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Quantum Refinement Does Not Support Dinuclear Copper Sites in Crystal Structures of Particulate Methane Monooxygenase
Author(s) -
Cao Lili,
Caldararu Octav,
Rosenzweig Amy C.,
Ryde Ulf
Publication year - 2018
Publication title -
angewandte chemie international edition
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 5.831
H-Index - 550
eISSN - 1521-3773
pISSN - 1433-7851
DOI - 10.1002/anie.201708977
Subject(s) - methane monooxygenase , chemistry , active site , crystal structure , copper , methane , molecule , crystal (programming language) , metal , crystallography , enzyme , organic chemistry , computer science , programming language
Particulate methane monooxygenase (pMMO) is one of the few enzymes that can activate methane. The metal content of this enzyme has been highly controversial, with suggestions of a dinuclear Fe site or mono‐, di‐, or trinuclear Cu sites. Crystal structures have shown a mono‐ or dinuclear Cu site, but the resolution was low and the geometry of the dinuclear site unusual. We have employed quantum refinement (crystallographic refinement enhanced with quantum‐mechanical calculations) to improve the structure of the active site. We compared a number of different mono‐ and dinuclear geometries, in some cases enhanced with more protein ligands or one or two water molecules, to determine which structure fits two sets of crystallographic raw data best. In all cases, the best results were obtained with mononuclear Cu sites, occasionally with an extra water molecule. Thus, we conclude that there is no crystallographic support for a dinuclear Cu site in pMMO.