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Nickel in PDB 3rgw: Crystal Structure at 1.5 A Resolution of An H2-Reduced, O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks A Novel Iron-Sulfur Cluster

Enzymatic activity of Crystal Structure at 1.5 A Resolution of An H2-Reduced, O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks A Novel Iron-Sulfur Cluster

All present enzymatic activity of Crystal Structure at 1.5 A Resolution of An H2-Reduced, O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks A Novel Iron-Sulfur Cluster:
1.12.99.6;

Protein crystallography data

The structure of Crystal Structure at 1.5 A Resolution of An H2-Reduced, O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks A Novel Iron-Sulfur Cluster, PDB code: 3rgw was solved by P.Scheerer, J.Fritsch, S.Frielingsdorf, S.Kroschinsky, B.Friedrich, O.Lenz, C.M.T.Spahn, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 59.57 / 1.50
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 73.091, 95.646, 119.145, 90.00, 90.00, 90.00
R / Rfree (%) 14 / 15.3

Other elements in 3rgw:

The structure of Crystal Structure at 1.5 A Resolution of An H2-Reduced, O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks A Novel Iron-Sulfur Cluster also contains other interesting chemical elements:

Magnesium (Mg) 1 atom
Iron (Fe) 12 atoms

Nickel Binding Sites:

The binding sites of Nickel atom in the Crystal Structure at 1.5 A Resolution of An H2-Reduced, O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks A Novel Iron-Sulfur Cluster (pdb code 3rgw). 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 at 1.5 A Resolution of An H2-Reduced, O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks A Novel Iron-Sulfur Cluster, PDB code: 3rgw:

Nickel binding site 1 out of 1 in 3rgw

Go back to Nickel Binding Sites List in 3rgw
Nickel binding site 1 out of 1 in the Crystal Structure at 1.5 A Resolution of An H2-Reduced, O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks A Novel Iron-Sulfur Cluster


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Crystal Structure at 1.5 A Resolution of An H2-Reduced, O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks A Novel Iron-Sulfur Cluster within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Ni1004

b:14.4
occ:1.00
 NI L:NFU1004 0.0 14.4 1.0
SG L:CYS597 2.2 16.1 1.0
SG L:CYS78 2.2 12.1 1.0
SG L:CYS75 2.2 13.4 1.0
SG L:CYS600 2.4 13.2 1.0
FE L:NFU1004 2.6 12.8 1.0
CB L:CYS75 3.0 13.4 1.0
CB L:CYS597 3.3 14.6 1.0
CB L:CYS78 3.4 13.4 1.0
CB L:CYS600 3.5 13.1 1.0
C2 L:NFU1004 3.6 14.4 1.0
C3 L:NFU1004 3.8 13.0 1.0
N L:CYS78 3.8 13.2 1.0
CA L:CYS78 4.2 13.8 1.0
NH1 L:ARG530 4.3 15.9 1.0
C1 L:NFU1004 4.3 10.4 1.0
CA L:CYS75 4.5 12.0 1.0
CA L:CYS600 4.5 12.4 1.0
CZ L:ARG530 4.6 16.1 1.0
N2 L:NFU1004 4.6 13.1 1.0
N L:CYS600 4.6 12.0 1.0
CB L:VAL77 4.7 14.2 1.0
CA L:CYS597 4.7 12.7 1.0
O3 L:NFU1004 4.8 17.9 1.0
CD L:ARG530 4.8 16.2 1.0
NE L:ARG530 4.8 15.2 1.0
C L:VAL77 4.9 13.2 1.0
C L:CYS78 5.0 13.4 1.0

Reference:

J.Fritsch, P.Scheerer, S.Frielingsdorf, S.Kroschinsky, B.Friedrich, O.Lenz, C.M.Spahn. The Crystal Structure of An Oxygen-Tolerant Hydrogenase Uncovers A Novel Iron-Sulphur Centre. Nature V. 479 249 2011.
ISSN: ISSN 0028-0836
PubMed: 22002606
DOI: 10.1038/NATURE10505
Page generated: Wed Dec 16 01:27:41 2020

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