Sodium in PDB 7zkk: A216H Variant of the Codh/Acs Complex of C. Hydrogenoformans

All present enzymatic activity of A216H Variant of the Codh/Acs Complex of C. Hydrogenoformans:
1.2.7.4; 2.3.1.169;

The structure of A216H Variant of the Codh/Acs Complex of C. Hydrogenoformans, PDB code: 7zkk was solved by J.Ruickoldt, J.-H.Jeoung, Y.Basak, L.Domnik, H.Dobbek, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.12 / 1.97
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	142.63, 142.63, 291.34, 90, 90, 120
R / Rfree (%)	15.8 / 19.2

The structure of A216H Variant of the Codh/Acs Complex of C. Hydrogenoformans also contains other interesting chemical elements:

Iron	(Fe)	14 atoms
Nickel	(Ni)	3 atoms

The binding sites of Sodium atom in the A216H Variant of the Codh/Acs Complex of C. Hydrogenoformans (pdb code 7zkk). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the A216H Variant of the Codh/Acs Complex of C. Hydrogenoformans, PDB code: 7zkk:

Sodium binding site 1 out of 1 in the A216H Variant of the Codh/Acs Complex of C. Hydrogenoformans


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of A216H Variant of the Codh/Acs Complex of C. Hydrogenoformans within 5.0Å range: probe atom residue distance (Å) B Occ B:Na805 b:28.4 occ:1.00 OE1 B:GLU334 2.3 31.4 1.0 O B:ASN415 2.3 24.1 1.0 O B:PHE420 2.4 28.2 1.0 O B:GLY417 2.4 31.5 1.0 O B:HOH1031 2.4 23.4 1.0 O B:PHE331 2.9 25.1 1.0 CD B:GLU334 3.2 38.8 1.0 C B:ASN415 3.3 28.6 1.0 CG B:GLU334 3.4 31.6 1.0 C B:PHE420 3.6 26.5 1.0 C B:GLY417 3.6 27.8 1.0 CA B:ASN415 3.7 28.6 1.0 C B:PHE331 3.8 26.1 1.0 CB B:PHE331 3.9 25.8 1.0 N B:PHE420 4.1 31.0 1.0 N B:GLY417 4.3 25.6 1.0 N B:GLY419 4.3 27.5 1.0 CA B:PHE420 4.4 29.0 1.0 OE2 B:GLU334 4.4 44.0 1.0 N B:TYR416 4.4 29.1 1.0 CB B:ASN415 4.4 26.1 1.0 OD1 B:ASN415 4.4 31.6 1.0 CA B:PHE331 4.4 26.3 1.0 N B:GLU418 4.5 24.3 1.0 C B:TYR416 4.5 24.5 1.0 CB B:GLU334 4.5 32.7 1.0 CA B:GLU418 4.5 25.0 1.0 CA B:GLY417 4.5 26.0 1.0 O B:THR414 4.5 25.9 1.0 N B:TRP421 4.6 27.1 1.0 CA B:TRP421 4.7 25.5 1.0 N B:GLU332 4.7 26.6 1.0 CA B:GLU332 4.8 27.3 1.0 CB B:PHE420 4.8 29.3 1.0 CA B:TYR416 4.8 25.8 1.0 O B:GLU332 4.8 33.3 1.0 C B:GLU418 4.9 25.2 1.0 O B:TYR416 4.9 28.0 1.0 CG B:ASN415 4.9 31.8 1.0 C B:GLU332 5.0 32.4 1.0 N B:ASN415 5.0 23.1 1.0

J.Ruickoldt, Y.Basak, L.Domnik, J.H.Jeoung, H.Dobbek. On the Kinetics of CO2 Reduction By Ni, Fe-Co Dehydrogenases Acs Catalysis 2022.
ISSN: ESSN 2155-5435
DOI: 10.1021/ACSCATAL.2C02221