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Iron in PDB 6yka: Asymmetric [Fe]-Hydrogenase From Methanolacinia Paynteri Apo and in Complex with Fegp at 2.1-A Resolution

Enzymatic activity of Asymmetric [Fe]-Hydrogenase From Methanolacinia Paynteri Apo and in Complex with Fegp at 2.1-A Resolution

All present enzymatic activity of Asymmetric [Fe]-Hydrogenase From Methanolacinia Paynteri Apo and in Complex with Fegp at 2.1-A Resolution:
1.12.98.2;

Protein crystallography data

The structure of Asymmetric [Fe]-Hydrogenase From Methanolacinia Paynteri Apo and in Complex with Fegp at 2.1-A Resolution, PDB code: 6yka was solved by T.Wagner, G.Huang, F.J.Arriaza-Gallardo, S.Shima, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.74 / 2.10
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 79.481, 79.481, 179.337, 90, 90, 120
R / Rfree (%) 19.5 / 23.5

Iron Binding Sites:

The binding sites of Iron atom in the Asymmetric [Fe]-Hydrogenase From Methanolacinia Paynteri Apo and in Complex with Fegp at 2.1-A Resolution (pdb code 6yka). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total only one binding site of Iron was determined in the Asymmetric [Fe]-Hydrogenase From Methanolacinia Paynteri Apo and in Complex with Fegp at 2.1-A Resolution, PDB code: 6yka:

Iron binding site 1 out of 1 in 6yka

Go back to Iron Binding Sites List in 6yka
Iron binding site 1 out of 1 in the Asymmetric [Fe]-Hydrogenase From Methanolacinia Paynteri Apo and in Complex with Fegp at 2.1-A Resolution


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Asymmetric [Fe]-Hydrogenase From Methanolacinia Paynteri Apo and in Complex with Fegp at 2.1-A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe403

b:62.3
occ:1.00
 FE B:FE9403 0.0 62.3 1.0
C1F B:FE9403 1.8 60.5 1.0
C2F B:FE9403 1.8 62.5 1.0
C8 B:FE9403 1.9 58.4 1.0
N1 B:FE9403 2.0 63.5 1.0
O B:HOH504 2.5 52.3 1.0
SG B:CYS175 2.6 49.9 1.0
O18 B:FE9403 2.7 55.0 1.0
C6 B:FE9403 2.8 59.3 1.0
C7 B:FE9403 2.9 56.6 1.0
O1F B:FE9403 3.0 60.1 1.0
O2F B:FE9403 3.0 56.2 1.0
C2 B:FE9403 3.0 63.9 1.0
O2 B:FE9403 3.2 66.0 1.0
CB B:CYS175 3.6 43.7 1.0
CH2 B:TRP147 4.3 53.7 1.0
C5 B:FE9403 4.3 62.1 1.0
C3 B:FE9403 4.4 64.6 1.0
CZ2 B:TRP147 4.4 55.5 1.0
CA B:CYS175 4.7 41.7 1.0
N B:CYS175 4.7 40.3 1.0
O B:ALA204 4.8 52.5 1.0
C4 B:FE9403 4.9 66.8 1.0
CZ3 B:TRP147 4.9 52.7 1.0

Reference:

G.Huang, T.Wagner, U.Demmer, E.Warkentin, U.Ermler, S.Shima. The Hydride Transfer Process in Nadp-Dependent Methylene-Tetrahydromethanopterin Dehydrogenase. J.Mol.Biol. V. 432 2042 2020.
ISSN: ESSN 1089-8638
PubMed: 32061937
DOI: 10.1016/J.JMB.2020.01.042
Page generated: Wed Aug 7 16:41:48 2024

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