7T30 image
Deposition Date 2021-12-06
Release Date 2022-03-16
Last Version Date 2024-12-25
Entry Detail
PDB ID:
7T30
Keywords:
Title:
Structure of electron bifurcating Ni-Fe hydrogenase complex HydABCSL in FMN/NAD(H) bound state
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
3.00 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:NiFe hydrogenase subunit A
Gene (Uniprot):Anamo_1677
Chain IDs:A, F
Chain Length:692
Number of Molecules:2
Biological Source:Acetomicrobium mobile
Polymer Type:polypeptide(L)
Molecule:NiFe hydrogenase subunit B
Gene (Uniprot):Anamo_1678
Chain IDs:B, G
Chain Length:597
Number of Molecules:2
Biological Source:Acetomicrobium mobile
Polymer Type:polypeptide(L)
Molecule:NiFe hydrogenase subunit C
Gene (Uniprot):Anamo_1681
Chain IDs:C, H
Chain Length:156
Number of Molecules:2
Biological Source:Acetomicrobium mobile
Polymer Type:polypeptide(L)
Molecule:NiFe hydrogenase large subunit
Gene (Uniprot):Anamo_1675
Chain IDs:D, I
Chain Length:475
Number of Molecules:2
Biological Source:Acetomicrobium mobile
Polymer Type:polypeptide(L)
Molecule:NiFe hydrogenase small subunit
Gene (Uniprot):Anamo_1676
Chain IDs:E, J
Chain Length:179
Number of Molecules:2
Biological Source:Acetomicrobium mobile
Primary Citation
Structure and electron transfer pathways of an electron-bifurcating NiFe-hydrogenase.
Sci Adv 8 eabm7546 eabm7546 (2022)
PMID: 35213221 DOI: 10.1126/sciadv.abm7546

Abstact

Electron bifurcation enables thermodynamically unfavorable biochemical reactions. Four groups of bifurcating flavoenzyme are known and three use FAD to bifurcate. FeFe-HydABC hydrogenase represents the fourth group, but its bifurcation site is unknown. We report cryo-EM structures of the related NiFe-HydABCSL hydrogenase that reversibly oxidizes H2 and couples endergonic reduction of ferredoxin with exergonic reduction of NAD. FMN surrounded by a unique arrangement of iron sulfur clusters forms the bifurcating center. NAD binds to FMN in HydB, and electrons from H2 via HydA to a HydB [4Fe-4S] cluster enable the FMN to reduce NAD. Low-potential electron transfer from FMN to the HydC [2Fe-2S] cluster and subsequent reduction of a uniquely penta-coordinated HydB [2Fe-2S] cluster require conformational changes, leading to ferredoxin binding and reduction by a [4Fe-4S] cluster in HydB. This work clarifies the electron transfer pathways for a large group of hydrogenases underlying many essential functions in anaerobic microorganisms.

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Primary Citation of related structures