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Nickel in PDB 8pou: Crystal Structure of the C19G/C120G Variant of the Membrane-Bound [Nife]-Hydrogenase From Cupriavidus Necator in the Air-Oxidized State at 1.65 A Resolution.

Enzymatic activity of Crystal Structure of the C19G/C120G Variant of the Membrane-Bound [Nife]-Hydrogenase From Cupriavidus Necator in the Air-Oxidized State at 1.65 A Resolution.

All present enzymatic activity of Crystal Structure of the C19G/C120G Variant of the Membrane-Bound [Nife]-Hydrogenase From Cupriavidus Necator in the Air-Oxidized State at 1.65 A Resolution.:
1.12.99.6;

Protein crystallography data

The structure of Crystal Structure of the C19G/C120G Variant of the Membrane-Bound [Nife]-Hydrogenase From Cupriavidus Necator in the Air-Oxidized State at 1.65 A Resolution., PDB code: 8pou was solved by A.Schmidt, J.Kalms, P.Scheerer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.92 / 1.65
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 73.231, 95.74, 120.005, 90, 90, 90
R / Rfree (%) 13.2 / 16.1

Other elements in 8pou:

The structure of Crystal Structure of the C19G/C120G Variant of the Membrane-Bound [Nife]-Hydrogenase From Cupriavidus Necator in the Air-Oxidized State at 1.65 A Resolution. also contains other interesting chemical elements:

Magnesium (Mg) 1 atom
Chlorine (Cl) 3 atoms
Iron (Fe) 13 atoms

Nickel Binding Sites:

The binding sites of Nickel atom in the Crystal Structure of the C19G/C120G Variant of the Membrane-Bound [Nife]-Hydrogenase From Cupriavidus Necator in the Air-Oxidized State at 1.65 A Resolution. (pdb code 8pou). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total only one binding site of Nickel was determined in the Crystal Structure of the C19G/C120G Variant of the Membrane-Bound [Nife]-Hydrogenase From Cupriavidus Necator in the Air-Oxidized State at 1.65 A Resolution., PDB code: 8pou:

Nickel binding site 1 out of 1 in 8pou

Go back to Nickel Binding Sites List in 8pou
Nickel binding site 1 out of 1 in the Crystal Structure of the C19G/C120G Variant of the Membrane-Bound [Nife]-Hydrogenase From Cupriavidus Necator in the Air-Oxidized State at 1.65 A Resolution.


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Crystal Structure of the C19G/C120G Variant of the Membrane-Bound [Nife]-Hydrogenase From Cupriavidus Necator in the Air-Oxidized State at 1.65 A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Ni701

b:19.5
occ:1.00
 NI L:NFV701 0.0 19.5 1.0
O4 L:NFV701 1.9 23.0 1.0
SG L:CYS597 2.2 22.2 1.0
SG L:CYS75 2.2 20.9 1.0
SG L:CYS78 2.4 18.8 1.0
SG L:CYS600 2.6 18.1 1.0
FE L:NFV701 2.9 17.2 1.0
CB L:CYS75 3.1 18.2 1.0
CB L:CYS597 3.1 20.6 1.0
CB L:CYS78 3.5 19.7 1.0
CB L:CYS600 3.6 16.7 1.0
N L:CYS78 3.7 19.8 1.0
C2 L:NFV701 4.0 16.2 1.0
C3 L:NFV701 4.1 16.9 1.0
CA L:CYS78 4.2 20.1 1.0
NH1 L:ARG530 4.2 23.9 1.0
CB L:VAL77 4.4 21.8 1.0
C1 L:NFV701 4.5 15.7 1.0
CZ L:ARG530 4.5 20.8 1.0
CA L:CYS75 4.5 16.7 1.0
CA L:CYS597 4.6 19.8 1.0
N L:CYS600 4.6 17.6 1.0
CA L:CYS600 4.7 17.0 1.0
NE L:ARG530 4.7 19.9 1.0
C L:VAL77 4.8 19.9 1.0
CD L:ARG530 4.8 19.3 1.0
N2 L:NFV701 4.9 15.4 1.0
N L:VAL77 4.9 19.1 1.0
CA L:VAL77 4.9 19.6 1.0

Reference:

A.Schmidt, J.Kalms, C.Lorent, S.Katz, S.Frielingsdorf, R.M.Evans, J.Fritsch, E.Siebert, C.Teutloff, F.A.Armstrong, I.Zebger, O.Lenz, P.Scheerer. Stepwise Conversion of the Cys 6 [4FE-3S] to A Cys 4 [4FE-4S] Cluster and Its Impact on the Oxygen Tolerance of [Nife]-Hydrogenase. Chem Sci V. 14 11105 2023.
ISSN: ISSN 2041-6520
PubMed: 37860641
DOI: 10.1039/D3SC03739H
Page generated: Thu Dec 28 11:57:00 2023

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