5XMJ image
Deposition Date 2017-05-15
Release Date 2018-06-06
Last Version Date 2023-11-22
Entry Detail
PDB ID:
5XMJ
Title:
Crystal structure of quinol:fumarate reductase from Desulfovibrio gigas
Biological Source:
Method Details:
Experimental Method:
Resolution:
3.60 Å
R-Value Free:
0.31
R-Value Work:
0.23
R-Value Observed:
0.23
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:fumarate reductase flavoprotein subunit
Chain IDs:A, D (auth: E), G (auth: I), J (auth: M)
Chain Length:627
Number of Molecules:4
Biological Source:Desulfovibrio gigas
Polymer Type:polypeptide(L)
Molecule:Succinate dehydrogenase iron-sulfur subunit
Chain IDs:B, E (auth: F), H (auth: J), K (auth: N)
Chain Length:264
Number of Molecules:4
Biological Source:Desulfovibrio gigas DSM 1382 = ATCC 19364
Polymer Type:polypeptide(L)
Molecule:fumarate reductase respiratory complex
Chain IDs:C, F (auth: G), I (auth: K), L (auth: O)
Chain Length:218
Number of Molecules:4
Biological Source:Desulfovibrio gigas
Primary Citation
Structural insights into the electron/proton transfer pathways in the quinol:fumarate reductase from Desulfovibrio gigas.
Sci Rep 8 14935 14935 (2018)
PMID: 30297797 DOI: 10.1038/s41598-018-33193-5

Abstact

The membrane-embedded quinol:fumarate reductase (QFR) in anaerobic bacteria catalyzes the reduction of fumarate to succinate by quinol in the anaerobic respiratory chain. The electron/proton-transfer pathways in QFRs remain controversial. Here we report the crystal structure of QFR from the anaerobic sulphate-reducing bacterium Desulfovibrio gigas (D. gigas) at 3.6 Å resolution. The structure of the D. gigas QFR is a homo-dimer, each protomer comprising two hydrophilic subunits, A and B, and one transmembrane subunit C, together with six redox cofactors including two b-hemes. One menaquinone molecule is bound near heme bL in the hydrophobic subunit C. This location of the menaquinone-binding site differs from the menaquinol-binding cavity proposed previously for QFR from Wolinella succinogenes. The observed bound menaquinone might serve as an additional redox cofactor to mediate the proton-coupled electron transport across the membrane. Armed with these structural insights, we propose electron/proton-transfer pathways in the quinol reduction of fumarate to succinate in the D. gigas QFR.

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