Structural dynamics of the cooperative binding of organic molecules in the human cytochrome P450 3A4.

Structural dynamics of the cooperative binding of organic molecules in the human cytochrome P450 3A4. Research Abstract Details 

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Structural dynamics of the cooperative binding of organic molecules in the human cytochrome P450 3A4. Abstract Text:

Dan Fishelovitch,Carina Hazan,Sason Shaik,Haim J Wolfson,Ruth Nussinov,

Cytochrome P450 3A4 (CYP3A4) is a key enzyme responsible for the metabolism of 50% of all orally administered drugs which exhibit an intriguing kinetic behavior typified by a sigmoidal dependence of the reaction velocity on the substrate concentration. There is evidence for the binding of two substrates in the active site of the enzyme, but the mechanism of this cooperative binding is unclear. Diazepam is such a drug that undergoes metabolism by CYP3A4 with sigmoidal dependence. Metabolism is initiated by hydrogen atom abstraction from the drug. To understand the factors that determine the cooperative binding and the juxtaposition of the C-H bond undergoing abstraction, we carried out molecular dynamics simulations for two enzymatic conformers and examined the differences between the substrate-free and the bound enzymes, with one and two diazepam molecules. Our results indicate that the effector substrate interacts both with the active substrate and with the enzyme, and that this interaction results in side chain reorientation with relatively minor long-range effects. In accord with experiment, we find that F304, in the interface between the active and effector binding sites, is a key residue in the mechanism of cooperative binding. The addition of the effector substrate stabilizes F304 and its environment, especially F213, and induces a favorable orientation of the active substrate, leading to a short distance between the targeted hydrogen for abstraction and the active species of the enzyme. In addition, in one conformer of the enzyme, residue R212 may strongly interact with F304 and counteract the effector's impact on the enzyme.

Structural dynamics of the cooperative binding of organic molecules in the human cytochrome P450 3A4. Publishing Authors By Initials

D Fishelovitch,C Hazan,S Shaik,HJ Wolfson,R Nussinov,

For similar natural sciences: physics: thermodynamics research abstracts see: natural sciences: physics: thermodynamics research

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Structural dynamics of the cooperative binding of organic molecules in the human cytochrome P450 3A4. Journal Published:

PUBLICATION TYPE: Research Support, Non-U.S. Gov

Journal: Journal of the American Chemical Society

VOLUME: 129

Page Numbers: 1602-11

Journal Abbreviation: J. Am. Chem. Soc.

ISSN: 0002-7863

DAY: 14

MONTH: Feb

YEAR: 2007

Structural dynamics of the cooperative binding of organic molecules in the human cytochrome P450 3A4. Information

Number of References:

LANGUAGE: eng

NlmUniqueID: 7503056

Structural dynamics of the cooperative binding of organic molecules in the human cytochrome P450 3A4. Keywords Mesh Terms:

KEYWORDS: Thermodynamics

MESH TERMS: metabolism

Chemical & Substance for Abstract: Structural dynamics of the cooperative binding of organic molecules in the human cytochrome P450 3A4. Information

Substance Name: CYP3A4 protein, human

Registry Number: EC 1.14.13.67

Grant and Affiliation Information for Structural dynamics of the cooperative binding of organic molecules in the human cytochrome P450 3A4.

AFFILIATION: Department of Human Genetics, Sackler Institute of Molecular Medicine, Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv 69978, Israel.

Country: United States

AGENCY: United States NCI

GRANT: N01-CO-12400

ACRONYM: CO

MEDLINETA: J Am Chem Soc

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