Zinc in PDB 7ev7: Bovine Heart Cytochrome C Oxidase in the Carbon Monoxide-Bound Fully Reduced State at A 50 K

Enzymatic activity of Bovine Heart Cytochrome C Oxidase in the Carbon Monoxide-Bound Fully Reduced State at A 50 K

All present enzymatic activity of Bovine Heart Cytochrome C Oxidase in the Carbon Monoxide-Bound Fully Reduced State at A 50 K:
7.1.1.9;

Protein crystallography data

The structure of Bovine Heart Cytochrome C Oxidase in the Carbon Monoxide-Bound Fully Reduced State at A 50 K, PDB code: 7ev7 was solved by A.Shimada, S.Yoshikawa, T.Tsukihara, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.74 / 1.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 181.539, 203.655, 177.569, 90, 90, 90
R / Rfree (%) 15.9 / 17.8

Other elements in 7ev7:

The structure of Bovine Heart Cytochrome C Oxidase in the Carbon Monoxide-Bound Fully Reduced State at A 50 K also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms
Sodium (Na) 4 atoms
Iron (Fe) 4 atoms
Copper (Cu) 6 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Bovine Heart Cytochrome C Oxidase in the Carbon Monoxide-Bound Fully Reduced State at A 50 K (pdb code 7ev7). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Bovine Heart Cytochrome C Oxidase in the Carbon Monoxide-Bound Fully Reduced State at A 50 K, PDB code: 7ev7:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 7ev7

Go back to Zinc Binding Sites List in 7ev7
Zinc binding site 1 out of 2 in the Bovine Heart Cytochrome C Oxidase in the Carbon Monoxide-Bound Fully Reduced State at A 50 K


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Bovine Heart Cytochrome C Oxidase in the Carbon Monoxide-Bound Fully Reduced State at A 50 K within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn101

b:27.5
occ:1.00
SG F:CYS62 2.3 27.7 1.0
SG F:CYS60 2.3 26.9 1.0
SG F:CYS85 2.3 28.1 1.0
SG F:CYS82 2.3 26.4 1.0
CB F:CYS82 3.2 26.4 1.0
CB F:CYS60 3.3 26.9 1.0
CB F:CYS62 3.3 26.1 1.0
CB F:CYS85 3.4 26.4 1.0
CA F:CYS62 3.6 26.6 1.0
N F:CYS85 3.7 28.8 1.0
CA F:CYS85 4.1 27.6 1.0
N F:CYS62 4.2 27.4 1.0
O F:CYS60 4.4 23.8 1.0
OG1 F:THR87 4.4 38.3 0.5
C F:CYS60 4.5 27.7 1.0
CA F:CYS60 4.5 25.4 1.0
CB F:SER84 4.5 28.6 1.0
O F:HOH221 4.5 42.3 1.0
CA F:CYS82 4.6 27.4 1.0
C F:SER84 4.7 29.3 1.0
OG F:SER84 4.8 34.1 1.0
CG2 F:THR87 4.8 39.5 0.5
C F:CYS85 4.8 28.8 1.0
N F:GLY86 4.9 27.9 1.0
C F:ILE61 4.9 30.4 1.0
CB F:ILE70 4.9 23.7 1.0
CG1 F:ILE70 4.9 25.4 1.0
C F:CYS62 4.9 28.9 1.0
N F:SER84 5.0 27.1 1.0
CA F:SER84 5.0 27.7 1.0

Zinc binding site 2 out of 2 in 7ev7

Go back to Zinc Binding Sites List in 7ev7
Zinc binding site 2 out of 2 in the Bovine Heart Cytochrome C Oxidase in the Carbon Monoxide-Bound Fully Reduced State at A 50 K


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Bovine Heart Cytochrome C Oxidase in the Carbon Monoxide-Bound Fully Reduced State at A 50 K within 5.0Å range:
probe atom residue distance (Å) B Occ
S:Zn101

b:27.8
occ:1.00
SG S:CYS62 2.3 26.7 1.0
SG S:CYS60 2.3 26.0 1.0
SG S:CYS85 2.3 28.3 1.0
SG S:CYS82 2.4 26.7 1.0
CB S:CYS82 3.2 25.8 1.0
CB S:CYS62 3.3 28.0 1.0
CB S:CYS60 3.3 25.1 1.0
CB S:CYS85 3.3 28.0 1.0
CA S:CYS62 3.6 26.7 1.0
N S:CYS85 3.7 27.8 1.0
CA S:CYS85 4.1 30.3 1.0
N S:CYS62 4.2 27.9 1.0
OG1 S:THR87 4.3 38.1 0.6
O S:CYS60 4.4 24.1 1.0
CB S:SER84 4.4 29.4 1.0
C S:CYS60 4.5 25.5 1.0
CA S:CYS60 4.5 24.5 1.0
O S:HOH229 4.6 36.2 1.0
CA S:CYS82 4.6 25.7 1.0
C S:SER84 4.7 29.5 1.0
OG S:SER84 4.8 34.2 1.0
C S:CYS85 4.8 31.3 1.0
CG2 S:THR87 4.9 38.3 0.4
C S:ILE61 4.9 28.1 1.0
CG1 S:ILE70 4.9 25.4 1.0
CA S:SER84 4.9 29.4 1.0
CB S:ILE70 4.9 23.6 1.0
N S:GLY86 5.0 28.9 1.0
C S:CYS62 5.0 32.4 1.0
N S:SER84 5.0 29.9 1.0

Reference:

A.Shimada, K.Shinzawa-Itoh, K.Muramoto, T.Tsukihara, S.Yoshikawa. Structure of Co-Bound Fully Reduced State of Bovine Heart Cytochrome C Oxidase To Be Published.
Page generated: Sun Aug 22 09:42:59 2021

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