5JSY image
Entry Detail
PDB ID:
5JSY
Keywords:
Title:
The 3D structure of the Ni-reconstituted U489C variant of [NiFeSe] hydrogenase from Desulfovibrio vulgaris Hildenborough at 1.04 Angstrom resolution
Biological Source:
PDB Version:
Deposition Date:
2016-05-09
Release Date:
2017-03-22
Method Details:
Experimental Method:
Resolution:
1.04 Å
R-Value Free:
0.12
R-Value Work:
0.11
R-Value Observed:
0.11
Space Group:
C 1 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Periplasmic [NiFeSe] hydrogenase, small subunit
Chain IDs:A
Chain Length:317
Number of Molecules:1
Biological Source:Desulfovibrio vulgaris str. Hildenborough
Polymer Type:polypeptide(L)
Description:Periplasmic [NiFeSe] hydrogenase, large subunit, selenocysteine-containing
Chain IDs:B
Chain Length:507
Number of Molecules:1
Biological Source:Desulfovibrio vulgaris str. Hildenborough
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
OCS B SEC modified residue
Primary Citation
The direct role of selenocysteine in [NiFeSe] hydrogenase maturation and catalysis.
Nat. Chem. Biol. 13 544 550 (2017)
PMID: 28319099 DOI: 10.1038/nchembio.2335

Abstact

Hydrogenases are highly active enzymes for hydrogen production and oxidation. [NiFeSe] hydrogenases, in which selenocysteine is a ligand to the active site Ni, have high catalytic activity and a bias for H2 production. In contrast to [NiFe] hydrogenases, they display reduced H2 inhibition and are rapidly reactivated after contact with oxygen. Here we report an expression system for production of recombinant [NiFeSe] hydrogenase from Desulfovibrio vulgaris Hildenborough and study of a selenocysteine-to-cysteine variant (Sec489Cys) in which, for the first time, a [NiFeSe] hydrogenase was converted to a [NiFe] type. This modification led to severely reduced Ni incorporation, revealing the direct involvement of this residue in the maturation process. The Ni-depleted protein could be partly reconstituted to generate an enzyme showing much lower activity and inactive states characteristic of [NiFe] hydrogenases. The Ni-Sec489Cys variant shows that selenium has a crucial role in protection against oxidative damage and the high catalytic activities of the [NiFeSe] hydrogenases.

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