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Magnesium in PDB 1wuh: Three-Dimensional Structure of the Ni-A State of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F

Enzymatic activity of Three-Dimensional Structure of the Ni-A State of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F

All present enzymatic activity of Three-Dimensional Structure of the Ni-A State of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F:
1.12.2.1;

Protein crystallography data

The structure of Three-Dimensional Structure of the Ni-A State of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F, PDB code: 1wuh was solved by H.Ogata, S.Hirota, A.Nakahara, H.Komori, N.Shibata, T.Kato, K.Kano, Y.Higuchi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 16.41 / 1.24
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 98.227, 126.261, 66.440, 90.00, 90.00, 90.00
R / Rfree (%) 11.3 / 15.7

Other elements in 1wuh:

The structure of Three-Dimensional Structure of the Ni-A State of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F also contains other interesting chemical elements:

Nickel (Ni) 1 atom
Iron (Fe) 12 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Three-Dimensional Structure of the Ni-A State of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F (pdb code 1wuh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Three-Dimensional Structure of the Ni-A State of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F, PDB code: 1wuh:

Magnesium binding site 1 out of 1 in 1wuh

Go back to Magnesium Binding Sites List in 1wuh
Magnesium binding site 1 out of 1 in the Three-Dimensional Structure of the Ni-A State of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Three-Dimensional Structure of the Ni-A State of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg1005

b:9.1
occ:1.00
 O L:HOH5001 2.0 10.0 1.0
O L:HOH5003 2.1 9.8 1.0
O L:HOH5002 2.1 9.8 1.0
OE2 L:GLU62 2.1 9.5 1.0
O L:LEU498 2.1 9.3 1.0
NE2 L:HIS552 2.2 9.0 1.0
CD L:GLU62 3.1 9.3 1.0
CE1 L:HIS552 3.1 9.1 1.0
CD2 L:HIS552 3.2 9.2 1.0
C L:LEU498 3.3 9.3 1.0
OE1 L:GLU62 3.4 10.2 1.0
N L:LEU498 3.7 9.1 1.0
CA L:LEU498 3.9 9.4 1.0
OE1 L:GLU337 4.1 11.2 1.0
OE1 L:GLN497 4.1 10.9 1.0
OE2 L:GLU337 4.1 11.2 1.0
NZ L:LYS374 4.1 10.3 1.0
CB L:LEU498 4.2 9.5 1.0
ND1 L:HIS552 4.2 9.4 1.0
O L:HOH5013 4.3 9.5 1.0
O L:HOH5011 4.3 10.5 1.0
CG L:HIS552 4.3 8.9 1.0
N L:VAL499 4.4 9.3 1.0
CG L:GLU62 4.4 9.6 1.0
CD L:GLU337 4.5 10.4 1.0
CD L:LYS374 4.6 10.1 1.0
CE L:LYS374 4.7 10.5 1.0
CA L:VAL499 4.7 9.0 1.0
C L:GLN497 4.8 9.6 1.0

Reference:

H.Ogata, S.Hirota, A.Nakahara, H.Komori, N.Shibata, T.Kato, K.Kano, Y.Higuchi. Structural Basis For the Activation Process of [Nife] Hydrogenase From D.Vulgaris Miyazaki F To Be Published.
Page generated: Tue Aug 13 17:24:01 2024

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