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Magnesium in PDB 1occ: Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State

Enzymatic activity of Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State

All present enzymatic activity of Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State:
1.9.3.1;

Protein crystallography data

The structure of Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State, PDB code: 1occ was solved by T.Tsukihara, H.Aoyama, E.Yamashita, T.Tomizaki, H.Yamaguchi, K.Shinzawa-Itoh, R.Nakashima, R.Yaono, S.Yoshikawa, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 2.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 189.100, 210.500, 178.600, 90.00, 90.00, 90.00
R / Rfree (%) 20.1 / 25.2

Other elements in 1occ:

The structure of Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State also contains other interesting chemical elements:

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

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State (pdb code 1occ). 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 Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State, PDB code: 1occ:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 1occ

Go back to Magnesium Binding Sites List in 1occ
Magnesium binding site 1 out of 2 in the Structure of Bovine Heart Cytochrome C Oxidase at 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 Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg518

b:12.0
occ:1.00
OE1 B:GLU198 2.5 31.5 1.0
OD2 A:ASP369 2.5 16.9 1.0
NE2 A:HIS368 2.7 21.7 1.0
CE1 A:HIS368 2.7 14.5 1.0
OE2 B:GLU198 3.2 26.3 1.0
CD B:GLU198 3.2 28.6 1.0
CG A:ASP369 3.7 17.2 1.0
CD2 A:HIS368 4.0 23.7 1.0
ND1 A:HIS368 4.1 7.0 1.0
OD2 B:ASP173 4.1 31.5 1.0
OD1 A:ASP369 4.5 23.2 1.0
CB A:ASP369 4.6 7.0 1.0
CG B:GLU198 4.6 18.3 1.0
O B:SER197 4.7 18.9 1.0
CG A:HIS368 4.7 10.3 1.0
CE2 A:TYR129 4.8 7.0 1.0
OD1 B:ASP173 4.9 22.4 1.0
CG B:ASP173 4.9 23.3 1.0

Magnesium binding site 2 out of 2 in 1occ

Go back to Magnesium Binding Sites List in 1occ
Magnesium binding site 2 out of 2 in the Structure of Bovine Heart Cytochrome C Oxidase at 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 Structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Mg518

b:12.0
occ:1.00
OE1 O:GLU198 2.5 31.5 1.0
OD2 N:ASP369 2.5 16.9 1.0
NE2 N:HIS368 2.7 21.7 1.0
CE1 N:HIS368 2.7 14.5 1.0
OE2 O:GLU198 3.2 26.3 1.0
CD O:GLU198 3.2 28.6 1.0
CG N:ASP369 3.7 17.2 1.0
CD2 N:HIS368 4.0 23.7 1.0
ND1 N:HIS368 4.1 7.0 1.0
OD2 O:ASP173 4.1 31.5 1.0
OD1 N:ASP369 4.5 23.2 1.0
CB N:ASP369 4.6 7.0 1.0
CG O:GLU198 4.6 18.3 1.0
O O:SER197 4.7 18.9 1.0
CG N:HIS368 4.7 10.3 1.0
CE2 N:TYR129 4.8 7.0 1.0
OD1 O:ASP173 4.9 22.4 1.0
CG O:ASP173 4.9 23.3 1.0

Reference:

T.Tsukihara, H.Aoyama, E.Yamashita, T.Tomizaki, H.Yamaguchi, K.Shinzawa-Itoh, R.Nakashima, R.Yaono, S.Yoshikawa. The Whole Structure of the 13-Subunit Oxidized Cytochrome C Oxidase at 2.8 A. Science V. 272 1136 1996.
ISSN: ISSN 0036-8075
PubMed: 8638158
Page generated: Mon Dec 14 06:34:34 2020

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