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Magnesium in PDB 7tie: Structure of Oxidized Bovine Cytochrome C Oxidase at 1.90 Angstrom Resolution Obtained By Synchrotron X-Rays

Enzymatic activity of Structure of Oxidized Bovine Cytochrome C Oxidase at 1.90 Angstrom Resolution Obtained By Synchrotron X-Rays

All present enzymatic activity of Structure of Oxidized Bovine Cytochrome C Oxidase at 1.90 Angstrom Resolution Obtained By Synchrotron X-Rays:
1.9.3.1;

Protein crystallography data

The structure of Structure of Oxidized Bovine Cytochrome C Oxidase at 1.90 Angstrom Resolution Obtained By Synchrotron X-Rays, PDB code: 7tie was solved by I.Ishigami, D.L.Rousseau, S.-R.Yeh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.99 / 1.90
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 178.118, 182.415, 208.547, 90, 90, 90
R / Rfree (%) 18.5 / 21.5

Other elements in 7tie:

The structure of Structure of Oxidized Bovine Cytochrome C Oxidase at 1.90 Angstrom Resolution Obtained By Synchrotron X-Rays also contains other interesting chemical elements:

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

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Oxidized Bovine Cytochrome C Oxidase at 1.90 Angstrom Resolution Obtained By Synchrotron X-Rays (pdb code 7tie). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of Oxidized Bovine Cytochrome C Oxidase at 1.90 Angstrom Resolution Obtained By Synchrotron X-Rays, PDB code: 7tie:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 7tie

Go back to Magnesium Binding Sites List in 7tie
Magnesium binding site 1 out of 2 in the Structure of Oxidized Bovine Cytochrome C Oxidase at 1.90 Angstrom Resolution Obtained By Synchrotron X-Rays


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Oxidized Bovine Cytochrome C Oxidase at 1.90 Angstrom Resolution Obtained By Synchrotron X-Rays within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg602

b:28.5
occ:1.00
 OD2 A:ASP369 2.1 21.7 1.0
OE1 B:GLU198 2.1 35.1 1.0
NE2 A:HIS368 2.1 26.1 1.0
O B:HOH421 2.1 26.3 1.0
O B:HOH461 2.1 25.6 1.0
O A:HOH877 2.2 26.1 1.0
CD2 A:HIS368 3.1 24.5 1.0
CE1 A:HIS368 3.1 26.6 1.0
CD B:GLU198 3.2 32.3 1.0
CG A:ASP369 3.3 25.1 1.0
OE2 B:GLU198 3.5 34.8 1.0
O B:SER197 3.9 26.4 1.0
CB A:ASP369 3.9 24.7 1.0
O A:HOH856 4.0 27.9 1.0
CG A:HIS368 4.2 24.3 1.0
ND1 A:HIS368 4.2 23.6 1.0
OD1 B:ASP173 4.3 28.3 1.0
OD1 A:ASP369 4.3 25.3 1.0
OD2 B:ASP173 4.3 27.8 1.0
OG1 A:THR294 4.3 27.1 1.0
O A:HOH748 4.4 26.4 1.0
CG B:GLU198 4.5 27.6 1.0
O A:HOH714 4.5 25.3 1.0
O A:HOH862 4.5 26.3 1.0
O A:HOH815 4.6 28.0 1.0
CB B:GLU198 4.7 27.1 1.0
CG B:ASP173 4.7 30.6 1.0
O A:HOH794 4.9 33.7 1.0
CA B:GLU198 4.9 27.9 1.0

Magnesium binding site 2 out of 2 in 7tie

Go back to Magnesium Binding Sites List in 7tie
Magnesium binding site 2 out of 2 in the Structure of Oxidized Bovine Cytochrome C Oxidase at 1.90 Angstrom Resolution Obtained By Synchrotron X-Rays


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Oxidized Bovine Cytochrome C Oxidase at 1.90 Angstrom Resolution Obtained By Synchrotron X-Rays within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Mg602

b:35.9
occ:1.00
 NE2 N:HIS368 2.1 32.7 1.0
OE1 O:GLU198 2.1 35.2 1.0
O O:HOH443 2.1 34.5 1.0
O O:HOH486 2.1 32.5 1.0
OD2 N:ASP369 2.2 34.6 1.0
O O:HOH404 2.2 36.5 1.0
CD2 N:HIS368 3.0 31.6 1.0
CE1 N:HIS368 3.0 30.2 1.0
CD O:GLU198 3.2 33.9 1.0
CG N:ASP369 3.3 34.0 1.0
OE2 O:GLU198 3.6 37.3 1.0
O O:SER197 3.9 35.5 1.0
O N:HOH844 4.0 34.5 1.0
CB N:ASP369 4.0 33.8 1.0
ND1 N:HIS368 4.1 30.8 1.0
OD2 O:ASP173 4.2 35.6 1.0
CG N:HIS368 4.2 30.6 1.0
O N:HOH767 4.2 31.7 1.0
OG1 N:THR294 4.3 31.3 1.0
OD1 O:ASP173 4.3 35.8 1.0
OD1 N:ASP369 4.3 33.6 1.0
CG O:GLU198 4.5 35.6 1.0
O N:HOH833 4.5 33.2 1.0
O N:HOH795 4.6 30.4 1.0
O N:HOH719 4.6 29.5 1.0
CG O:ASP173 4.6 39.7 1.0
CB O:GLU198 4.6 36.0 1.0
CA O:GLU198 5.0 34.3 1.0

Reference:

I.Ishigami, S.Russi, A.Cohen, S.R.Yeh, D.L.Rousseau. Temperature-Dependent Structural Transition Following X-Ray-Induced Metal Center Reduction in Oxidized Cytochrome C Oxidase. J.Biol.Chem. V. 298 01799 2022.
ISSN: ESSN 1083-351X
PubMed: 35257742
DOI: 10.1016/J.JBC.2022.101799
Page generated: Thu Oct 3 09:17:46 2024

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