Structural analysis of Cytochrome P450 BM3 mutant M11 in complex with dithiothreitol

Karla Frydenvang; Marlies C A Verkade-Vreeker; Floor Dohmen; Jan N M Commandeur; Maria Rafiq; Osman Mirza; Flemming Steen Jørgensen; Daan P Geerke

doi:10.1371/journal.pone.0217292

Structural analysis of Cytochrome P450 BM3 mutant M11 in complex with dithiothreitol

Karla Frydenvang, Marlies C A Verkade-Vreeker, Floor Dohmen, Jan N M Commandeur, Maria Rafiq, Osman Mirza, Flemming Steen Jørgensen, Daan P Geerke

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Abstract

The bacterial Cytochrome P450 (CYP) BM3 (CYP102A1) is one of the most active CYP isoforms. BM3 mutants can serve as a model for human drug-metabolizing CYPs and/or as biocatalyst for selective formation of drug metabolites. Hence, molecular and computational biologists have in the last two decades shown strong interest in the discovery and design of novel BM3 variants with optimized activity and selectivity for substrate conversion. This led e.g. to the discovery of mutant M11 that is able to metabolize a variety of drugs and drug-like compounds with relatively high activity. In order to further improve our understanding of CYP binding and reactions, we performed a co-crystallization study of mutant M11 and report here the three-dimensional structure M11 in complex with dithiothreitol (DTT) at a resolution of 2.16 A. The structure shows that DTT can coordinate to the Fe atom in the heme group. UV/Vis spectroscopy and molecular dynamics simulation studies underline this finding and as first structure of the CYP BM3 mutant M11 in complex with a ligand, it offers a basis for structure-based design of novel mutants.

Originalsprog	Engelsk
Artikelnummer	e0217292
Tidsskrift	PLoS ONE
Vol/bind	14
Udgave nummer	5
Antal sider	15
ISSN	1932-6203
DOI	https://doi.org/10.1371/journal.pone.0217292
Status	Udgivet - maj 2019

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10.1371/journal.pone.0217292Licens: CC BY

journal.pone.0217292Forlagets udgivne version, 1,96 MBLicens: CC BY

Citationsformater

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title = "Structural analysis of Cytochrome P450 BM3 mutant M11 in complex with dithiothreitol",

abstract = "The bacterial Cytochrome P450 (CYP) BM3 (CYP102A1) is one of the most active CYP isoforms. BM3 mutants can serve as a model for human drug-metabolizing CYPs and/or as biocatalyst for selective formation of drug metabolites. Hence, molecular and computational biologists have in the last two decades shown strong interest in the discovery and design of novel BM3 variants with optimized activity and selectivity for substrate conversion. This led e.g. to the discovery of mutant M11 that is able to metabolize a variety of drugs and drug-like compounds with relatively high activity. In order to further improve our understanding of CYP binding and reactions, we performed a co-crystallization study of mutant M11 and report here the three-dimensional structure M11 in complex with dithiothreitol (DTT) at a resolution of 2.16 A. The structure shows that DTT can coordinate to the Fe atom in the heme group. UV/Vis spectroscopy and molecular dynamics simulation studies underline this finding and as first structure of the CYP BM3 mutant M11 in complex with a ligand, it offers a basis for structure-based design of novel mutants.",

author = "Karla Frydenvang and Verkade-Vreeker, {Marlies C A} and Floor Dohmen and Commandeur, {Jan N M} and Maria Rafiq and Osman Mirza and J{\o}rgensen, {Flemming Steen} and Geerke, {Daan P}",

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AU - Frydenvang, Karla

AU - Verkade-Vreeker, Marlies C A

AU - Dohmen, Floor

AU - Commandeur, Jan N M

AU - Rafiq, Maria

AU - Mirza, Osman

AU - Jørgensen, Flemming Steen

AU - Geerke, Daan P

PY - 2019/5

Y1 - 2019/5

N2 - The bacterial Cytochrome P450 (CYP) BM3 (CYP102A1) is one of the most active CYP isoforms. BM3 mutants can serve as a model for human drug-metabolizing CYPs and/or as biocatalyst for selective formation of drug metabolites. Hence, molecular and computational biologists have in the last two decades shown strong interest in the discovery and design of novel BM3 variants with optimized activity and selectivity for substrate conversion. This led e.g. to the discovery of mutant M11 that is able to metabolize a variety of drugs and drug-like compounds with relatively high activity. In order to further improve our understanding of CYP binding and reactions, we performed a co-crystallization study of mutant M11 and report here the three-dimensional structure M11 in complex with dithiothreitol (DTT) at a resolution of 2.16 A. The structure shows that DTT can coordinate to the Fe atom in the heme group. UV/Vis spectroscopy and molecular dynamics simulation studies underline this finding and as first structure of the CYP BM3 mutant M11 in complex with a ligand, it offers a basis for structure-based design of novel mutants.

AB - The bacterial Cytochrome P450 (CYP) BM3 (CYP102A1) is one of the most active CYP isoforms. BM3 mutants can serve as a model for human drug-metabolizing CYPs and/or as biocatalyst for selective formation of drug metabolites. Hence, molecular and computational biologists have in the last two decades shown strong interest in the discovery and design of novel BM3 variants with optimized activity and selectivity for substrate conversion. This led e.g. to the discovery of mutant M11 that is able to metabolize a variety of drugs and drug-like compounds with relatively high activity. In order to further improve our understanding of CYP binding and reactions, we performed a co-crystallization study of mutant M11 and report here the three-dimensional structure M11 in complex with dithiothreitol (DTT) at a resolution of 2.16 A. The structure shows that DTT can coordinate to the Fe atom in the heme group. UV/Vis spectroscopy and molecular dynamics simulation studies underline this finding and as first structure of the CYP BM3 mutant M11 in complex with a ligand, it offers a basis for structure-based design of novel mutants.

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DO - 10.1371/journal.pone.0217292

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JO - PLoS Computational Biology

JF - PLoS Computational Biology

IS - 5

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ER -

Structural analysis of Cytochrome P450 BM3 mutant M11 in complex with dithiothreitol

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