Magnesium in PDB 7coh: Dimeric Form of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State

All present enzymatic activity of Dimeric Form of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State:
7.1.1.9;

The structure of Dimeric Form of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State, PDB code: 7coh was solved by K.Shinzawa-Itoh, K.Muramoto, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.00 / 1.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	181.998, 204.193, 177.759, 90, 90, 90
R / Rfree (%)	14.9 / 17

The structure of Dimeric Form of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State also contains other interesting chemical elements:

Zinc	(Zn)	2 atoms
Iron	(Fe)	4 atoms
Copper	(Cu)	6 atoms
Sodium	(Na)	2 atoms

The binding sites of Magnesium atom in the Dimeric Form of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State (pdb code 7coh). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Dimeric Form of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State, PDB code: 7coh:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Dimeric Form of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Dimeric Form of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg518 b:19.0 occ:1.00 OD2 A:ASP369 2.1 20.4 1.0 OE1 B:GLU198 2.1 21.3 1.0 O A:HOH1535 2.1 19.0 1.0 O B:HOH1534 2.1 20.9 1.0 O B:HOH1536 2.1 20.1 1.0 NE2 A:HIS368 2.1 17.9 1.0 CD B:GLU198 3.1 19.6 1.0 CD2 A:HIS368 3.1 17.7 1.0 CE1 A:HIS368 3.2 16.5 1.0 CG A:ASP369 3.3 20.7 1.0 OE2 B:GLU198 3.4 23.0 1.0 O B:SER197 3.9 19.1 1.0 CB A:ASP369 4.0 17.7 1.0 O A:HOH1538 4.0 20.7 1.0 OD1 B:ASP173 4.3 20.5 1.0 OD1 A:ASP369 4.3 21.1 1.0 O A:HOH1539 4.3 19.2 1.0 CG A:HIS368 4.3 18.1 1.0 ND1 A:HIS368 4.3 16.5 1.0 OD2 B:ASP173 4.3 20.7 1.0 OG1 A:THR294 4.3 19.9 1.0 CG B:GLU198 4.4 19.9 1.0 O A:HOH1531 4.5 19.6 1.0 O B:HOH1608 4.5 21.2 0.6 O A:HOH1528 4.5 18.7 1.0 O A:HOH1533 4.6 18.9 1.0 CB B:GLU198 4.6 18.6 1.0 CG B:ASP173 4.6 21.6 1.0 CA B:GLU198 4.9 18.4 1.0

Magnesium binding site 2 out of 2 in the Dimeric Form of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Dimeric Form of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State within 5.0Å range: probe atom residue distance (Å) B Occ N:Mg518 b:23.4 occ:1.00 OD2 N:ASP369 2.1 23.4 1.0 OE1 O:GLU198 2.1 28.9 1.0 O O:HOH2536 2.1 23.8 1.0 O O:HOH2534 2.1 25.3 1.0 O N:HOH2535 2.1 23.7 1.0 NE2 N:HIS368 2.1 21.3 1.0 CD O:GLU198 3.1 24.8 1.0 CD2 N:HIS368 3.1 21.2 1.0 CE1 N:HIS368 3.2 20.8 1.0 CG N:ASP369 3.3 23.1 1.0 OE2 O:GLU198 3.4 27.2 1.0 O O:SER197 3.9 24.3 1.0 CB N:ASP369 4.0 23.4 1.0 O N:HOH2538 4.0 23.5 1.0 OD1 N:ASP369 4.3 24.4 1.0 OD1 O:ASP173 4.3 23.4 1.0 CG N:HIS368 4.3 20.8 1.0 O N:HOH2539 4.3 21.4 1.0 ND1 N:HIS368 4.3 20.6 1.0 OD2 O:ASP173 4.3 25.9 1.0 O O:HOH2545 4.3 27.6 0.4 CG O:GLU198 4.3 22.7 1.0 OG1 N:THR294 4.4 23.6 1.0 O N:HOH2528 4.5 23.6 1.0 O N:HOH2531 4.5 23.0 1.0 O O:HOH2608 4.5 26.7 0.6 O N:HOH2533 4.6 22.2 1.0 CB O:GLU198 4.6 22.8 1.0 CG O:ASP173 4.6 23.2 1.0 CA O:GLU198 4.9 23.3 1.0 C O:SER197 5.0 22.8 1.0

K.Shinzawa-Itoh, M.Hatanaka, K.Fujita, N.Yano, Y.Ogasawara, J.Iwata, E.Yamashita, T.Tsukihara, S.Yoshikawa, K.Muramoto. The 1.3-A Resolution Structure of Bovine Cytochrome C Oxidase Suggests A Dimerization Mechanism Biochim.Biophys.Acta 2021.
ISSN: ISSN 0006-3002
DOI: 10.1016/J.BBADVA.2021.100009