Iron in PDB 7zkj: Codh/Acs Complex of C. Hydrogenoformans

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

The structure of Codh/Acs Complex of C. Hydrogenoformans, PDB code: 7zkj 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)	48.35 / 2.04
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	141.586, 141.586, 290.124, 90, 90, 120
R / Rfree (%)	17.4 / 19.9

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

Nickel	(Ni)	3 atoms
Sodium	(Na)	1 atom

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Iron atom in the Codh/Acs Complex of C. Hydrogenoformans (pdb code 7zkj). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 14 binding sites of Iron where determined in the Codh/Acs Complex of C. Hydrogenoformans, PDB code: 7zkj:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 14 in the Codh/Acs Complex of C. Hydrogenoformans


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Codh/Acs Complex of C. Hydrogenoformans within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe701 b:38.0 occ:0.48 FE1 A:RQM701 0.0 38.0 0.5 S3 A:RQM701 2.3 43.5 0.7 S4 A:RQM701 2.3 40.6 0.6 S2 A:RQM701 2.3 53.8 0.9 SG A:CYS354 2.5 51.8 1.0 FE3 A:RQM701 2.6 35.5 0.5 FE4 A:RQM701 2.9 46.5 0.8 CB A:CYS354 3.2 46.5 1.0 NI A:RQM701 3.3 51.6 0.3 FE2 A:RQM701 3.4 49.5 0.8 S1 A:RQM701 3.7 50.7 0.8 NZ A:LYS583 4.0 55.1 1.0 CE1 A:HIS282 4.1 42.0 1.0 NE2 A:HIS282 4.2 47.8 1.0 CE A:LYS583 4.6 48.4 1.0 CA A:CYS354 4.7 42.6 1.0 CE A:MET580 4.7 42.5 1.0 OG A:SER581 4.8 32.9 1.0 SG A:CYS467 4.9 40.5 1.0 SG A:CYS546 4.9 48.6 0.6 O A:OH705 5.0 50.4 1.0

Iron binding site 2 out of 14 in the Codh/Acs Complex of C. Hydrogenoformans


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Codh/Acs Complex of C. Hydrogenoformans within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe701 b:49.5 occ:0.82 FE2 A:RQM701 0.0 49.5 0.8 O A:OH705 2.2 50.4 1.0 NE2 A:HIS282 2.3 47.8 1.0 SG A:CYS316 2.4 44.3 1.0 S3 A:RQM701 2.5 43.5 0.7 SG A:CYS546 2.7 48.6 0.6 NI A:RQM701 2.9 51.6 0.3 CD2 A:HIS282 3.2 44.7 1.0 CE1 A:HIS282 3.3 42.0 1.0 CB A:CYS316 3.3 36.6 1.0 CB A:CYS546 3.4 44.1 0.4 FE1 A:RQM701 3.4 38.0 0.5 CB A:CYS546 3.5 44.2 0.6 NZ A:LYS583 3.7 55.1 1.0 S4 A:RQM701 3.8 40.6 0.6 FE4 A:RQM701 4.0 46.5 0.8 S1 A:RQM701 4.1 50.7 0.8 SG A:CYS546 4.1 50.8 0.4 CG A:HIS282 4.3 49.5 1.0 ND1 A:HIS282 4.3 43.8 1.0 CA A:CYS316 4.5 41.6 1.0 O A:HOH1010 4.5 38.9 1.0 N A:CYS316 4.6 41.3 1.0 FE3 A:RQM701 4.7 35.5 0.5 CA A:CYS546 4.7 38.8 0.6 CA A:CYS546 4.7 38.9 0.4 N A:CYS546 4.7 38.8 0.6 N A:CYS546 4.7 38.9 0.4 CE A:LYS583 4.8 48.4 1.0 O A:OH704 4.9 46.3 1.0 SG A:CYS354 5.0 51.8 1.0

Iron binding site 3 out of 14 in the Codh/Acs Complex of C. Hydrogenoformans


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Codh/Acs Complex of C. Hydrogenoformans within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe701 b:35.5 occ:0.52 FE3 A:RQM701 0.0 35.5 0.5 S4 A:RQM701 2.2 40.6 0.6 S1 A:RQM701 2.2 50.7 0.8 S2 A:RQM701 2.2 53.8 0.9 SG A:CYS467 2.6 40.5 1.0 FE1 A:RQM701 2.6 38.0 0.5 NI A:RQM701 2.7 51.6 0.3 FE4 A:RQM701 2.8 46.5 0.8 CB A:CYS467 2.9 57.4 1.0 CA A:CYS467 3.4 53.5 1.0 O A:OH704 3.5 46.3 1.0 N A:CYS467 3.7 53.4 1.0 OG A:SER581 3.9 32.9 1.0 S3 A:RQM701 3.9 43.5 0.7 C A:GLY466 4.1 45.2 1.0 CE A:MET580 4.6 42.5 1.0 CA A:GLY466 4.6 39.7 1.0 SG A:CYS354 4.6 51.8 1.0 SG A:CYS546 4.6 48.6 0.6 O A:GLY466 4.6 40.3 1.0 CB A:SER581 4.6 28.4 1.0 FE2 A:RQM701 4.7 49.5 0.8 C A:CYS467 4.8 49.3 1.0 SG A:CYS497 5.0 55.0 1.0

Iron binding site 4 out of 14 in the Codh/Acs Complex of C. Hydrogenoformans


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Codh/Acs Complex of C. Hydrogenoformans within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe701 b:46.5 occ:0.76 FE4 A:RQM701 0.0 46.5 0.8 S1 A:RQM701 2.3 50.7 0.8 S3 A:RQM701 2.3 43.5 0.7 S2 A:RQM701 2.3 53.8 0.9 SG A:CYS497 2.5 55.0 1.0 FE3 A:RQM701 2.8 35.5 0.5 FE1 A:RQM701 2.9 38.0 0.5 CB A:CYS497 3.4 39.7 1.0 NI A:RQM701 3.7 51.6 0.3 N A:CYS497 3.9 40.7 1.0 FE2 A:RQM701 4.0 49.5 0.8 S4 A:RQM701 4.1 40.6 0.6 CA A:CYS497 4.2 38.1 1.0 CB A:PHE333 4.3 47.7 1.0 CA A:CYS467 4.3 53.5 1.0 SG A:CYS546 4.5 48.6 0.6 CB A:CYS467 4.6 57.4 1.0 O A:GLY466 4.6 40.3 1.0 SG A:CYS315 4.7 45.8 0.7 CB A:CYS315 4.7 51.4 0.3 C A:GLY466 4.9 45.2 1.0 CB A:CYS315 4.9 51.9 0.7 N A:CYS467 4.9 53.4 1.0 C A:GLY496 5.0 36.0 1.0 SG A:CYS316 5.0 44.3 1.0

Iron binding site 5 out of 14 in the Codh/Acs Complex of C. Hydrogenoformans


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Codh/Acs Complex of C. Hydrogenoformans within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe702 b:31.0 occ:1.00 FE2 A:SF4702 0.0 31.0 1.0 S4 A:SF4702 2.3 32.9 1.0 S1 A:SF4702 2.3 31.8 1.0 SG A:CYS67 2.3 34.6 1.0 FE3 A:SF4702 2.7 33.0 1.0 CB A:CYS67 3.1 27.1 1.0 CA A:CYS67 4.6 27.9 1.0 SG A:CYS59 4.8 38.6 1.0 N A:GLY62 4.9 34.3 1.0 CB A:PHE61 5.0 35.0 1.0 CB A:PRO75 5.0 36.4 1.0 CD A:ARG69 5.0 32.4 1.0

Iron binding site 6 out of 14 in the Codh/Acs Complex of C. Hydrogenoformans


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Codh/Acs Complex of C. Hydrogenoformans within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe702 b:33.0 occ:1.00 FE3 A:SF4702 0.0 33.0 1.0 S4 A:SF4702 2.3 32.9 1.0 S1 A:SF4702 2.3 31.8 1.0 SG A:CYS59 2.3 38.6 1.0 FE2 A:SF4702 2.7 31.0 1.0 CB A:CYS59 3.3 32.4 1.0 O A:HOH1075 3.5 72.6 0.5 N A:GLY62 4.1 34.3 1.0 CB A:PHE61 4.3 35.0 1.0 CA A:GLY62 4.7 32.0 1.0 CA A:CYS59 4.7 32.5 1.0 SG A:CYS67 4.8 34.6 1.0 CB A:CYS67 4.9 27.1 1.0 C A:PHE61 4.9 32.6 1.0

Iron binding site 7 out of 14 in the Codh/Acs Complex of C. Hydrogenoformans


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Codh/Acs Complex of C. Hydrogenoformans within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe703 b:30.9 occ:1.00 FE1 A:SF4703 0.0 30.9 1.0 S2 A:SF4703 2.3 29.9 1.0 S3 A:SF4703 2.3 29.9 1.0 SG A:CYS71 2.3 33.0 1.0 S4 A:SF4703 2.3 29.6 1.0 FE3 A:SF4703 2.7 31.7 1.0 FE4 A:SF4703 2.7 30.4 1.0 FE2 A:SF4703 2.7 30.8 1.0 CB A:CYS71 3.3 27.7 1.0 N A:CYS71 3.5 27.6 1.0 CA A:CYS71 3.8 30.2 1.0 S1 A:SF4703 3.9 31.6 1.0 O A:CYS71 4.2 33.7 1.0 C A:CYS71 4.2 31.5 1.0 CG1 A:ILE220 4.3 35.7 1.0 C A:PHE70 4.3 31.6 1.0 N A:GLY74 4.6 33.9 1.0 N A:PHE70 4.7 31.5 1.0 CB A:GLN73 4.7 35.7 1.0 SG A:CYS89 4.7 35.4 1.0 SG A:CYS68 4.8 28.8 1.0 SG A:CYS76 4.8 33.9 1.0 CB A:ILE220 4.9 34.4 1.0 N A:GLN73 4.9 34.8 1.0 CA A:PHE70 4.9 31.0 1.0 O A:PHE70 5.0 29.2 1.0

Iron binding site 8 out of 14 in the Codh/Acs Complex of C. Hydrogenoformans


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Codh/Acs Complex of C. Hydrogenoformans within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe703 b:30.8 occ:1.00 FE2 A:SF4703 0.0 30.8 1.0 S1 A:SF4703 2.2 31.6 1.0 S4 A:SF4703 2.3 29.6 1.0 SG A:CYS89 2.3 35.4 1.0 S3 A:SF4703 2.3 29.9 1.0 FE4 A:SF4703 2.7 30.4 1.0 FE3 A:SF4703 2.7 31.7 1.0 FE1 A:SF4703 2.7 30.9 1.0 CB A:CYS89 3.4 37.9 1.0 N A:CYS89 3.9 30.9 1.0 S2 A:SF4703 3.9 29.9 1.0 O A:HOH996 4.2 33.3 1.0 CA A:CYS89 4.2 37.6 1.0 CB A:ALA91 4.3 37.4 1.0 CG1 A:ILE220 4.4 35.7 1.0 N A:ILE88 4.5 30.1 1.0 NH1 A:ARG99 4.6 42.0 1.0 SG A:CYS71 4.6 33.0 1.0 SG A:CYS68 4.7 28.8 1.0 SG A:CYS76 4.7 33.9 1.0 CA A:GLY87 4.8 31.6 1.0 C A:GLY87 4.8 36.6 1.0 N A:ALA91 4.9 32.5 1.0

Iron binding site 9 out of 14 in the Codh/Acs Complex of C. Hydrogenoformans


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Codh/Acs Complex of C. Hydrogenoformans within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe703 b:31.7 occ:1.00 FE3 A:SF4703 0.0 31.7 1.0 S4 A:SF4703 2.2 29.6 1.0 SG A:CYS76 2.3 33.9 1.0 S2 A:SF4703 2.3 29.9 1.0 S1 A:SF4703 2.3 31.6 1.0 FE1 A:SF4703 2.7 30.9 1.0 FE4 A:SF4703 2.7 30.4 1.0 FE2 A:SF4703 2.7 30.8 1.0 CB A:CYS76 3.2 31.0 1.0 S3 A:SF4703 3.9 29.9 1.0 N A:ILE88 4.0 30.1 1.0 N A:CYS76 4.3 31.2 1.0 CA A:CYS76 4.4 32.6 1.0 CA A:GLY74 4.5 33.0 1.0 CA A:GLY87 4.5 31.6 1.0 O A:CYS68 4.6 33.1 1.0 CB A:ILE88 4.6 39.7 1.0 SG A:CYS71 4.7 33.0 1.0 N A:GLY74 4.7 33.9 1.0 SG A:CYS68 4.7 28.8 1.0 C A:GLY87 4.7 36.6 1.0 N A:CYS89 4.8 30.9 1.0 SG A:CYS89 4.8 35.4 1.0 CB A:CYS68 4.8 25.9 1.0 CA A:ILE88 4.9 38.1 1.0

Iron binding site 10 out of 14 in the Codh/Acs Complex of C. Hydrogenoformans


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Codh/Acs Complex of C. Hydrogenoformans within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe703 b:30.4 occ:1.00 FE4 A:SF4703 0.0 30.4 1.0 SG A:CYS68 2.2 28.8 1.0 S3 A:SF4703 2.3 29.9 1.0 S1 A:SF4703 2.3 31.6 1.0 S2 A:SF4703 2.3 29.9 1.0 FE2 A:SF4703 2.7 30.8 1.0 FE3 A:SF4703 2.7 31.7 1.0 FE1 A:SF4703 2.7 30.9 1.0 CB A:CYS68 3.2 25.9 1.0 NH1 A:ARG99 3.6 42.0 1.0 N A:PHE70 3.8 31.5 1.0 S4 A:SF4703 3.9 29.6 1.0 C A:CYS68 4.1 34.1 1.0 O A:CYS68 4.2 33.1 1.0 CB A:PHE70 4.3 31.4 1.0 CA A:CYS68 4.3 28.1 1.0 CA A:PHE70 4.5 31.0 1.0 N A:ARG69 4.5 28.5 1.0 N A:CYS71 4.5 27.6 1.0 C A:PHE70 4.7 31.6 1.0 SG A:CYS76 4.8 33.9 1.0 C A:ARG69 4.8 39.2 1.0 CZ A:ARG99 4.8 37.3 1.0 CB A:CYS76 4.8 31.0 1.0 SG A:CYS89 4.9 35.4 1.0 CA A:ARG69 5.0 30.0 1.0 SG A:CYS71 5.0 33.0 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 Catal. 2022.
DOI: 10.1021/ACSCATAL.2C02221