Atomistry » Iron » PDB 3ark-3b99 » 3aso
Atomistry »
  Iron »
    PDB 3ark-3b99 »
      3aso »

Iron in PDB 3aso: Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength

Enzymatic activity of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength

All present enzymatic activity of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength:
1.9.3.1;

Protein crystallography data

The structure of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength, PDB code: 3aso was solved by M.Suga, N.Yano, K.Muramoto, K.Shinzawa-Itoh, T.Maeda, E.Yamashita, T.Tsukihara, S.Yoshikawa, 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 (°) 181.874, 204.106, 177.874, 90.00, 90.00, 90.00
R / Rfree (%) 16.9 / 20.5

Other elements in 3aso:

The structure of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength also contains other interesting chemical elements:

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

Iron Binding Sites:

The binding sites of Iron atom in the Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength (pdb code 3aso). 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 in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength, PDB code: 3aso:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 3aso

Go back to Iron Binding Sites List in 3aso
Iron binding site 1 out of 4 in the Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength


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 in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe515

b:18.2
occ:1.00
 FE A:HEA515 0.0 18.2 1.0
NE2 A:HIS378 2.0 16.9 1.0
NE2 A:HIS61 2.0 16.9 1.0
NB A:HEA515 2.0 19.1 1.0
ND A:HEA515 2.1 18.2 1.0
NC A:HEA515 2.1 19.6 1.0
NA A:HEA515 2.1 18.5 1.0
CE1 A:HIS378 2.9 17.9 1.0
CE1 A:HIS61 3.0 15.2 1.0
CD2 A:HIS61 3.0 15.4 1.0
C1B A:HEA515 3.0 20.4 1.0
C4B A:HEA515 3.1 20.9 1.0
C1D A:HEA515 3.1 20.3 1.0
C4C A:HEA515 3.1 21.0 1.0
CD2 A:HIS378 3.1 17.1 1.0
C4D A:HEA515 3.1 18.4 1.0
C1C A:HEA515 3.1 19.4 1.0
C1A A:HEA515 3.1 17.6 1.0
C4A A:HEA515 3.1 18.5 1.0
CHB A:HEA515 3.5 15.6 1.0
CHD A:HEA515 3.5 18.6 1.0
CHC A:HEA515 3.5 15.6 1.0
CHA A:HEA515 3.5 18.4 1.0
ND1 A:HIS378 4.0 19.6 1.0
ND1 A:HIS61 4.1 13.9 1.0
CG A:HIS61 4.1 16.9 1.0
CG A:HIS378 4.2 17.2 1.0
C2B A:HEA515 4.2 20.0 1.0
C3B A:HEA515 4.3 17.2 1.0
C2D A:HEA515 4.3 18.9 1.0
C3D A:HEA515 4.3 19.4 1.0
C2A A:HEA515 4.3 20.7 1.0
C3A A:HEA515 4.3 18.6 1.0
C3C A:HEA515 4.3 19.4 1.0
C2C A:HEA515 4.3 20.7 1.0
CE2 A:PHE377 4.9 17.6 1.0

Iron binding site 2 out of 4 in 3aso

Go back to Iron Binding Sites List in 3aso
Iron binding site 2 out of 4 in the Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength


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 in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe516

b:19.8
occ:1.00
 FE A:HEA516 0.0 19.8 1.0
ND A:HEA516 2.0 17.6 1.0
NB A:HEA516 2.0 18.3 1.0
NA A:HEA516 2.1 18.1 1.0
NC A:HEA516 2.1 18.2 1.0
NE2 A:HIS376 2.2 20.4 1.0
C1D A:HEA516 3.0 18.9 1.0
C4D A:HEA516 3.0 14.1 1.0
C1A A:HEA516 3.0 15.5 1.0
CE1 A:HIS376 3.0 19.0 1.0
C1B A:HEA516 3.1 21.2 1.0
C4A A:HEA516 3.1 20.1 1.0
C1C A:HEA516 3.1 19.1 1.0
C4B A:HEA516 3.1 19.1 1.0
C4C A:HEA516 3.1 19.8 1.0
CD2 A:HIS376 3.3 19.6 1.0
CHA A:HEA516 3.4 11.6 1.0
CHB A:HEA516 3.4 20.6 1.0
CHD A:HEA516 3.5 16.4 1.0
CHC A:HEA516 3.5 15.3 1.0
C2D A:HEA516 4.2 16.7 1.0
ND1 A:HIS376 4.2 21.9 1.0
C3D A:HEA516 4.2 16.0 1.0
C3B A:HEA516 4.3 19.6 1.0
C3A A:HEA516 4.3 18.7 1.0
C2C A:HEA516 4.3 19.7 1.0
C2B A:HEA516 4.3 21.9 1.0
C2A A:HEA516 4.3 19.1 1.0
C3C A:HEA516 4.3 19.5 1.0
CG A:HIS376 4.4 19.1 1.0
CG2 A:VAL243 4.9 15.1 1.0
CU A:CU517 4.9 20.8 1.0

Iron binding site 3 out of 4 in 3aso

Go back to Iron Binding Sites List in 3aso
Iron binding site 3 out of 4 in the Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength


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 in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe515

b:33.1
occ:1.00
 FE N:HEA515 0.0 33.1 1.0
NB N:HEA515 2.0 43.3 1.0
ND N:HEA515 2.0 39.3 1.0
NE2 N:HIS378 2.0 13.9 1.0
NE2 N:HIS61 2.0 13.1 1.0
NA N:HEA515 2.1 49.3 1.0
NC N:HEA515 2.1 50.9 1.0
CE1 N:HIS378 2.9 19.2 1.0
CE1 N:HIS61 3.0 13.8 1.0
C1D N:HEA515 3.0 34.1 1.0
CD2 N:HIS61 3.0 17.6 1.0
C1B N:HEA515 3.0 29.1 1.0
C4B N:HEA515 3.0 30.7 1.0
C1A N:HEA515 3.0 50.8 1.0
C4A N:HEA515 3.0 48.8 1.0
C4D N:HEA515 3.0 46.1 1.0
C4C N:HEA515 3.1 32.9 1.0
CD2 N:HIS378 3.1 17.6 1.0
C1C N:HEA515 3.1 45.0 1.0
CHA N:HEA515 3.4 37.5 1.0
CHB N:HEA515 3.5 44.9 1.0
CHD N:HEA515 3.5 28.8 1.0
CHC N:HEA515 3.5 30.6 1.0
ND1 N:HIS378 4.1 21.7 1.0
ND1 N:HIS61 4.1 16.7 1.0
CG N:HIS61 4.2 20.0 1.0
CG N:HIS378 4.2 19.5 1.0
C3A N:HEA515 4.2 52.6 1.0
C2A N:HEA515 4.2 45.8 1.0
C2D N:HEA515 4.2 28.0 1.0
C2B N:HEA515 4.3 30.0 1.0
C3B N:HEA515 4.3 28.1 1.0
C3C N:HEA515 4.3 33.6 1.0
C3D N:HEA515 4.3 28.2 1.0
C2C N:HEA515 4.3 30.2 1.0
CE2 N:PHE377 4.8 19.1 1.0

Iron binding site 4 out of 4 in 3aso

Go back to Iron Binding Sites List in 3aso
Iron binding site 4 out of 4 in the Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength


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 in the Fully Oxidized State Measured at 0.9 Angstrom Wavelength within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe516

b:21.2
occ:1.00
 FE N:HEA516 0.0 21.2 1.0
ND N:HEA516 2.0 20.8 1.0
NB N:HEA516 2.0 17.4 1.0
NC N:HEA516 2.0 20.8 1.0
NA N:HEA516 2.1 19.0 1.0
NE2 N:HIS376 2.2 22.5 1.0
C1B N:HEA516 3.0 19.1 1.0
C1D N:HEA516 3.0 23.7 1.0
C4D N:HEA516 3.0 17.8 1.0
C4B N:HEA516 3.0 17.5 1.0
C4C N:HEA516 3.0 22.8 1.0
C1C N:HEA516 3.1 23.1 1.0
C1A N:HEA516 3.1 18.9 1.0
C4A N:HEA516 3.1 20.0 1.0
CD2 N:HIS376 3.1 19.1 1.0
CE1 N:HIS376 3.2 20.2 1.0
CHA N:HEA516 3.4 19.1 1.0
CHD N:HEA516 3.4 18.0 1.0
CHB N:HEA516 3.5 17.4 1.0
CHC N:HEA516 3.5 18.9 1.0
C2D N:HEA516 4.2 20.9 1.0
C3D N:HEA516 4.2 22.1 1.0
C2B N:HEA516 4.2 18.9 1.0
C3B N:HEA516 4.3 17.4 1.0
C2C N:HEA516 4.3 23.4 1.0
C3A N:HEA516 4.3 18.6 1.0
C3C N:HEA516 4.3 22.7 1.0
ND1 N:HIS376 4.3 20.4 1.0
CG N:HIS376 4.3 19.7 1.0
C2A N:HEA516 4.3 21.1 1.0
CU N:CU517 4.9 23.1 1.0
CG2 N:VAL243 4.9 13.4 1.0

Reference:

M.Suga, N.Yano, K.Muramoto, K.Shinzawa-Itoh, T.Maeda, E.Yamashita, T.Tsukihara, S.Yoshikawa. Distinguishing Between Cl- and O2(2-) As the Bridging Element Between FE3+ and CU2+ in Resting-Oxidized Cytochrome C Oxidase Acta Crystallogr.,Sect.D V. 67 742 2011.
ISSN: ISSN 0907-4449
PubMed: 21795816
DOI: 10.1107/S0907444911022803
Page generated: Sun Dec 13 15:01:13 2020

Last articles

Zn in 8PFC
Zn in 8SF0
Zn in 8SOJ
Zn in 8SOK
Zn in 8SYI
Zn in 8SLG
Zn in 8SEX
Zn in 8SEZ
Zn in 8SJG
Zn in 8SEY
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy