5XVC image
Deposition Date 2017-06-27
Release Date 2018-06-27
Last Version Date 2024-10-16
Entry Detail
PDB ID:
5XVC
Keywords:
OXIDOREDUCTASE
Title:
[NiFe]-hydrogenase (Hyb-type) from Citrobacter sp. S-77 in a ferricyanide-oxidized condition
Biological Source:
Source Organism:
Citrobacter sp. S-77 (Taxon ID: 1080067)
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.05 Å
R-Value Free:
0.21
R-Value Work:
0.16
R-Value Observed:
0.16
Space Group:
P 1 21 1
5XVC validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:[NiFe]-hydrogenase 2 large subunit
Chain IDs:A (auth: L), C (auth: M)
Chain Length:552
Number of Molecules:2
Biological Source:Citrobacter sp. S-77
UniProt ID:A0A3B6UEQ1 Pfam ID:PF00374
Protein Blast
Polymer Type:polypeptide(L)
Molecule:[NiFe]-hydrogenase 2 small subunit
Chain IDs:B (auth: S), D (auth: T)
Chain Length:335
Number of Molecules:2
Biological Source:Citrobacter sp. S-77
UniProt ID:A0A3B6UEQ0 Pfam ID:PF01058, PF14720
Ligand Molecules
8JU
F3S
MG
NFV
PEG
SF4
Primary Citation
Redox-dependent conformational changes of a proximal [4Fe-4S] cluster in Hyb-type [NiFe]-hydrogenase to protect the active site from O2.
Chem.Commun.(Camb.) 54 12385 12388 (2018)
PMID: 30328414 DOI: 10.1039/c8cc06261g

Abstact

Citrobacter sp. S-77 [NiFe]-hydrogenase harbors a standard [4Fe-4S] cluster proximal to the Ni-Fe active site. The presence of relocatable water molecules and a flexible aspartate enables the [4Fe-4S] to display redox-dependent conformational changes. These structural features are proposed to be the key aspects that protect the active site from O2 attack.

Legend

Protein

Chemical

Disease

Primary Citation of related structures
5XVC