Atomistry » Iron » PDB 2nwf-2oof » 2occ
Atomistry »
  Iron »
    PDB 2nwf-2oof »
      2occ »

Iron in PDB 2occ: Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State

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

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

Protein crystallography data

The structure of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State, PDB code: 2occ was solved by T.Tsukihara, M.Yao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.00 / 2.30
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 (%) 20.9 / 24.4

Other elements in 2occ:

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

Magnesium (Mg) 2 atoms
Zinc (Zn) 2 atoms
Copper (Cu) 6 atoms
Sodium (Na) 2 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State (pdb code 2occ). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State, PDB code: 2occ:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 2occ

Go back to Iron Binding Sites List in 2occ
Iron binding site 1 out of 4 in the Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe515

b:18.9
occ:1.00
FE A:HEA515 0.0 18.9 1.0
NE2 A:HIS61 1.8 7.3 1.0
NE2 A:HIS378 1.9 13.7 1.0
ND A:HEA515 1.9 19.4 1.0
NB A:HEA515 2.0 24.0 1.0
NA A:HEA515 2.0 28.9 1.0
NC A:HEA515 2.1 29.1 1.0
CE1 A:HIS378 2.6 20.1 1.0
CE1 A:HIS61 2.7 16.9 1.0
C1B A:HEA515 3.0 29.9 1.0
C4D A:HEA515 3.0 27.1 1.0
C1D A:HEA515 3.0 26.6 1.0
C4A A:HEA515 3.0 26.6 1.0
C1A A:HEA515 3.1 20.5 1.0
CD2 A:HIS61 3.1 16.3 1.0
C4B A:HEA515 3.1 26.6 1.0
C4C A:HEA515 3.1 26.1 1.0
C1C A:HEA515 3.2 21.7 1.0
CD2 A:HIS378 3.2 19.6 1.0
CHB A:HEA515 3.4 25.2 1.0
CHA A:HEA515 3.4 21.5 1.0
CHD A:HEA515 3.5 25.4 1.0
CHC A:HEA515 3.5 25.3 1.0
ND1 A:HIS378 3.9 19.8 1.0
ND1 A:HIS61 4.0 14.3 1.0
CG A:HIS378 4.2 14.9 1.0
CG A:HIS61 4.2 10.8 1.0
C3D A:HEA515 4.2 25.8 1.0
C2A A:HEA515 4.2 26.8 1.0
C2B A:HEA515 4.2 25.9 1.0
C2D A:HEA515 4.3 23.4 1.0
C3A A:HEA515 4.3 23.6 1.0
C3B A:HEA515 4.3 26.1 1.0
C3C A:HEA515 4.4 27.1 1.0
C2C A:HEA515 4.4 28.0 1.0
CE1 A:PHE377 4.9 24.7 1.0

Iron binding site 2 out of 4 in 2occ

Go back to Iron Binding Sites List in 2occ
Iron binding site 2 out of 4 in the Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe516

b:20.1
occ:1.00
FE A:HEA516 0.0 20.1 1.0
ND A:HEA516 1.9 16.9 1.0
NB A:HEA516 1.9 11.5 1.0
NE2 A:HIS376 1.9 11.0 1.0
NC A:HEA516 2.0 25.2 1.0
NA A:HEA516 2.0 24.2 1.0
O1 A:PER520 2.2 10.3 1.0
CE1 A:HIS376 2.8 15.3 1.0
C4D A:HEA516 2.9 23.4 1.0
C1D A:HEA516 3.0 25.0 1.0
C4B A:HEA516 3.0 23.0 1.0
C1B A:HEA516 3.0 24.8 1.0
C1A A:HEA516 3.0 13.3 1.0
C4C A:HEA516 3.1 21.6 1.0
C1C A:HEA516 3.1 16.4 1.0
C4A A:HEA516 3.1 17.9 1.0
CD2 A:HIS376 3.1 12.1 1.0
CHA A:HEA516 3.3 16.0 1.0
CHD A:HEA516 3.4 24.2 1.0
CHC A:HEA516 3.4 19.0 1.0
CHB A:HEA516 3.5 21.0 1.0
O2 A:PER520 3.6 15.3 1.0
ND1 A:HIS376 4.1 10.9 1.0
C3D A:HEA516 4.2 22.3 1.0
CG A:HIS376 4.2 7.3 1.0
C2B A:HEA516 4.2 16.9 1.0
C2D A:HEA516 4.3 20.0 1.0
C3B A:HEA516 4.3 21.1 1.0
C2A A:HEA516 4.3 21.2 1.0
C3A A:HEA516 4.3 17.3 1.0
C2C A:HEA516 4.3 26.0 1.0
C3C A:HEA516 4.3 23.4 1.0
CU A:CU517 4.9 16.3 1.0

Iron binding site 3 out of 4 in 2occ

Go back to Iron Binding Sites List in 2occ
Iron binding site 3 out of 4 in the Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe515

b:34.8
occ:1.00
FE N:HEA515 0.0 34.8 1.0
NE2 N:HIS61 1.8 27.5 1.0
ND N:HEA515 1.9 31.4 1.0
NE2 N:HIS378 2.0 26.8 1.0
NC N:HEA515 2.0 30.9 1.0
NB N:HEA515 2.0 35.3 1.0
NA N:HEA515 2.0 32.7 1.0
CE1 N:HIS378 2.7 26.9 1.0
CE1 N:HIS61 2.8 27.1 1.0
C1D N:HEA515 3.0 33.0 1.0
C4D N:HEA515 3.0 34.3 1.0
CD2 N:HIS61 3.0 29.9 1.0
C4C N:HEA515 3.0 31.1 1.0
C1C N:HEA515 3.1 32.9 1.0
C1B N:HEA515 3.1 35.5 1.0
C1A N:HEA515 3.1 34.0 1.0
C4A N:HEA515 3.1 33.1 1.0
C4B N:HEA515 3.1 32.9 1.0
CD2 N:HIS378 3.2 27.3 1.0
CHD N:HEA515 3.4 31.0 1.0
CHA N:HEA515 3.4 34.5 1.0
CHC N:HEA515 3.5 32.0 1.0
CHB N:HEA515 3.5 33.9 1.0
ND1 N:HIS378 4.0 26.3 1.0
ND1 N:HIS61 4.0 26.4 1.0
CG N:HIS61 4.2 24.9 1.0
C2D N:HEA515 4.2 31.0 1.0
C3D N:HEA515 4.2 29.8 1.0
CG N:HIS378 4.2 24.1 1.0
C2B N:HEA515 4.3 33.8 1.0
C3C N:HEA515 4.3 33.0 1.0
C2A N:HEA515 4.3 34.0 1.0
C2C N:HEA515 4.3 32.4 1.0
C3B N:HEA515 4.3 31.4 1.0
C3A N:HEA515 4.3 33.2 1.0
CE1 N:PHE377 4.9 29.5 1.0

Iron binding site 4 out of 4 in 2occ

Go back to Iron Binding Sites List in 2occ
Iron binding site 4 out of 4 in the Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Bovine Heart Cytochrome C Oxidase at the Fully Oxidized State within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe516

b:26.8
occ:1.00
FE N:HEA516 0.0 26.8 1.0
ND N:HEA516 1.9 24.1 1.0
NB N:HEA516 1.9 19.4 1.0
NE2 N:HIS376 1.9 28.2 1.0
NA N:HEA516 2.0 23.9 1.0
NC N:HEA516 2.0 25.4 1.0
O1 N:PER520 2.3 22.6 1.0
CE1 N:HIS376 2.8 31.5 1.0
C4D N:HEA516 2.9 25.2 1.0
C1B N:HEA516 3.0 27.0 1.0
C1A N:HEA516 3.0 22.5 1.0
C4B N:HEA516 3.0 23.1 1.0
C1D N:HEA516 3.0 27.7 1.0
C4A N:HEA516 3.1 25.2 1.0
C1C N:HEA516 3.1 22.7 1.0
C4C N:HEA516 3.1 26.6 1.0
CD2 N:HIS376 3.1 32.0 1.0
CHA N:HEA516 3.3 24.2 1.0
CHC N:HEA516 3.4 18.7 1.0
CHD N:HEA516 3.4 28.7 1.0
CHB N:HEA516 3.4 26.1 1.0
O2 N:PER520 3.5 21.1 1.0
ND1 N:HIS376 4.1 28.3 1.0
C3D N:HEA516 4.2 24.9 1.0
CG N:HIS376 4.2 26.7 1.0
C2A N:HEA516 4.2 25.6 1.0
C2B N:HEA516 4.2 22.8 1.0
C2D N:HEA516 4.3 25.3 1.0
C3A N:HEA516 4.3 21.6 1.0
C3B N:HEA516 4.3 24.7 1.0
C2C N:HEA516 4.3 26.3 1.0
C3C N:HEA516 4.3 26.5 1.0
CU N:CU517 4.9 29.1 1.0

Reference:

S.Yoshikawa, K.Shinzawa-Itoh, R.Nakashima, R.Yaono, E.Yamashita, N.Inoue, M.Yao, M.J.Fei, C.P.Libeu, T.Mizushima, H.Yamaguchi, T.Tomizaki, T.Tsukihara. Redox-Coupled Crystal Structural Changes in Bovine Heart Cytochrome C Oxidase. Science V. 280 1723 1998.
ISSN: ISSN 0036-8075
PubMed: 9624044
DOI: 10.1126/SCIENCE.280.5370.1723
Page generated: Sun Dec 13 14:50:19 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy