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Nickel in PDB 1frf: Crystal Structure of the Ni-Fe Hydrogenase From Desulfovibrio Fructosovorans

Enzymatic activity of Crystal Structure of the Ni-Fe Hydrogenase From Desulfovibrio Fructosovorans

All present enzymatic activity of Crystal Structure of the Ni-Fe Hydrogenase From Desulfovibrio Fructosovorans:
1.18.99.1;

Protein crystallography data

The structure of Crystal Structure of the Ni-Fe Hydrogenase From Desulfovibrio Fructosovorans, PDB code: 1frf was solved by Y.Montet, A.Volbeda, C.Piras, E.C.Hatchikian, M.Frey, J.C.Fontecilla, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 12.00 / 2.70
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 65.610, 99.770, 184.510, 90.00, 90.88, 90.00
R / Rfree (%) 22 / 27.4

Other elements in 1frf:

The structure of Crystal Structure of the Ni-Fe Hydrogenase From Desulfovibrio Fructosovorans 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 of the Ni-Fe Hydrogenase From Desulfovibrio Fructosovorans (pdb code 1frf). 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 Ni-Fe Hydrogenase From Desulfovibrio Fructosovorans, PDB code: 1frf:

Nickel binding site 1 out of 1 in 1frf

Go back to Nickel Binding Sites List in 1frf
Nickel binding site 1 out of 1 in the Crystal Structure of the Ni-Fe Hydrogenase From Desulfovibrio Fructosovorans


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 Ni-Fe Hydrogenase From Desulfovibrio Fructosovorans within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Ni566

b:15.1
occ:1.00
 SG L:CYS75 1.6 23.1 1.0
SG L:CYS543 2.1 14.2 1.0
SG L:CYS72 2.2 7.5 1.0
SG L:CYS546 2.4 8.8 1.0
CB L:CYS72 3.0 5.0 1.0
CB L:CYS543 3.2 10.4 1.0
FE L:FE565 3.2 8.5 1.0
CB L:CYS75 3.3 7.9 1.0
CB L:CYS546 3.6 9.6 1.0
N L:CYS75 3.6 10.8 1.0
CA L:CYS75 4.1 12.9 1.0
CB L:VAL74 4.2 5.9 1.0
O L:HOH622 4.3 2.0 1.0
CA L:CYS72 4.4 4.2 1.0
O L:HOH616 4.5 12.5 1.0
CA L:CYS546 4.5 5.9 1.0
CA L:CYS543 4.5 7.8 1.0
N L:CYS546 4.5 6.0 1.0
NH1 L:ARG476 4.6 3.5 1.0
CZ L:ARG476 4.6 5.7 1.0
C L:VAL74 4.6 10.5 1.0
OE1 L:GLU25 4.7 20.8 1.0
NE L:ARG476 4.7 2.7 1.0
N L:VAL74 4.7 8.4 1.0
CA L:VAL74 4.8 9.2 1.0
CD L:ARG476 4.8 2.8 1.0
CG2 L:VAL74 4.9 7.5 1.0
CG1 L:VAL74 4.9 4.9 1.0
CG L:GLU25 5.0 13.6 1.0

Reference:

M.Rousset, Y.Montet, B.Guigliarelli, N.Forget, M.Asso, P.Bertrand, J.C.Fontecilla-Camps, E.C.Hatchikian. 3FE-4S] to [4FE-4S] Cluster Conversion in Desulfovibrio Fructosovorans [Nife] Hydrogenase By Site-Directed Mutagenesis Proc.Natl.Acad.Sci.Usa V. 95 11625 1998.
ISSN: ISSN 0027-8424
PubMed: 9751716
DOI: 10.1073/PNAS.95.20.11625
Page generated: Wed Oct 9 14:51:28 2024

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