7CDL image
Entry Detail
PDB ID:
7CDL
Keywords:
Title:
holo-methanol dehydrogenase (MDH) with Cys131-Cys132 reduced from Methylococcus capsulatus (Bath)
Biological Source:
PDB Version:
Deposition Date:
2020-06-20
Release Date:
2021-06-23
Method Details:
Experimental Method:
Resolution:
1.85 Å
R-Value Free:
0.19
R-Value Work:
0.15
R-Value Observed:
0.15
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Methanol dehydrogenase protein, large subunit
Chain IDs:A (auth: C), C (auth: D), E (auth: A), G (auth: B), I (auth: G), K (auth: H), M, O (auth: N)
Chain Length:573
Number of Molecules:8
Biological Source:Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)
Polymer Type:polypeptide(L)
Description:Methanol dehydrogenase [cytochrome c] subunit 2
Chain IDs:B (auth: K), D (auth: L), F (auth: E), H (auth: F), J (auth: I), L (auth: J), N (auth: O), P
Chain Length:72
Number of Molecules:8
Biological Source:Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)
Primary Citation
Mechanism of Pyrroloquinoline Quinone-Dependent Hydride Transfer Chemistry from Spectroscopic and High-Resolution X-ray Structural Studies of the Methanol Dehydrogenase from Methylococcus capsulatus (Bath).
J.Am.Chem.Soc. 143 3359 3372 (2021)
PMID: 33629832 DOI: 10.1021/jacs.0c11414

Abstact

The active site of methanol dehydrogenase (MDH) contains a rare disulfide bridge between adjacent cysteine residues. As a vicinal disulfide, the structure is highly strained, suggesting it might work together with the pyrroloquinoline quinone (PQQ) prosthetic group and the Ca2+ ion in the catalytic turnover during methanol (CH3OH) oxidation. We purify MDH from Methylococcus capsulatus (Bath) with the disulfide bridge broken into two thiols. Spectroscopic and high-resolution X-ray crystallographic studies of this form of MDH indicate that the disulfide bridge is redox active. We observe an internal redox process within the holo-MDH that produces a disulfide radical anion concomitant with a companion PQQ radical, as evidenced by an optical absorption at 408 nm and a magnetically dipolar-coupled biradical in the EPR spectrum. These observations are corroborated by electron-density changes between the two cysteine sulfurs of the disulfide bridge as well as between the bound Ca2+ ion and the O5-C5 bond of the PQQ in the high-resolution X-ray structure. On the basis of these findings, we propose a mechanism for the controlled redistribution of the two electrons during hydride transfer from the CH3OH in the alcohol oxidation without formation of the reduced PQQ ethenediol, a biradical mechanism that allows for possible recovery of the hydride for transfer to an external NAD+ oxidant in the regeneration of the PQQ cofactor for multiple catalytic turnovers. In support of this mechanism, a steady-state level of the disulfide radical anion is observed during turnover of the MDH in the presence of CH3OH and NAD+.

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