cytochrome P450 enzymes: Structure-activity relationships and discovery strategies to mitigate drug-drug interaction risks
-
Orr STM, Ripp SL, Ballard TE, et al. Mechanism-based inactivation (MBI) of cytochrome P450 enzymes: structure-activity relationships and discovery strategies to mitigate drug-drug interaction risks. J Med Chem 2012;55: 4896-933
-
(2012)
J Med Chem
, vol.55
, pp. 4896-4933
-
-
Orr, S.T.M.1
Ripp, S.L.2
Ballard, T.E.3
-
4
-
-
33748802003
-
Structural basis for ligand promiscuity in cytochrome P450 3A4
-
Ekroos M, Sjögren T. Structural basis for ligand promiscuity in cytochrome P450 3A4. Proc Natl Acad Sci USA 2006;103: 13682-7
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 13682-13687
-
-
Ekroos, M.1
Sjögren, T.2
-
5
-
-
84859500879
-
Crystal structure of human cytochrome P450 2D6 with prinomastat bound
-
Wang A, Savas U, Hsu M-H, et al. Crystal structure of human cytochrome P450 2D6 with prinomastat bound. J Biol Chem 2012;287: 10834-43
-
(2012)
J Biol Chem
, vol.287
, pp. 10834-10843
-
-
Wang, A.1
Savas, U.2
Hsu, M.-H.3
-
6
-
-
84864531088
-
Nicotine and 4- (methylnitrosamino)-1-(3-pyridyl)-1- butanone binding and access channel in human cytochrome P450 2A6 and 2A13 enzymes
-
DeVore NM, Scott EE. Nicotine and 4- (methylnitrosamino)-1-(3-pyridyl)-1- butanone binding and access channel in human cytochrome P450 2A6 and 2A13 enzymes. J Biol Chem 2012;287: 26576-85
-
(2012)
J Biol Chem
, vol.287
, pp. 26576-26585
-
-
Devore, N.M.1
Scott, E.E.2
-
7
-
-
79951981828
-
Multireference and multiconfiguration ab initio methods in heme-related systems: What have we learned so far?
-
Chen H, Lai WZ, Shaik S. Multireference and multiconfiguration ab initio methods in heme-related systems: what have we learned so far? J Phys Chem B 2011;115: 1727-42
-
(2011)
J Phys Chem B
, vol.115
, pp. 1727-1742
-
-
Chen, H.1
Lai, W.Z.2
Shaik, S.3
-
8
-
-
10644250257
-
Inhomogeneous electron gas
-
Hohenberg P, Kohn W. Inhomogeneous electron gas. Phys Rev 1964;136:B864-B71
-
(1964)
Phys Rev
, vol.136
-
-
Hohenberg, P.1
Kohn, W.2
-
9
-
-
0042113153
-
Self-consistent equations including exchange and correlation effects
-
Kohn W, Sham LJ. Self-consistent equations including exchange and correlation effects. Phys Rev 1965;140:A1133-A38
-
(1965)
Phys Rev
, vol.140
-
-
Kohn, W.1
Sham, L.J.2
-
10
-
-
0000189651
-
Density-functional thermochemistry. III. The role of exact exchange
-
Becke AD. Density-functional thermochemistry. III. The role of exact exchange. J Chem Phys 1993;98: 5648-52
-
(1993)
J Chem Phys
, vol.98
, pp. 5648-5652
-
-
Becke, A.D.1
-
11
-
-
34250817103
-
A new mixing of Hartree-Fock and local densityfunctional theories
-
Becke AD. A new mixing of Hartree-Fock and local densityfunctional theories. J Chem Phys 1993;98: 1372-7
-
(1993)
J Chem Phys
, vol.98
, pp. 1372-1377
-
-
Becke, A.D.1
-
12
-
-
0345491105
-
Development of the Colle-Salvetti correlation-energy formula into a functional of the electron density
-
Lee C, Yang W, Parr RG. Development of the Colle-Salvetti correlation-energy formula into a functional of the electron density. Phys Rev B 1988;37: 785-9
-
(1988)
Phys Rev B
, vol.37
, pp. 785-789
-
-
Lee, C.1
Yang, W.2
Parr, R.G.3
-
13
-
-
84875674943
-
Density functional theory with London dispersion corrections
-
Grimme S. Density functional theory with London dispersion corrections. Comput Mol Sci 2011;1: 211-28
-
(2011)
Comput Mol Sci
, vol.1
, pp. 211-228
-
-
Grimme, S.1
-
14
-
-
77951680464
-
A consistent and accurate ab initio parametrization of density functional dispersion correction (DFT-D) for the 94 elements H-Pu
-
Grimme S, Antony J, Ehrlich S, Krieg H. A consistent and accurate ab initio parametrization of density functional dispersion correction (DFT-D) for the 94 elements H-Pu. J Chem Phys 2010;132(15):154104
-
(2010)
J Chem Phys
, vol.132
, Issue.15
, pp. 154104
-
-
Grimme, S.1
Antony, J.2
Ehrlich, S.3
Krieg, H.4
-
15
-
-
0025150366
-
Theoretical studies on cytochrome P-450-mediated hydroxylation: A predictive model for hydrogen atom abstractions
-
Korzekwa KR, Jones JP, Gillette JR. Theoretical studies on cytochrome P-450-mediated hydroxylation: a predictive model for hydrogen atom abstractions. J Am Chem Soc 1990;112: 7042-6
-
(1990)
J Am Chem Soc
, vol.112
, pp. 7042-7046
-
-
Korzekwa, K.R.1
Jones, J.P.2
Gillette, J.R.3
-
16
-
-
0034779948
-
An assessment of the reaction energetics for cytochrome P450-mediated reactions
-
Higgins L, Korzekwa KR, Rao S, et al. An assessment of the reaction energetics for cytochrome P450-mediated reactions. Arch Biochem Biophys 2001;385: 220-30
-
(2001)
Arch Biochem Biophys
, vol.385
, pp. 220-230
-
-
Higgins, L.1
Korzekwa, K.R.2
Rao, S.3
-
17
-
-
0028805889
-
Designing safer chemicals: Predicting the rates of metabolism of halogenated alkanes
-
Yin HQ, Anders MW, Korzekwa KR, et al. Designing safer chemicals: predicting the rates of metabolism of halogenated alkanes. Proc Natl Acad Sci USA 1995;92: 11076-80
-
(1995)
Proc Natl Acad Sci USA
, vol.92
, pp. 11076-11080
-
-
Yin, H.Q.1
Anders, M.W.2
Korzekwa, K.R.3
-
18
-
-
0037464481
-
Construction and assessment of models of CYP2E1: Predictions of metabolism from docking, molecular dynamics, and density functional theoretical calculations
-
Park J-Y, Harris D. Construction and assessment of models of CYP2E1: predictions of metabolism from docking, molecular dynamics, and density functional theoretical calculations. J Med Chem 2003;46: 1645-60
-
(2003)
J Med Chem
, vol.46
, pp. 1645-1660
-
-
Park, J.-Y.1
Harris, D.2
-
19
-
-
79251483498
-
Rapid estimation of activation enthalpies for cytochrome-P450-mediated hydroxylations
-
Mayeno AN, Robinson JL, Reisfeld B. Rapid estimation of activation enthalpies for cytochrome-P450-mediated hydroxylations. J Comput Chem 2011;32: 639-57
-
(2011)
J Comput Chem
, vol.32
, pp. 639-657
-
-
Mayeno, A.N.1
Robinson, J.L.2
Reisfeld, B.3
-
20
-
-
4644275807
-
Mechanism of oxidation reactions catalyzed by cytochrome P450 enzymes
-
Meunier B, de Visser SP, Shaik S. Mechanism of oxidation reactions catalyzed by cytochrome P450 enzymes. Chem Rev 2004;104: 3947-80
-
(2004)
Chem Rev
, vol.104
, pp. 3947-3980
-
-
Meunier, B.1
De Visser, S.P.2
Shaik, S.3
-
21
-
-
77349115125
-
P450 enzymes: Their structure, reactivity, and selectivity-modeled by QM/MM calculations
-
Shaik S, Cohen S, Wang Y, et al. P450 enzymes: their structure, reactivity, and selectivity-modeled by QM/MM calculations. Chem Rev 2010;110: 949-1017
-
(2010)
Chem Rev
, vol.110
, pp. 949-1017
-
-
Shaik, S.1
Cohen, S.2
Wang, Y.3
-
22
-
-
21944432511
-
Theoretical perspective on the structure and mechanism of cytochrome P450 enzymes
-
Shaik S, Kumar D, de Visser SP, et al. Theoretical perspective on the structure and mechanism of cytochrome P450 enzymes. Chem Rev 2005;105: 2279-328
-
(2005)
Chem Rev
, vol.105
, pp. 2279-2328
-
-
Shaik, S.1
Kumar, D.2
De Visser, S.P.3
-
23
-
-
0034692380
-
A model "rebound" mechanism of hydroxylation by cytochrome P450: Stepwise and effectively concerted pathways, and their reactivity patterns
-
Ogliaro F, Harris N, Cohen S, et al. A model "rebound" mechanism of hydroxylation by cytochrome P450: stepwise and effectively concerted pathways, and their reactivity patterns. J Am Chem Soc 2000;122: 8977-89
-
(2000)
J Am Chem Soc
, vol.122
, pp. 8977-8989
-
-
Ogliaro, F.1
Harris, N.2
Cohen, S.3
-
24
-
-
84880978136
-
Quantum-mechanical studies of reactions performed by cytochrome P450 enzymes
-
Rydberg P, Olsen L, Ryde U. Quantum-mechanical studies of reactions performed by cytochrome P450 enzymes. Curr Inorg Chem 2012;2: 292-315
-
(2012)
Curr Inorg Chem
, vol.2
, pp. 292-315
-
-
Rydberg, P.1
Olsen, L.2
Ryde, U.3
-
25
-
-
0034823190
-
Multi-state epoxidation of ethene by cytochrome P450: A quantum chemical study
-
de Visser SP, Ogliaro F, Harris N, Shaik S. Multi-state epoxidation of ethene by cytochrome P450: a quantum chemical study. J Am Chem Soc 2001;123: 3037-47
-
(2001)
J Am Chem Soc
, vol.123
, pp. 3037-3047
-
-
De Visser, S.P.1
Ogliaro, F.2
Harris, N.3
Shaik, S.4
-
26
-
-
0037009994
-
What factors affect the regioselectivity of oxidation by cytochrome P450? A DFT study of allylic hydroxylation and double bond epoxidation in a model reaction
-
de Visser SP, Ogliaro F, Sharma PK, Shaik S. What factors affect the regioselectivity of oxidation by cytochrome P450? A DFT study of allylic hydroxylation and double bond epoxidation in a model reaction. J Am Chem Soc 2002;124: 11809-26
-
(2002)
J Am Chem Soc
, vol.124
, pp. 11809-11826
-
-
De Visser, S.P.1
Ogliaro, F.2
Sharma, P.K.3
Shaik, S.4
-
27
-
-
0038110968
-
A proton-shuttle mechanism mediated by the porphyrin in benzene hydroxylation by cytochrome P450 enzymes
-
de Visser SP, Shaik S. A proton-shuttle mechanism mediated by the porphyrin in benzene hydroxylation by cytochrome P450 enzymes. J Am Chem Soc 2003;125: 7413-24
-
(2003)
J Am Chem Soc
, vol.125
, pp. 7413-7424
-
-
De Visser, S.P.1
Shaik, S.2
-
28
-
-
0344236096
-
Aromatic hydroxylation by cytochrome P450: Model calculations of mechanism and substituent effects
-
Bathelt CM, Ridder L, Mulholland AJ, Harvey JN. Aromatic hydroxylation by cytochrome P450: model calculations of mechanism and substituent effects. J Am Chem Soc 2003;125: 15004-5
-
(2003)
J Am Chem Soc
, vol.125
, pp. 15004-15005
-
-
Bathelt, C.M.1
Ridder, L.2
Mulholland, A.J.3
Harvey, J.N.4
-
29
-
-
34250641915
-
Formation of the active species of cytochrome p450 by using iodosylbenzene: A case for spin-selective reactivity
-
Cho K-B, Moreau Y, Kumar D, et al. Formation of the active species of cytochrome p450 by using iodosylbenzene: a case for spin-selective reactivity. Chemistry 2007;13: 4103-15
-
(2007)
Chemistry
, vol.13
, pp. 4103-4115
-
-
Cho, K.-B.1
Moreau, Y.2
Kumar, D.3
-
30
-
-
36049015436
-
Which oxidant is really responsible for sulfur oxidation by cytochrome P450?
-
Li C, Zhang L, Zhang C, et al. Which oxidant is really responsible for sulfur oxidation by cytochrome P450? Angew Chem Int Ed 2007;46: 8168-70
-
(2007)
Angew Chem Int Ed
, vol.46
, pp. 8168-8170
-
-
Li, C.1
Zhang, L.2
Zhang, C.3
-
31
-
-
58149157800
-
Sulfoxide, sulfur, and nitrogen oxidation and dealkylation by cytochrome P450
-
Rydberg P, Ryde U, Olsen L. Sulfoxide, sulfur, and nitrogen oxidation and dealkylation by cytochrome P450. J Chem Theor Comput 2008;4: 1369-77
-
(2008)
J Chem Theor Comput
, vol.4
, pp. 1369-1377
-
-
Rydberg, P.1
Ryde, U.2
Olsen, L.3
-
32
-
-
0037960909
-
Can a single oxidant with two spin states masquerade as two different oxidants? A study of the sulfoxidation mechanism by cytochrome p450
-
Sharma PK, de Visser SP, Shaik S. Can a single oxidant with two spin states masquerade as two different oxidants? A study of the sulfoxidation mechanism by cytochrome p450. J Am Chem Soc 2003;125: 8698-9
-
(2003)
J Am Chem Soc
, vol.125
, pp. 8698-8699
-
-
Sharma, P.K.1
De Visser, S.P.2
Shaik, S.3
-
33
-
-
20144373398
-
Sulfoxidation mechanisms catalyzed by cytochrome P450 and horseradish peroxidase models: Spin selection induced by the ligand
-
Kumar D, de Visser SP, Sharma PK, et al. Sulfoxidation mechanisms catalyzed by cytochrome P450 and horseradish peroxidase models: spin selection induced by the ligand. Biochemistry 2005;44: 8148-58
-
(2005)
Biochemistry
, vol.44
, pp. 8148-8158
-
-
Kumar, D.1
De Visser, S.P.2
Sharma, P.K.3
-
34
-
-
78149341694
-
Inclusion of dispersion effects significantly improves accuracy of calculated reaction barriers for cytochrome P450 catalyzed reactions
-
Lonsdale R, Harvey JN, Mulholland AJ. Inclusion of dispersion effects significantly improves accuracy of calculated reaction barriers for cytochrome P450 catalyzed reactions. J Phys Chem Lett 2010;1: 3232-7
-
(2010)
J Phys Chem Lett
, vol.1
, pp. 3232-3237
-
-
Lonsdale, R.1
Harvey, J.N.2
Mulholland, A.J.3
-
35
-
-
84869025099
-
Effects of dispersion in density functional based quantum mechanical/molecular mechanical calculations on cytochrome P450 catalyzed reactions
-
Lonsdale R, Harvey JN, Mulholland AJ. Effects of dispersion in density functional based quantum mechanical/molecular mechanical calculations on cytochrome P450 catalyzed reactions. J Chem Theor Comput 2012;8: 4637-45
-
(2012)
J Chem Theor Comput
, vol.8
, pp. 4637-4645
-
-
Lonsdale, R.1
Harvey, J.N.2
Mulholland, A.J.3
-
36
-
-
3142730759
-
A predictive pattern of computed barriers for C-h hydroxylation by compound i of cytochrome p450
-
de Visser SP, Kumar D, Cohen S, et al. A predictive pattern of computed barriers for C-h hydroxylation by compound I of cytochrome p450. J Am Chem Soc 2004;126: 8362-3
-
(2004)
J Am Chem Soc
, vol.126
, pp. 8362-8363
-
-
De Visser, S.P.1
Kumar, D.2
Cohen, S.3
-
37
-
-
33750486521
-
Prediction of activation energies for hydrogen abstraction by cytochrome p450
-
Olsen L, Rydberg P, Rod TH, Ryde U. Prediction of activation energies for hydrogen abstraction by cytochrome p450. J Med Chem 2006;49: 6489-99
-
(2006)
J Med Chem
, vol.49
, pp. 6489-6499
-
-
Olsen, L.1
Rydberg, P.2
Rod, T.H.3
Ryde, U.4
-
38
-
-
8344222648
-
Mechanism and structurereactivity relationships for aromatic hydroxylation by cytochrome P450
-
Bathelt CM, Ridder L, Mulholland AJ, Harvey JN. Mechanism and structurereactivity relationships for aromatic hydroxylation by cytochrome P450. Org Biomol Chem 2004;2: 2998-3005
-
(2004)
Org Biomol Chem
, vol.2
, pp. 2998-3005
-
-
Bathelt, C.M.1
Ridder, L.2
Mulholland, A.J.3
Harvey, J.N.4
-
39
-
-
34548451620
-
Systematic study on the mechanism of aldehyde oxidation to carboxylic acid by cytochrome P450
-
Lui X, Wang Y, Han K. Systematic study on the mechanism of aldehyde oxidation to carboxylic acid by cytochrome P450. J Biol Inorg Chem 2007;12: 1073-81
-
(2007)
J Biol Inorg Chem
, vol.12
, pp. 1073-1081
-
-
Lui, X.1
Wang, Y.2
Han, K.3
-
40
-
-
58149166592
-
Prediction of activation energies for aromatic oxidation by cytochrome P450
-
Rydberg P, Ryde U, Olsen L. Prediction of activation energies for aromatic oxidation by cytochrome P450. J Phys Chem A 2008;112: 13058-65
-
(2008)
J Phys Chem A
, vol.112
, pp. 13058-13065
-
-
Rydberg, P.1
Ryde, U.2
Olsen, L.3
-
41
-
-
84859208478
-
A pragmatic approach using first-principle methods to address site of metabolism with implications for reactive metabolite formation
-
Hsiao Y-W, Petersson C, Svensson MA, Norinder U. A pragmatic approach using first-principle methods to address site of metabolism with implications for reactive metabolite formation. J Chem Inf Model 2012;52: 686-95
-
(2012)
J Chem Inf Model
, vol.52
, pp. 686-695
-
-
Hsiao, Y.-W.1
Petersson, C.2
Svensson, M.A.3
Norinder, U.4
-
42
-
-
84872328870
-
Nitrogen inversion barriers affect the N-oxidation of tertiary alkylamines by cytochromes P450
-
Rydberg P, Jørgensen MS, Jacobsen TA, et al. Nitrogen inversion barriers affect the N-oxidation of tertiary alkylamines by cytochromes P450. Angew Chem Int Ed 2013;52: 993-7
-
(2013)
Angew Chem Int Ed
, vol.52
, pp. 993-997
-
-
Rydberg, P.1
Jørgensen, M.S.2
Jacobsen, T.A.3
-
43
-
-
33847035148
-
State-of-the-art tools for computational site of metabolism predictions: Comparative analysis, mechanistical insights, and future applications
-
Afzelius L, Arnby CH, Broo A, et al. State-of-the-art tools for computational site of metabolism predictions: comparative analysis, mechanistical insights, and future applications. Drug Metab Rev 2007;39: 61-86
-
(2007)
Drug Metab Rev
, vol.39
, pp. 61-86
-
-
Afzelius, L.1
Arnby, C.H.2
Broo, A.3
-
45
-
-
77953932263
-
SMARTCyp: A 2D method for prediction of cytochrome P450-mediated drug metabolism
-
Rydberg P, Gloriam DE, Zaretzki J, et al. SMARTCyp: a 2D method for prediction of cytochrome P450-mediated drug metabolism. ACS Med Chem Lett 2010;1: 96-100
-
(2010)
ACS Med Chem Lett
, vol.1
, pp. 96-100
-
-
Rydberg, P.1
Gloriam, D.E.2
Zaretzki, J.3
-
46
-
-
84875797401
-
The contribution of atom accessibility to site of metabolism models for cytochromes P450
-
Rydberg P, Rostkowski M, Gloriam DE, Olsen L. The contribution of atom accessibility to site of metabolism models for cytochromes P450. Mol Pharmaceutics 2013;10: 1216-23
-
(2013)
Mol Pharmaceutics
, vol.10
, pp. 1216-1223
-
-
Rydberg, P.1
Rostkowski, M.2
Gloriam, D.E.3
Olsen, L.4
-
47
-
-
33646092472
-
Crystal structure of human cytochrome P450 2D6
-
Rowland P, Blaney FE, Smyth MG, et al. Crystal structure of human cytochrome P450 2D6. J Biol Chem 2006;281: 7614-22
-
(2006)
J Biol Chem
, vol.281
, pp. 7614-7622
-
-
Rowland, P.1
Blaney, F.E.2
Smyth, M.G.3
-
48
-
-
84855867453
-
Ligand-based site of metabolism prediction for cytochrome P450 2D6
-
Rydberg P, Olsen L. Ligand-based site of metabolism prediction for cytochrome P450 2D6. ACS Med Chem Lett 2011;3: 69-73
-
(2011)
ACS Med Chem Lett
, vol.3
, pp. 69-73
-
-
Rydberg, P.1
Olsen, L.2
-
49
-
-
4143143372
-
The structure of human cytochrome P450 2C9 complexed with flurbiprofen at 2.0-A° resolution
-
Wester MR, Yano JK, Schoch GA, et al. The structure of human cytochrome P450 2C9 complexed with flurbiprofen at 2.0-A° resolution. J Biol Chem 2004;279: 35630-7
-
(2004)
J Biol Chem
, vol.279
, pp. 35630-35637
-
-
Wester, M.R.1
Yano, J.K.2
Schoch, G.A.3
-
50
-
-
84862894909
-
2D SMARTCyp reactivity-based site of metabolism prediction for major drugmetabolizing cytochrome P450 enzymes
-
Liu R, Liu J, Tawa G, Wallqvist A. 2D SMARTCyp reactivity-based site of metabolism prediction for major drugmetabolizing cytochrome P450 enzymes. J Chem Inf Model 2012;52: 1698-712
-
(2012)
J Chem Inf Model
, vol.52
, pp. 1698-1712
-
-
Liu, R.1
Liu, J.2
Tawa, G.3
Wallqvist, A.4
-
51
-
-
84862888243
-
Predicting drug metabolism by cytochrome P450 2C9: Comparison with the 2D6 and 3A4 isoforms
-
Rydberg P, Olsen L. Predicting drug metabolism by cytochrome P450 2C9: comparison with the 2D6 and 3A4 isoforms. ChemMedChem 2012;7: 1202-9
-
(2012)
ChemMedChem
, vol.7
, pp. 1202-1209
-
-
Rydberg, P.1
Olsen, L.2
-
52
-
-
45749087429
-
Regioselectivity prediction of CYP1A2- mediated phase i metabolism
-
Jung J, Kim ND, Kim SY, et al. Regioselectivity prediction of CYP1A2- mediated phase I metabolism. J Chem Inf Model 2008;48: 1074-80
-
(2008)
J Chem Inf Model
, vol.48
, pp. 1074-1080
-
-
Jung, J.1
Kim, N.D.2
Kim, S.Y.3
-
53
-
-
0036136527
-
Computational models for cytochrome P450: A predictive electronic model for aromatic oxidation and hydrogen atom abstraction
-
Jones JP, Mysinger M, Korzekwa KR. Computational models for cytochrome P450: a predictive electronic model for aromatic oxidation and hydrogen atom abstraction. Drug Metab Dispos 2002;30: 7-12
-
(2002)
Drug Metab Dispos
, vol.30
, pp. 7-12
-
-
Jones, J.P.1
Mysinger, M.2
Korzekwa, K.R.3
-
54
-
-
80052380142
-
Structure-based site of metabolism prediction for cytochrome P450 2D6
-
Moors SLC, Vos AM, Cummings MD, et al. Structure-based site of metabolism prediction for cytochrome P450 2D6. J Med Chem 2011;54: 6098-105
-
(2011)
J Med Chem
, vol.54
, pp. 6098-6105
-
-
Moors, S.L.C.1
Vos, A.M.2
Cummings, M.D.3
-
55
-
-
80052949153
-
Potentially increasing the metabolic stability of drug candidates via computational site of metabolism prediction by CYP2C9: The utility of incorporating protein flexibility via an ensemble of structures
-
Danielson ML, Desai PV, Mohutsky MA, et al. Potentially increasing the metabolic stability of drug candidates via computational site of metabolism prediction by CYP2C9: the utility of incorporating protein flexibility via an ensemble of structures. Eur J Med Chem 2011;46: 3953-63
-
(2011)
Eur J Med Chem
, vol.46
, pp. 3953-3963
-
-
Danielson, M.L.1
Desai, P.V.2
Mohutsky, M.A.3
-
56
-
-
84879596752
-
Prediction of cytochrome P450 xenobiotic metabolism: Tethered docking and reactivity derived from ligand molecular orbital analysis
-
Tyzack JD, Williamson MJ, Torella R, Glen RC. Prediction of cytochrome P450 xenobiotic metabolism: tethered docking and reactivity derived from ligand molecular orbital analysis. J Chem Inf Model 2013;53: 1294-305
-
(2013)
J Chem Inf Model
, vol.53
, pp. 1294-1305
-
-
Tyzack, J.D.1
Williamson, M.J.2
Torella, R.3
Glen, R.C.4
-
57
-
-
58149107172
-
Transition-state docking of flunitrazepam and progesterone in cytochrome P450
-
Rydberg P, Hansen SM, Kongsted J, et al. Transition-state docking of flunitrazepam and progesterone in cytochrome P450. J Chem Theory Comput 2008;4: 673-81
-
(2008)
J Chem Theory Comput
, vol.4
, pp. 673-681
-
-
Rydberg, P.1
Hansen, S.M.2
Kongsted, J.3
-
58
-
-
35948961951
-
General transition-state force field for cytochrome P450 hydroxylation
-
Rydberg P, Olsen L, Norrby P-O, Ryde U. General transition-state force field for cytochrome P450 hydroxylation. J Chem Theory Comput 2007;3: 1765-73
-
(2007)
J Chem Theory Comput
, vol.3
, pp. 1765-1773
-
-
Rydberg, P.1
Olsen, L.2
Norrby, P.-O.3
Ryde, U.4
-
59
-
-
84866663451
-
Development of a computational tool to rival experts in the prediction of sites of metabolism of xenobiotics by p450s
-
Campagna-Slater V, Pottel J, Therrien E, et al. Development of a computational tool to rival experts in the prediction of sites of metabolism of xenobiotics by p450s. J Chem Inf Model 2012;52: 2471-83
-
(2012)
J Chem Inf Model
, vol.52
, pp. 2471-2483
-
-
Campagna-Slater, V.1
Pottel, J.2
Therrien, E.3
-
60
-
-
84876719258
-
Combined quantum mechanics/molecular mechanics (QM/MM) methods in computational enzymology
-
van der Kamp MW, Mulholland AJ. Combined quantum mechanics/molecular mechanics (QM/MM) methods in computational enzymology. Biochemistry 2013;52: 2708-28
-
(2013)
Biochemistry
, vol.52
, pp. 2708-2728
-
-
Van Der Kamp, M.W.1
Mulholland, A.J.2
-
61
-
-
21244497608
-
Ab initio quantum chemical and mixed quantum mechanics/molecular mechanics (QM/ MM) methods for studying enzymatic catalysis
-
Friesner RA, Guallar V. Ab initio quantum chemical and mixed quantum mechanics/molecular mechanics (QM/ MM) methods for studying enzymatic catalysis. Annu Rev Phys Chem 2005;56: 389-427
-
(2005)
Annu Rev Phys Chem
, vol.56
, pp. 389-427
-
-
Friesner, R.A.1
Guallar, V.2
-
62
-
-
80053305889
-
Does compound i vary significantly between isoforms of cytochrome P450?
-
Lonsdale R, Oláh J, Mulholland AJ, Harvey JN. Does compound I vary significantly between isoforms of cytochrome P450? J Am Chem Soc 2011;133: 15464-74
-
(2011)
J Am Chem Soc
, vol.133
, pp. 15464-15474
-
-
Lonsdale, R.1
Oláh, J.2
Mulholland, A.J.3
Harvey, J.N.4
-
63
-
-
33748041154
-
Does substrate oxidation determine the regioselectivity of cyclohexene and propene oxidation by cytochrome P450?
-
Cohen S, Kozuch S, Hazan C, Shaik S. Does substrate oxidation determine the regioselectivity of cyclohexene and propene oxidation by cytochrome P450? J Am Chem Soc 2006;128: 11028-9
-
(2006)
J Am Chem Soc
, vol.128
, pp. 11028-11029
-
-
Cohen, S.1
Kozuch, S.2
Hazan, C.3
Shaik, S.4
-
65
-
-
12144287949
-
Quantum mechanical/molecular mechanical investigation of the mechanism of C-H hydroxylation of camphor by cytochrome P450cam: Theory supports a two-state rebound mechanism
-
Schöneboom JC, Cohen S, Lin H, et al. Quantum mechanical/molecular mechanical investigation of the mechanism of C-H hydroxylation of camphor by cytochrome P450cam: theory supports a two-state rebound mechanism. J Am Chem Soc 2004;126: 4017-34
-
(2004)
J Am Chem Soc
, vol.126
, pp. 4017-4034
-
-
Schöneboom, J.C.1
Cohen, S.2
Lin, H.3
-
66
-
-
0038472409
-
Peripheral heme substituents control the hydrogen-atom abstraction chemistry in cytochromes P450
-
Guallar V, Baik M-H, Lippard SJ, Friesner RA. Peripheral heme substituents control the hydrogen-atom abstraction chemistry in cytochromes P450. Proc Natl Acad Sci USA 2003;100: 6998-7002
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 6998-7002
-
-
Guallar, V.1
Baik, M.-H.2
Lippard, S.J.3
Friesner, R.A.4
-
67
-
-
33750157202
-
Mechanisms of reaction in cytochrome P450: Hydroxylation of camphor in P450cam
-
Zurek J, Foloppe N, Harvey JN, Mulholland AJ. Mechanisms of reaction in cytochrome P450: hydroxylation of camphor in P450cam. Org Biomol Chem 2006;4: 3931-7
-
(2006)
Org Biomol Chem
, vol.4
, pp. 3931-3937
-
-
Zurek, J.1
Foloppe, N.2
Harvey, J.N.3
Mulholland, A.J.4
-
68
-
-
33645452758
-
The effect of heme environment on the hydrogen abstraction reaction of camphor in P450cam catalysis: A QM/ MM study
-
Altun A, Guallar V, Friesner RA, et al. The effect of heme environment on the hydrogen abstraction reaction of camphor in P450cam catalysis: a QM/ MM study. J Am Chem Soc 2006;128: 3924-5
-
(2006)
J Am Chem Soc
, vol.128
, pp. 3924-3925
-
-
Altun, A.1
Guallar, V.2
Friesner, R.A.3
-
69
-
-
58149161538
-
QM/MM modeling of benzene hydroxylation in human cytochrome P450 2C9
-
Bathelt CM, Mulholland AJ, Harvey JN. QM/MM modeling of benzene hydroxylation in human cytochrome P450 2C9. J Phys Chem A 2008;112: 13149-56
-
(2008)
J Phys Chem A
, vol.112
, pp. 13149-13156
-
-
Bathelt, C.M.1
Mulholland, A.J.2
Harvey, J.N.3
-
70
-
-
79954997862
-
Understanding the determinants of selectivity in drug metabolism through modeling of dextromethorphan oxidation by cytochrome P450
-
Oláh J, Mulholland AJ, Harvey JN. Understanding the determinants of selectivity in drug metabolism through modeling of dextromethorphan oxidation by cytochrome P450. Proc Natl Acad Sci USA 2011;108: 6050-5
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 6050-6055
-
-
Oláh, J.1
Mulholland, A.J.2
Harvey, J.N.3
-
71
-
-
84878410503
-
Quantum mechanics/molecular mechanics modeling of regioselectivity of drug metabolism in cytochrome P450 2C9
-
Lonsdale R, Houghton KT, Zurek J, et al. Quantum mechanics/molecular mechanics modeling of regioselectivity of drug metabolism in cytochrome P450 2C9. J Am Chem Soc 2013;135: 8001-15
-
(2013)
J Am Chem Soc
, vol.135
, pp. 8001-8015
-
-
Lonsdale, R.1
Houghton, K.T.2
Zurek, J.3
-
72
-
-
79957765003
-
The directive of the protein: How does cytochrome P450 select the mechanism of dopamine formation?
-
Schyman P, Lai W, Chen H, et al. The directive of the protein: how does cytochrome P450 select the mechanism of dopamine formation? J Am Chem Soc 2011;133: 7977-84
-
(2011)
J Am Chem Soc
, vol.133
, pp. 7977-7984
-
-
Schyman, P.1
Lai, W.2
Chen, H.3
-
73
-
-
84863848211
-
Cytochrome P450- catalyzed degradation of nicotine: Fundamental parameters determining hydroxylation by cytochrome P450 2A6 at the 5'-carbon or the N-methyl carbon
-
Kwiecien RA, Le Questel J-Y, Lebreton J, et al. Cytochrome P450- catalyzed degradation of nicotine: fundamental parameters determining hydroxylation by cytochrome P450 2A6 at the 5'-carbon or the N-methyl carbon. J Phys Chem B 2012;116: 7827-40
-
(2012)
J Phys Chem B
, vol.116
, pp. 7827-7840
-
-
Kwiecien, R.A.1
Le Questel, J.-Y.2
Lebreton, J.3
-
74
-
-
84874051061
-
Catalytic mechanism of cytochrome P450 for N-methylhydroxylation of nicotine: Reaction pathways and regioselectivity of the enzymatic nicotine oxidation
-
Li D, Huang X, Lin J, Zhan C-G. Catalytic mechanism of cytochrome P450 for N-methylhydroxylation of nicotine: reaction pathways and regioselectivity of the enzymatic nicotine oxidation. Dalton Transactions 2013;42: 3812-20
-
(2013)
Dalton Transactions
, vol.42
, pp. 3812-3820
-
-
Li, D.1
Huang, X.2
Lin, J.3
Zhan, C.-G.4
-
75
-
-
0017794351
-
Measurement of substrate and inhibitor binding to microsomal cytochrome P-450 by optical-difference spectroscopy
-
Jefcoate CR. Measurement of substrate and inhibitor binding to microsomal cytochrome P-450 by optical-difference spectroscopy. Methods Enzymol 1978;52: 258-79
-
(1978)
Methods Enzymol
, vol.52
, pp. 258-279
-
-
Jefcoate, C.R.1
-
76
-
-
58149173952
-
How do azoles inhibit cytochrome P450 enzymes? A density functional study
-
Balding PR, Porro CS, McLean KJ, et al. How do azoles inhibit cytochrome P450 enzymes? A density functional study. J Phys Chem A 2008;112: 12911-18
-
(2008)
J Phys Chem A
, vol.112
, pp. 12911-12918
-
-
Balding, P.R.1
Porro, C.S.2
McLean, K.J.3
-
77
-
-
79960228477
-
Quantitatively interpreted enhanced inhibition of cytochrome P450s by heteroaromatic rings containing nitrogen
-
Leach AG, Kidley NJ. Quantitatively interpreted enhanced inhibition of cytochrome P450s by heteroaromatic rings containing nitrogen. J Chem Inf Model 2011;51: 1048-63
-
(2011)
J Chem Inf Model
, vol.51
, pp. 1048-1063
-
-
Leach, A.G.1
Kidley, N.J.2
-
78
-
-
84856211828
-
Binding free energies of inhibitors to iron porphyrin complex as a model for cytochrome P450
-
Lee JY, Kang NS, Kang YK. Binding free energies of inhibitors to iron porphyrin complex as a model for cytochrome P450. Biopolymers 2012;97: 219-28
-
(2012)
Biopolymers
, vol.97
, pp. 219-228
-
-
Lee, J.Y.1
Kang, N.S.2
Kang, Y.K.3
-
79
-
-
84856168445
-
Comment on "binding free energies of inhibitors to iron porphyrin complex as a model for cytochrome p450"
-
Rydberg P. Comment on "binding free energies of inhibitors to iron porphyrin complex as a model for cytochrome p450". Biopolymers 2012;97: 250-1
-
(2012)
Biopolymers
, vol.97
, pp. 250-251
-
-
Rydberg, P.1
-
80
-
-
78650379608
-
Aldehyde oxidase: An enzyme of emerging importance in drug discovery
-
Pryde DC, Dalvie D, Hu Q, et al. Aldehyde oxidase: an enzyme of emerging importance in drug discovery. J Med Chem 2010;53: 8441-60
-
(2010)
J Med Chem
, vol.53
, pp. 8441-8460
-
-
Pryde, D.C.1
Dalvie, D.2
Hu, Q.3
-
81
-
-
34648830277
-
Use of density functional calculations to predict the regioselectivity of drugs and molecules metabolized by aldehyde oxidase
-
Torres RA, Korzekwa KR, McMasters DR, et al. Use of density functional calculations to predict the regioselectivity of drugs and molecules metabolized by aldehyde oxidase. J Med Chem 2007;50: 4642-7
-
(2007)
J Med Chem
, vol.50
, pp. 4642-4647
-
-
Torres, R.A.1
Korzekwa, K.R.2
McMasters, D.R.3
-
82
-
-
84870012251
-
The first mammalian aldehyde oxidase crystal structure: Insights into substrate specificity
-
Coelho C, Mahro M, Trincão J, et al. The first mammalian aldehyde oxidase crystal structure: insights into substrate specificity. J Biol Chem 2012;287: 40690-702
-
(2012)
J Biol Chem
, vol.287
, pp. 40690-40702
-
-
Coelho, C.1
Mahro, M.2
Trincão, J.3
-
83
-
-
57449102053
-
Studies on the mechanism of aldehyde oxidase and xanthine oxidase
-
Alfaro JF, Jones JP. Studies on the mechanism of aldehyde oxidase and xanthine oxidase. J Org Chem 2008;73: 9469-72
-
(2008)
J Org Chem
, vol.73
, pp. 9469-9472
-
-
Alfaro, J.F.1
Jones, J.P.2
-
84
-
-
84875779531
-
Predicting intrinsic clearance for drugs and drug candidates metabolized by aldehyde oxidase
-
Jones JP, Korzekwa KR. Predicting intrinsic clearance for drugs and drug candidates metabolized by aldehyde oxidase. Mol Pharm 2013;10: 1262-8
-
(2013)
Mol Pharm
, vol.10
, pp. 1262-1268
-
-
Jones, J.P.1
Korzekwa, K.R.2
-
85
-
-
19444375492
-
Mammalian flavin-containing monooxygenases: Structure/function, genetic polymorphisms and role in drug metabolism
-
Krueger SK, Williams DE. Mammalian flavin-containing monooxygenases: structure/function, genetic polymorphisms and role in drug metabolism. Pharmacol Ther 2005;106: 357-87
-
(2005)
Pharmacol Ther
, vol.106
, pp. 357-387
-
-
Krueger, S.K.1
Williams, D.E.2
-
86
-
-
80053915772
-
Role of the somersault rearrangement in the oxidation step for flavin monooxygenases (FMO). A comparison between FMO and conventional xenobiotic oxidation with hydroperoxides
-
Bach RD. Role of the somersault rearrangement in the oxidation step for flavin monooxygenases (FMO). A comparison between FMO and conventional xenobiotic oxidation with hydroperoxides. J Phys Chem A 2011;115: 11087-100
-
(2011)
J Phys Chem A
, vol.115
, pp. 11087-11100
-
-
Bach, R.D.1
-
87
-
-
0344531014
-
Electronic requirements for oxygen atom transfer from alkyl hydroperoxides model studies on multisubstrate flavin-containing monooxygenases
-
Bach RD, Dmitrenko O. Electronic requirements for oxygen atom transfer from alkyl hydroperoxides. model studies on multisubstrate flavin-containing monooxygenases. J Phys Chem B 2003;107: 12851-61
-
(2003)
J Phys Chem B
, vol.107
, pp. 12851-12861
-
-
Bach, R.D.1
Dmitrenko, O.2
-
88
-
-
0037195664
-
Neutral versus charged species in enzyme catalysis. Classical and free energy barriers for oxygen atom transfer from C4a-hydroperoxyflavin to dimethyl sulfide
-
Canepa C, Bach RD, Dmitrenko O. Neutral versus charged species in enzyme catalysis. Classical and free energy barriers for oxygen atom transfer from C4a-hydroperoxyflavin to dimethyl sulfide. J Org Chem 2002;67: 8653-61
-
(2002)
J Org Chem
, vol.67
, pp. 8653-8661
-
-
Canepa, C.1
Bach, R.D.2
Dmitrenko, O.3
-
89
-
-
79851473205
-
S-oxidation of thiazolidinedione with hydrogen peroxide, peroxynitrous acid, and C4a-hydroperoxyflavin: A theoretical study
-
Taxak N, Parmar V, Patel DS, et al. S-oxidation of thiazolidinedione with hydrogen peroxide, peroxynitrous acid, and C4a-hydroperoxyflavin: a theoretical study. J Phys Chem A 2011;115: 891-8
-
(2011)
J Phys Chem A
, vol.115
, pp. 891-898
-
-
Taxak, N.1
Parmar, V.2
Patel, D.S.3
-
90
-
-
34347235844
-
Adaptations for the oxidation of polycyclic aromatic hydrocarbons exhibited by the structure of human P450 1A2
-
Sansen S, Yano JK, Reynald RL, et al. Adaptations for the oxidation of polycyclic aromatic hydrocarbons exhibited by the structure of human P450 1A2. J Biol Chem 2007;282: 14348-55
-
(2007)
J Biol Chem
, vol.282
, pp. 14348-14355
-
-
Sansen, S.1
Yano, J.K.2
Reynald, R.L.3
-
91
-
-
84871813154
-
Structural characterization of human cytochrome P450 2C19: Active site differences between P450s 2C8, 2C9, and 2C19
-
Reynald RL, Sansen S, Stout CD, Johnson EF. Structural characterization of human cytochrome P450 2C19: active site differences between P450s 2C8, 2C9, and 2C19. J Biol Chem 2012;287: 44581-91
-
(2012)
J Biol Chem
, vol.287
, pp. 44581-44591
-
-
Reynald, R.L.1
Sansen, S.2
Stout, C.D.3
Johnson, E.F.4
|