Quantum Refinement Does Not Support Dinuclear Copper Sites in Crystal Structures of Particulate Methane Monooxygenase
Cao, Lili LU ; Caldararu, Octav LU ; Rosenzweig, Amy C. and Ryde, Ulf LU
(2018)
In Angewandte Chemie - International Edition
57(1).
p.162-166
- Abstract
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... (More)
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.
(Less)
- author
- Cao, Lili
LU
; Caldararu, Octav
LU
; Rosenzweig, Amy C.
and Ryde, Ulf
LU
- organization
- publishing date
- 2018-01-02
- type
- Contribution to journal
- publication status
- published
- subject
- keywords
- copper, density functional theory, particulate methane monooxygenase, quantum refinement
- in
- Angewandte Chemie - International Edition
- volume
- 57
- issue
- 1
- pages
- 5 pages
- publisher
- John Wiley & Sons Inc.
- external identifiers
-
- pmid:29164769
- scopus:85039050887
- ISSN
- 1433-7851
- DOI
- 10.1002/anie.201708977
- project
- Computational Studies of Nitrogenase
- language
- English
- LU publication?
- yes
- id
- dbd56fa0-8972-4cc4-8d12-4575729eb36b
- date added to LUP
- 2018-01-05 10:09:46
- date last changed
- 2024-04-14 22:56:17
@article{dbd56fa0-8972-4cc4-8d12-4575729eb36b,
abstract = {{<p>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.</p>}},
author = {{Cao, Lili and Caldararu, Octav and Rosenzweig, Amy C. and Ryde, Ulf}},
issn = {{1433-7851}},
keywords = {{copper; density functional theory; particulate methane monooxygenase; quantum refinement}},
language = {{eng}},
month = {{01}},
number = {{1}},
pages = {{162--166}},
publisher = {{John Wiley & Sons Inc.}},
series = {{Angewandte Chemie - International Edition}},
title = {{Quantum Refinement Does Not Support Dinuclear Copper Sites in Crystal Structures of Particulate Methane Monooxygenase}},
url = {{https://lup.lub.lu.se/search/files/42439651/227_pmmo_angew.pdf}},
doi = {{10.1002/anie.201708977}},
volume = {{57}},
year = {{2018}},
}