2WPN image
Deposition Date 2009-08-07
Release Date 2010-01-12
Last Version Date 2025-04-09
Entry Detail
PDB ID:
2WPN
Keywords:
Title:
Structure of the oxidised, as-isolated NiFeSe hydrogenase from D. vulgaris Hildenborough
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
2.04 Å
R-Value Free:
0.20
R-Value Work:
0.14
R-Value Observed:
0.14
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:PERIPLASMIC [NIFESE] HYDROGENASE, SMALL SUBUNIT
Gene (Uniprot):hysB
Chain IDs:A
Chain Length:317
Number of Molecules:1
Biological Source:DESULFOVIBRIO VULGARIS
Polymer Type:polypeptide(L)
Molecule:PERIPLASMIC [NIFESE] HYDROGENASE, LARGE SUBUNIT, SELENOCYSTEINE-CONTAINING
Gene (Uniprot):hysA
Chain IDs:B
Chain Length:495
Number of Molecules:1
Biological Source:DESULFOVIBRIO VULGARIS
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
OCS B CYS CYSTEINESULFONIC ACID
PSW B SEC 3-(SULFANYLSELANYL)-L-ALANINE
Primary Citation
The three-dimensional structure of [NiFeSe] hydrogenase from Desulfovibrio vulgaris Hildenborough: a hydrogenase without a bridging ligand in the active site in its oxidised, "as-isolated" state.
J.Mol.Biol. 396 893 907 (2010)
PMID: 20026074 DOI: 10.1016/j.jmb.2009.12.013

Abstact

Hydrogen is a good energy vector, and its production from renewable sources is a requirement for its widespread use. [NiFeSe] hydrogenases (Hases) are attractive candidates for the biological production of hydrogen because they are capable of high production rates even in the presence of moderate amounts of O(2), lessening the requirements for anaerobic conditions. The three-dimensional structure of the [NiFeSe] Hase from Desulfovibrio vulgaris Hildenborough has been determined in its oxidised "as-isolated" form at 2.04-A resolution. Remarkably, this is the first structure of an oxidised Hase of the [NiFe] family that does not contain an oxide bridging ligand at the active site. Instead, an extra sulfur atom is observed binding Ni and Se, leading to a SeCys conformation that shields the NiFe site from contact with oxygen. This structure provides several insights that may explain the fast activation and O(2) tolerance of these enzymes.

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Primary Citation of related structures