Literature DB >> 12771375

Peripheral heme substituents control the hydrogen-atom abstraction chemistry in cytochromes P450.

Victor Guallar1, Mu-Hyun Baik, Stephen J Lippard, Richard A Friesner.   

Abstract

We elucidate the hydroxylation of camphor by cytochrome P450 with the use of density functional and mixed quantum mechanics/molecular mechanics methods. Our results reveal that the enzyme catalyzes the hydrogen-atom abstraction step with a remarkably low free-energy barrier. This result provides a satisfactory explanation for the experimental failure to trap the proposed catalytically competent high-valent heme Fe(IV) oxo (oxyferryl) species responsible for this hydroxylation chemistry. The primary and previously unappreciated contribution to stabilization of the transition state is the interaction of positively charged residues in the active-site cavity with carboxylate groups on the heme periphery. A similar stabilization found in dioxygen binding to hemerythrin, albeit with reversed polarity, suggests that this mechanism for controlling the relative energetics of redox-active intermediates and transition states in metalloproteins may be widespread in nature.

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Year:  2003        PMID: 12771375      PMCID: PMC165819          DOI: 10.1073/pnas.0732000100

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  14 in total

1.  Role of the heme active site and protein environment in structure, spectra, and function of the cytochrome p450s.

Authors:  G H Loew; D L Harris
Journal:  Chem Rev       Date:  2000-02-09       Impact factor: 60.622

2.  EPR-spectroscopy of reduced oxyferrous-P450cam.

Authors:  R Davydov; R Kappl; J Hüttermann; J A Peterson
Journal:  FEBS Lett       Date:  1991-12-16       Impact factor: 4.124

3.  Proton-transfer dynamics in the activation of cytochrome P450eryF.

Authors:  Victor Guallar; Danni L Harris; Victor S Batista; William H Miller
Journal:  J Am Chem Soc       Date:  2002-02-20       Impact factor: 15.419

4.  A theoretical study on the mechanism of camphor hydroxylation by compound I of cytochrome p450.

Authors:  Takashi Kamachi; Kazunari Yoshizawa
Journal:  J Am Chem Soc       Date:  2003-04-16       Impact factor: 15.419

5.  Intrinsic isotope effects suggest that the reaction coordinate symmetry for the cytochrome P-450 catalyzed hydroxylation of octane is isozyme independent.

Authors:  J P Jones; A E Rettie; W F Trager
Journal:  J Med Chem       Date:  1990-04       Impact factor: 7.446

6.  Dynamics of alkane hydroxylation at the non-heme diiron center in methane monooxygenase.

Authors:  Victor Guallar; Benjamin F Gherman; William H Miller; Stephen J Lippard; Richard A Friesner
Journal:  J Am Chem Soc       Date:  2002-04-03       Impact factor: 15.419

7.  Hydroxylation of camphor by reduced oxy-cytochrome P450cam: mechanistic implications of EPR and ENDOR studies of catalytic intermediates in native and mutant enzymes.

Authors:  R Davydov; T M Makris; V Kofman; D E Werst; S G Sligar; B M Hoffman
Journal:  J Am Chem Soc       Date:  2001-02-21       Impact factor: 15.419

8.  The catalytic pathway of cytochrome p450cam at atomic resolution.

Authors:  I Schlichting; J Berendzen; K Chu; A M Stock; S A Maves; D E Benson; R M Sweet; D Ringe; G A Petsko; S G Sligar
Journal:  Science       Date:  2000-03-03       Impact factor: 47.728

9.  Synthesis, structure and spectroscopic properties of two models for the active site of the oxygenated state of cytochrome P450 [corrected].

Authors:  M Schappacher; L Ricard; J Fischer; R Weiss; E Bill; R Montiel-Montoya; H Winkler; A X Trautwein
Journal:  Eur J Biochem       Date:  1987-10-15

10.  Reversible dioxygen binding to hemerythrin.

Authors:  Maria Wirstam; Stephen J Lippard; Richard A Friesner
Journal:  J Am Chem Soc       Date:  2003-04-02       Impact factor: 15.419

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  25 in total

1.  Molecular probes of the mechanism of cytochrome P450. Oxygen traps a substrate radical intermediate.

Authors:  Harriet L R Cooper; John T Groves
Journal:  Arch Biochem Biophys       Date:  2010-11-12       Impact factor: 4.013

2.  Successful application of the DBLOC method to the hydroxylation of camphor by cytochrome p450.

Authors:  Steven V Jerome; Thomas F Hughes; Richard A Friesner
Journal:  Protein Sci       Date:  2015-12-15       Impact factor: 6.725

Review 3.  Recent Progress in the Discovery of Next Generation Inhibitors of Aromatase from the Structure-Function Perspective.

Authors:  Debashis Ghosh; Jessica Lo; Chinaza Egbuta
Journal:  J Med Chem       Date:  2016-01-19       Impact factor: 7.446

Review 4.  A practical guide to modelling enzyme-catalysed reactions.

Authors:  Richard Lonsdale; Jeremy N Harvey; Adrian J Mulholland
Journal:  Chem Soc Rev       Date:  2012-01-26       Impact factor: 54.564

5.  The structure of coral allene oxide synthase reveals a catalase adapted for metabolism of a fatty acid hydroperoxide.

Authors:  Michael L Oldham; Alan R Brash; Marcia E Newcomer
Journal:  Proc Natl Acad Sci U S A       Date:  2004-12-29       Impact factor: 11.205

Review 6.  Integrated Modeling Program, Applied Chemical Theory (IMPACT).

Authors:  Jay L Banks; Hege S Beard; Yixiang Cao; Art E Cho; Wolfgang Damm; Ramy Farid; Anthony K Felts; Thomas A Halgren; Daniel T Mainz; Jon R Maple; Robert Murphy; Dean M Philipp; Matthew P Repasky; Linda Y Zhang; Bruce J Berne; Richard A Friesner; Emilio Gallicchio; Ronald M Levy
Journal:  J Comput Chem       Date:  2005-12       Impact factor: 3.376

7.  Intermediates in dioxygen activation by methane monooxygenase: a QM/MM study.

Authors:  David Rinaldo; Dean M Philipp; Stephen J Lippard; Richard A Friesner
Journal:  J Am Chem Soc       Date:  2007-02-28       Impact factor: 15.419

8.  The effect of heme environment on the hydrogen abstraction reaction of camphor in P450cam catalysis: a QM/MM study.

Authors:  Ahmet Altun; Victor Guallar; Richard A Friesner; Sason Shaik; Walter Thiel
Journal:  J Am Chem Soc       Date:  2006-03-29       Impact factor: 15.419

9.  Analysis of polarization in QM/MM modelling of biologically relevant hydrogen bonds.

Authors:  Kittusamy Senthilkumar; Jon I Mujika; Kara E Ranaghan; Frederick R Manby; Adrian J Mulholland; Jeremy N Harvey
Journal:  J R Soc Interface       Date:  2008-12-06       Impact factor: 4.118

10.  Electrostatic environment of hemes in proteins: pK(a)s of hydroxyl ligands.

Authors:  Yifan Song; Junjun Mao; M R Gunner
Journal:  Biochemistry       Date:  2006-07-04       Impact factor: 3.162

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