-
1
-
-
4644275807
-
Mechanism of oxidation reactions catalyzed by cytochrome P450 enzymes
-
Meunier, B., De Visser, S. P., & Shaik, S. Mechanism of oxidation reactions catalyzed by cytochrome P450 enzymes. Chem. Rev. 104, 3947-3980 (2004
-
(2004)
Chem. Rev
, vol.104
, pp. 3947-3980
-
-
Meunier, B.1
De Visser, S.P.2
Shaik, S.3
-
2
-
-
84892226337
-
Cytochrome P450: Structure
-
3rd edn (ed. Ortiz De Montellano, P. R.) Ch. 2 Plenum
-
Shaik, S., & De Visser, S. P. in Cytochrome P450: Structure, Mechanism, and Biochemistry 3rd edn (ed. Ortiz De Montellano, P. R.) Ch. 2, 45-85 (Plenum, 2005
-
(2005)
Mechanism, and Biochemistry
, pp. 45-85
-
-
Shaik, S.1
De Visser, S.P.2
-
3
-
-
84855952259
-
P450(BM3) (CYP102A1): Connecting the dots
-
Whitehouse, C. J., Bell, S. G., & Wong, L. L. P450(BM3) (CYP102A1): connecting the dots. Chem. Soc. Rev. 41, 1218-1260 (2012
-
(2012)
Chem. Soc. Rev
, vol.41
, pp. 1218-1260
-
-
Whitehouse, C.J.1
Bell, S.G.2
Wong, L.L.3
-
4
-
-
84868318849
-
Diversity of P450 enzymes in the biosynthesis of natural products
-
Podust, L. M., & Sherman, D. H. Diversity of P450 enzymes in the biosynthesis of natural products. Nat. Prod. Rep. 29, 1251-1266 (2012
-
(2012)
Nat. Prod. Rep
, vol.29
, pp. 1251-1266
-
-
Podust, L.M.1
Sherman, D.H.2
-
5
-
-
84868333860
-
Substrate recognition by the multifunctional cytochrome P450 MycG in mycinamicin hydroxylation and epoxidation reactions
-
Li, S., et al. Substrate recognition by the multifunctional cytochrome P450 MycG in mycinamicin hydroxylation and epoxidation reactions. J. Biol. Chem. 287, 37880-37890 (2012
-
(2012)
J. Biol. Chem
, vol.287
, pp. 37880-37890
-
-
Li, S.1
-
6
-
-
84945156966
-
-
4th edn (ed. Ortiz De Montellano, P. R.) Ch. 3 Springer
-
Denisov, I. G., & Sligar, S. G. in Cytochrome P450: Structure, Mechanism, and Biochemistry 4th edn (ed. Ortiz De Montellano, P. R.) Ch. 3, 69-109 (Springer, 2015
-
(2015)
Cytochrome P450: Structure Mechanism, and Biochemistry
, pp. 69-109
-
-
Denisov, I.G.1
Sligar, S.G.2
-
7
-
-
84966636913
-
Cytochrome P450: Structure
-
4th edn (ed. Ortiz De Montellano, P. R.) Ch. 4 Springer
-
Ortiz De Montellano, P. R. in Cytochrome P450: Structure, Mechanism, and Biochemistry 4th edn (ed. Ortiz De Montellano, P. R.) Ch. 4, 111-176 (Springer, 2015
-
(2015)
Mechanism, and Biochemistry
, pp. 111-176
-
-
Ortiz De Montellano, P.R.1
-
8
-
-
77956314063
-
Conformational plasticity and structure/function relationships in cytochromes P450
-
Pochapsky, T. C., Kazanis, S., & Dang, M. Conformational plasticity and structure/function relationships in cytochromes P450. Antioxid. Redox Signal. 13, 1273-1296 (2010
-
(2010)
Antioxid. Redox Signal
, vol.13
, pp. 1273-1296
-
-
Pochapsky, T.C.1
Kazanis, S.2
Dang, M.3
-
10
-
-
0029643786
-
Structure and function of cytochromes P450: A comparative analysis of three crystal structures
-
Hasemann, C. A., Kurumbali, R. G., Boddupalli, S. S., Peterson, J. A., & Diesenhofer, J. Structure and function of cytochromes P450: a comparative analysis of three crystal structures. Structure 2, 41-62 (1995
-
(1995)
Structure
, vol.2
, pp. 41-62
-
-
Hasemann, C.A.1
Kurumbali, R.G.2
Boddupalli, S.S.3
Peterson, J.A.4
Diesenhofer, J.5
-
11
-
-
0344824425
-
Cytochrome P450 flexibility
-
Poulos, T. L. Cytochrome P450 flexibility. Proc. Natl Acad. Sci. USA 100, 13121-13122 (2003
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 13121-13122
-
-
Poulos, T.L.1
-
12
-
-
36148958632
-
Engineered alkanehydroxylating cytochrome P450(BM3) exhibiting nativelike catalytic properties
-
Fasan, R., Chen, M. M., Crook, N. C., & Arnold, F. H. Engineered alkanehydroxylating cytochrome P450(BM3) exhibiting nativelike catalytic properties. Angew. Chem. Int. Ed. 46, 8414-8418 (2007
-
(2007)
Angew. Chem. Int. Ed.
, vol.46
, pp. 8414-8418
-
-
Fasan, R.1
Chen, M.M.2
Crook, N.C.3
Arnold, F.H.4
-
13
-
-
0034613190
-
Crystal structure of a thermophilic cytochrome P450 from the archaeon Sulfolobus solfataricus
-
Yano, J. K., et al. Crystal structure of a thermophilic cytochrome P450 from the archaeon Sulfolobus solfataricus. J. Biol. Chem. 275, 31086-31092 (2000
-
(2000)
J. Biol. Chem
, vol.275
, pp. 31086-31092
-
-
Yano, J.K.1
-
14
-
-
77956013893
-
Structure of cytochrome P450 PimD suggests epoxidation of the polyene macrolide pimaricin occurs via a hydroperoxoferric intermediate
-
Kells, P. M., Ouellet, H., Santos-Aberturas, J., Aparicio, J. F., & Podust, L. M. Structure of cytochrome P450 PimD suggests epoxidation of the polyene macrolide pimaricin occurs via a hydroperoxoferric intermediate. Chem. Biol. 17, 841-851 (2010
-
(2010)
Chem. Biol
, vol.17
, pp. 841-851
-
-
Kells, P.M.1
Ouellet, H.2
Santos-Aberturas, J.3
Aparicio, J.F.4
Podust, L.M.5
-
15
-
-
84878242072
-
Structural analysis of HmtT and HmtN involved in the tailoring steps of himastatin biosynthesis
-
Zhang, H., et al. Structural analysis of HmtT and HmtN involved in the tailoring steps of himastatin biosynthesis. FEBS Lett. 587, 1675-1680 (2013
-
(2013)
FEBS Lett
, vol.587
, pp. 1675-1680
-
-
Zhang, H.1
-
16
-
-
9644264047
-
Regioselective nitration of tryptophan by a complex between bacterial nitric-oxide synthase and tryptophanyl-tRNA synthetase
-
Buddha, M. R., Tao, T., Parry, R. J., & Crane, B. R. Regioselective nitration of tryptophan by a complex between bacterial nitric-oxide synthase and tryptophanyl-tRNA synthetase. J. Biol. Chem. 279, 49567-49570 (2004
-
(2004)
J. Biol. Chem
, vol.279
, pp. 49567-49570
-
-
Buddha, M.R.1
Tao, T.2
Parry, R.J.3
Crane, B.R.4
-
17
-
-
34547515662
-
Biosynthesis of nitro compounds
-
Winkler, R., & Hertweck, C. Biosynthesis of nitro compounds. ChemBioChem 8, 973-977 (2007
-
(2007)
ChemBioChem
, vol.8
, pp. 973-977
-
-
Winkler, R.1
Hertweck, C.2
-
18
-
-
77952926530
-
Nitroaromatic compounds, from synthesis to biodegradation
-
Ju, K. S., & Parales, R. E. Nitroaromatic compounds, from synthesis to biodegradation. Microbiol. Mol. Biol. Rev. 74, 250-272 (2010
-
(2010)
Microbiol. Mol. Biol. Rev
, vol.74
, pp. 250-272
-
-
Ju, K.S.1
Parales, R.E.2
-
19
-
-
84870301242
-
Cytochrome P450-catalyzed L-tryptophan nitration in thaxtomin phytotoxin biosynthesis
-
Barry, S. M., et al. Cytochrome P450-catalyzed L-tryptophan nitration in thaxtomin phytotoxin biosynthesis. Nature Chem. Biol. 8, 814-816 (2012
-
(2012)
Nature Chem. Biol
, vol.8
, pp. 814-816
-
-
Barry, S.M.1
-
20
-
-
84941144686
-
Structural, functional, and spectroscopic characterization of the substrate scope of the novel nitrating cytochrome P450 TxtE
-
Dodani, S. C., et al. Structural, functional, and spectroscopic characterization of the substrate scope of the novel nitrating cytochrome P450 TxtE. ChemBioChem 15, 2259-2267 (2014
-
(2014)
ChemBioChem
, vol.15
, pp. 2259-2267
-
-
Dodani, S.C.1
-
21
-
-
70350028665
-
Effect of conformational dynamics on substrate recognition and specificity as probed by the introduction of a de novo disulfide bond into cytochrome P450 2B1
-
Zhang, H., Kenaan, C., Hamdane, D., Hoa, G. H., & Hollenberg, P. F. Effect of conformational dynamics on substrate recognition and specificity as probed by the introduction of a De novo disulfide bond into cytochrome P450 2B1. J. Biol. Chem. 284, 25678-25686 (2009
-
(2009)
J. Biol. Chem
, vol.284
, pp. 25678-25686
-
-
Zhang, H.1
Kenaan, C.2
Hamdane, D.3
Hoa, G.H.4
Hollenberg, P.F.5
-
22
-
-
78149450633
-
Mechanism of the decrease in catalytic activity of human cytochrome P450 2C9 polymorphic variants investigated by computational analysis
-
Sano, E., et al. Mechanism of the decrease in catalytic activity of human cytochrome P450 2C9 polymorphic variants investigated by computational analysis. J Comput. Chem. 31, 2746-2758 (2010
-
(2010)
J Comput. Chem
, vol.31
, pp. 2746-2758
-
-
Sano, E.1
-
23
-
-
78649444586
-
Flexibility of human cytochrome P450 enzymes: Molecular dynamics and spectroscopy reveal important function-related variations
-
Hendrychova, T., et al. Flexibility of human cytochrome P450 enzymes: molecular dynamics and spectroscopy reveal important function-related variations. Biochim. Biophys. Acta 1814, 58-68 (2011
-
(2011)
Biochim. Biophys. Acta
, vol.1814
, pp. 58-68
-
-
Hendrychova, T.1
-
24
-
-
84857532829
-
Dynamics and hydration of the active sites of mammalian cytochromes P450 probed by molecular dynamics simulations
-
Hendrychova, T., Berka, K., Navratilova, V., Anzenbacher, P., & Otyepka, M. Dynamics and hydration of the active sites of mammalian cytochromes P450 probed by molecular dynamics simulations. Curr. DrugMetab. 13, 177-189 (2012
-
(2012)
Curr. DrugMetab
, vol.13
, pp. 177-189
-
-
Hendrychova, T.1
Berka, K.2
Navratilova, V.3
Anzenbacher, P.4
Otyepka, M.5
-
25
-
-
84869391133
-
Coupled flexibility change in cytochrome P450cam substrate binding determined by neutron scattering NMR and molecular dynamics simulation
-
Miao, Y., et al. Coupled flexibility change in cytochrome P450cam substrate binding determined by neutron scattering, NMR, and molecular dynamics simulation. Biophys. J. 103, 2167-2176 (2012
-
(2012)
Biophys. J.
, vol.103
, pp. 2167-2176
-
-
Miao, Y.1
-
26
-
-
84879421558
-
Low-temperature molecular dynamics simulations of horse heart cytochrome c and comparison with inelastic neutron scattering data
-
Pulawski, W., et al. Low-temperature molecular dynamics simulations of horse heart cytochrome c and comparison with inelastic neutron scattering data. Eur. Biophys. J. 42, 291-300 (2013
-
(2013)
Eur. Biophys. J.
, vol.42
, pp. 291-300
-
-
Pulawski, W.1
-
27
-
-
84879596358
-
Structural basis for the mutationinduced dysfunction of human CYP2J2: A computational study
-
Cong, S., Ma, X. T., Li, Y. X., & Wang, J. F. Structural basis for the mutationinduced dysfunction of human CYP2J2: a computational study. J. Chem. Inf. Model. 53, 1350-1357 (2013
-
(2013)
J. Chem. Inf. Model
, vol.53
, pp. 1350-1357
-
-
Cong, S.1
Ma, X.T.2
Li, Y.X.3
Wang, J.F.4
-
28
-
-
84896500187
-
Molecular dynamic investigations of the mutational effects on structural characteristics and tunnel geometry in CYP17A1
-
Cui, Y. L., et al. Molecular dynamic investigations of the mutational effects on structural characteristics and tunnel geometry in CYP17A1. J. Chem. Inf. Model. 53, 3308-3317 (2013
-
(2013)
J. Chem. Inf. Model
, vol.53
, pp. 3308-3317
-
-
Cui, Y.L.1
-
29
-
-
84900398592
-
Evaluation of influence of single nucleotide polymorphisms in cytochrome P450 2B6 on substrate recognition using computational docking and molecular dynamics simulation
-
Kobayashi, K., et al. Evaluation of influence of single nucleotide polymorphisms in cytochrome P450 2B6 on substrate recognition using computational docking and molecular dynamics simulation. PLoS ONE 9, e96789 (2014
-
(2014)
PLoS ONE
, vol.9
, pp. e96789
-
-
Kobayashi, K.1
-
30
-
-
84928890448
-
Molecular dynamics of the P450cam-Pdx complex reveals complex stability and novel interface contacts
-
Hollingsworth, S. A., & Poulos, T. L. Molecular dynamics of the P450cam-Pdx complex reveals complex stability and novel interface contacts. Protein Sci. 24, 49-57 (2015
-
(2015)
Protein Sci
, vol.24
, pp. 49-57
-
-
Hollingsworth, S.A.1
Poulos, T.L.2
-
31
-
-
84942825143
-
Investigation of ligand selectivity in CYP3A7 by molecular dynamics simulations
-
Fan, J. R., Zheng, Q. C., Cui, Y. L., Li, W. K., & Zhang, H. X. Investigation of ligand selectivity in CYP3A7 by molecular dynamics simulations. J. Biomol. Struct. Dyn. 33, 2360-2367 (2015
-
(2015)
J. Biomol. Struct. Dyn
, vol.33
, pp. 2360-2367
-
-
Fan, J.R.1
Zheng, Q.C.2
Cui, Y.L.3
Li, W.K.4
Zhang, H.X.5
-
32
-
-
84933565834
-
Dynamics, and function of the monooxygenase P450 BM-3: Insights from computer simulations studies
-
Roccatano, D. Structure, dynamics, and function of the monooxygenase P450 BM-3: insights from computer simulations studies. J. Phys. Condens. Matter 27, 273102 (2015
-
(2015)
J. Phys. Condens. Matter
, vol.27
, pp. 273102
-
-
Roccatano, D.1
Structure2
-
33
-
-
84937899531
-
Enzymatic hydroxylation of an unactivated methylene C-H bond guided by molecular dynamics simulations
-
Narayan, A. R., et al. Enzymatic hydroxylation of an unactivated methylene C-H bond guided by molecular dynamics simulations. Nature Chem. 7, 653-660 (2015
-
(2015)
Nature Chem
, vol.7
, pp. 653-660
-
-
Narayan, A.R.1
-
34
-
-
84936884769
-
Structural features and dynamic investigations of the membranebound cytochrome P450 17A1
-
Cui, Y. L., et al. Structural features and dynamic investigations of the membranebound cytochrome P450 17A1. Biochim. Biophys. Acta 1848, 2013-2021 (2015
-
(2015)
Biochim. Biophys. Acta
, vol.1848
, pp. 2013-2021
-
-
Cui, Y.L.1
-
35
-
-
84958983798
-
-
eds Bowman G. R. Pande V. S. & Noé F.) Ch. 6 Advances in Experimental Medicine and Biology Vol. 797 Springer
-
Noé, F., & Prinz, J.-H. in An Introduction to Markov State Models and Their Application to Long Timescale Molecular Simulation (eds Bowman, G. R., Pande, V. S., & Noé, F.) Ch. 6, 75-90 (Advances in Experimental Medicine and Biology Vol. 797, Springer, 2014
-
(2014)
An Introduction to Markov State Models and Their Application to Long Timescale Molecular Simulation
, pp. 75-90
-
-
Noé, F.1
Prinz, J.-H.2
-
36
-
-
77950159292
-
Enhanced modeling via network theory: Adaptive sampling of Markov state models
-
Bowman, G. R., Ensign, D. L., & Pande, V. S. Enhanced modeling via network theory: adaptive sampling of Markov state models. J. Chem. Theory Comput. 6, 787-794 (2010
-
(2010)
J. Chem. Theory Comput
, vol.6
, pp. 787-794
-
-
Bowman, G.R.1
Ensign, D.L.2
Pande, V.S.3
-
37
-
-
84964513069
-
Understanding protein dynamics with L1-regularized reversible hidden Markov models
-
: //arxiv.org/1405.1444
-
McGibbon, R. T., Ramsundar, B., Sultan, M. M., Kiss, G., & Pande, V. S. Understanding protein dynamics with L1-regularized reversible hidden Markov models. Preprint at http: //arxiv.org/1405.1444 (2014
-
(2014)
Preprint at
-
-
McGibbon, R.T.1
Ramsundar, B.2
Sultan, M.M.3
Kiss, G.4
Pande, V.S.5
-
38
-
-
84896715989
-
Structural insights into the mechanism for recognizing substrate of the cytochrome P450 enzyme TxtE
-
Yu, F., et al. Structural insights into the mechanism for recognizing substrate of the cytochrome P450 enzyme TxtE. PLoS One 8, e81526 (2013
-
(2013)
PLoS One
, vol.8
, pp. e81526
-
-
Yu, F.1
-
39
-
-
55949117962
-
-
eds Ferrario, M., Ciccotti, G., & Binder, K.) Lecture Notes in Physics Springer
-
Vanden-Eijnden, E. in Computer Simulations in Condensed Matter Systems: From Materials to Chemical Biology (eds Ferrario, M., Ciccotti, G., & Binder, K.) 453-493 (Lecture Notes in Physics Vol. 703, Springer, 2006
-
(2006)
Computer Simulations in Condensed Matter Systems: From Materials to Chemical Biology
, vol.703
, pp. 453-493
-
-
Anden-Eijnden, E.1
-
40
-
-
0037069395
-
Myoglobin scavenges peroxynitrite without being significantly nitrated
-
Herold, S., Shivashankar, K., & Mehl, M. Myoglobin scavenges peroxynitrite without being significantly nitrated. Biochemistry 41, 13460-13472 (2002
-
(2002)
Biochemistry
, vol.41
, pp. 13460-13472
-
-
Herold, S.1
Shivashankar, K.2
Mehl, M.3
-
41
-
-
3042802321
-
Peroxidase catalyzed nitration of tryptophan derivatives Mechanism, products and comparison with chemical nitrating agents
-
Sala, A., Nicolis, S., Roncone, R., Casella, L., & Monzani, E. Peroxidase catalyzed nitration of tryptophan derivatives. Mechanism, products and comparison with chemical nitrating agents. Eur. J. Biochem. 271, 2841-2852 (2004
-
(2004)
Eur. J. Biochem
, vol.271
, pp. 2841-2852
-
-
Sala, A.1
Nicolis, S.2
Roncone, R.3
Casella, L.4
Monzani, E.5
-
42
-
-
3342945275
-
Nitration and nitrosation of N-Acetyl-L-tryptophan and tryptophan residues in proteins by various reactive nitrogen species
-
Suzuki, T., et al. Nitration and nitrosation of N-Acetyl-L-tryptophan and tryptophan residues in proteins by various reactive nitrogen species. Free Radical Biol. Med. 37, 671-681 (2004
-
(2004)
Free Radical Biol. Med
, vol.37
, pp. 671-681
-
-
Suzuki, T.1
-
43
-
-
84907939387
-
Uncovering rare NADHpreferring ketol-Acid reductoisomerases
-
Brinkmann-Chen, S., Cahn, J. K., & Arnold, F. H. Uncovering rare NADHpreferring ketol-Acid reductoisomerases. Metab. Eng. 26C, 17-22 (2014
-
(2014)
Metab. Eng. 26C
, pp. 17-22
-
-
Brinkmann-Chen, S.1
Cahn, J.K.2
Arnold, F.H.3
-
44
-
-
0000600857
-
Reaction of peroxynitrite with L-tryptophan
-
Padmaja, S., Ramazenian, M. S., Bounds, P. L., & Koppenol, W. H. Reaction of peroxynitrite with L-tryptophan. Redox Rep. 2, 173-177 (1996
-
(1996)
Redox Rep
, vol.2
, pp. 173-177
-
-
Padmaja, S.1
Ramazenian, M.S.2
Bounds, P.L.3
Koppenol, W.H.4
-
45
-
-
1242293624
-
Nitrotyrosine dityrosine, and nitrotryptophan formation from metmyoglobin, hydrogen peroxide, and nitrite
-
Herold, S. Nitrotyrosine, dityrosine, and nitrotryptophan formation from metmyoglobin, hydrogen peroxide, and nitrite. Free Radic. Biol. Med. 36, 565-579 (2004
-
(2004)
Free Radic. Biol. Med
, vol.36
, pp. 565-579
-
-
Herold, S.1
-
46
-
-
33646923430
-
Reactive nitrogen species generated by heme proteins: Mechanism of formation and targets
-
Roncone, R., Barbieri, M., Monzani, E., & Casella, L. Reactive nitrogen species generated by heme proteins: mechanism of formation and targets. Coord. Chem. Rev. 250, 1286-1293 (2006
-
(2006)
Coord. Chem. Rev
, vol.250
, pp. 1286-1293
-
-
Roncone, R.1
Barbieri, M.2
Monzani, E.3
Casella, L.4
-
47
-
-
80054855465
-
Protein nitrotryptophan: Formation, significance and identification
-
Nuriel, T., Hansler, A., & Gross, S. S. Protein nitrotryptophan: formation, significance and identification. J. Proteomics 74, 2300-2312 (2011
-
(2011)
J. Proteomics
, vol.74
, pp. 2300-2312
-
-
Nuriel, T.1
Hansler, A.2
Gross, S.S.3
-
48
-
-
64849101493
-
Protein dynamism and evolvability
-
Tokuriki, N., & Tawfik, D. S. Protein dynamism and evolvability. Science 324, 203-207 (2009
-
(2009)
Science
, vol.324
, pp. 203-207
-
-
Tokuriki, N.1
Tawfik, D.S.2
-
49
-
-
84907713544
-
Engineering of flexible loops in enzymes
-
Nestl, B. M., & Hauer, B. Engineering of flexible loops in enzymes. ACS Catal. 4, 3201-3211 (2014
-
(2014)
ACS Catal
, vol.4
, pp. 3201-3211
-
-
Nestl, B.M.1
Hauer, B.2
|