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Zinc in PDB 8gbt: Time-Resolve Sfx Structure of A Photoproduct of Carbon Monoxide Complex of Bovine Cytochrome C Oxidase

Enzymatic activity of Time-Resolve Sfx Structure of A Photoproduct of Carbon Monoxide Complex of Bovine Cytochrome C Oxidase

All present enzymatic activity of Time-Resolve Sfx Structure of A Photoproduct of Carbon Monoxide Complex of Bovine Cytochrome C Oxidase:
1.9.3.1;

Protein crystallography data

The structure of Time-Resolve Sfx Structure of A Photoproduct of Carbon Monoxide Complex of Bovine Cytochrome C Oxidase, PDB code: 8gbt was solved by I.Ishigami, S.-R.Yeh, D.L.Rousseau, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.00 / 2.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 178.3, 189, 209, 90, 90, 90
R / Rfree (%) 22.3 / 26.9

Other elements in 8gbt:

The structure of Time-Resolve Sfx Structure of A Photoproduct of Carbon Monoxide Complex of Bovine Cytochrome C Oxidase also contains other interesting chemical elements:

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

Zinc Binding Sites:

The binding sites of Zinc atom in the Time-Resolve Sfx Structure of A Photoproduct of Carbon Monoxide Complex of Bovine Cytochrome C Oxidase (pdb code 8gbt). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Time-Resolve Sfx Structure of A Photoproduct of Carbon Monoxide Complex of Bovine Cytochrome C Oxidase, PDB code: 8gbt:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 8gbt

Go back to Zinc Binding Sites List in 8gbt
Zinc binding site 1 out of 2 in the Time-Resolve Sfx Structure of A Photoproduct of Carbon Monoxide Complex of Bovine Cytochrome C Oxidase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Time-Resolve Sfx Structure of A Photoproduct of Carbon Monoxide Complex of Bovine Cytochrome C Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn101

b:67.7
occ:1.00
SG F:CYS82 2.2 39.6 1.0
SG F:CYS62 2.3 48.8 1.0
SG F:CYS60 2.3 45.5 1.0
SG F:CYS85 2.4 58.5 1.0
CB F:CYS82 3.1 42.4 1.0
CB F:CYS62 3.3 48.7 1.0
CB F:CYS60 3.3 44.3 1.0
CA F:CYS62 3.6 50.8 1.0
CB F:CYS85 3.8 57.2 1.0
N F:CYS85 3.8 57.1 1.0
CG2 F:THR87 4.0 46.4 1.0
N F:CYS62 4.0 50.0 1.0
CB F:SER84 4.3 59.5 1.0
CA F:CYS85 4.4 57.3 1.0
CA F:CYS60 4.5 42.6 1.0
CA F:CYS82 4.5 44.0 1.0
C F:CYS60 4.5 43.3 1.0
O F:CYS60 4.6 45.1 1.0
OG F:SER84 4.7 60.4 1.0
C F:SER84 4.7 57.6 1.0
N F:GLY86 4.8 54.6 1.0
CA F:SER84 4.9 58.5 1.0
N F:SER84 4.9 54.7 1.0
C F:CYS85 4.9 57.0 1.0
C F:CYS62 4.9 55.0 1.0

Zinc binding site 2 out of 2 in 8gbt

Go back to Zinc Binding Sites List in 8gbt
Zinc binding site 2 out of 2 in the Time-Resolve Sfx Structure of A Photoproduct of Carbon Monoxide Complex of Bovine Cytochrome C Oxidase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Time-Resolve Sfx Structure of A Photoproduct of Carbon Monoxide Complex of Bovine Cytochrome C Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
S:Zn101

b:67.9
occ:1.00
SG S:CYS62 2.3 59.0 1.0
SG S:CYS85 2.4 67.7 1.0
SG S:CYS60 2.5 55.3 1.0
SG S:CYS82 2.6 53.1 1.0
CB S:CYS82 3.2 52.5 1.0
CB S:CYS62 3.3 59.8 1.0
CB S:CYS60 3.3 52.7 1.0
CB S:CYS85 3.4 65.6 1.0
CA S:CYS62 3.5 57.4 1.0
N S:CYS85 3.8 57.9 1.0
N S:CYS62 4.1 57.7 1.0
CA S:CYS85 4.2 61.7 1.0
CB S:SER84 4.4 56.5 1.0
OG1 S:THR87 4.4 58.3 1.0
CA S:CYS60 4.5 52.4 1.0
C S:CYS60 4.6 49.6 1.0
CA S:CYS82 4.7 53.3 1.0
O S:CYS60 4.7 44.9 1.0
N S:GLY86 4.8 64.5 1.0
OG S:SER84 4.8 58.1 1.0
C S:CYS85 4.8 63.1 1.0
C S:SER84 4.9 57.4 1.0
C S:CYS62 4.9 58.2 1.0
C S:ILE61 5.0 55.3 1.0

Reference:

I.Ishigami, S.-R.Yeh, D.L.Rousseau. Detection of A Geminate Photoproduct of Bovine Cytochrome C Oxidase By Time-Resolved Serial Femtosecond Crystallography To Be Published.
Page generated: Thu Dec 28 13:05:04 2023

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