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

Iron in PDB 3asn: Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 1.7470 Angstrom Wavelength

Enzymatic activity of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 1.7470 Angstrom Wavelength

All present enzymatic activity of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 1.7470 Angstrom Wavelength:
1.9.3.1;

Protein crystallography data

The structure of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 1.7470 Angstrom Wavelength, PDB code: 3asn 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 / 3.00
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 181.826, 204.098, 177.829, 90.00, 90.00, 90.00
R / Rfree (%) 15 / 18.7

Other elements in 3asn:

The structure of Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 1.7470 Angstrom Wavelength also contains other interesting chemical elements:

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

Iron Binding Sites:

The binding sites of Iron atom in the Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 1.7470 Angstrom Wavelength (pdb code 3asn). 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 1.7470 Angstrom Wavelength, PDB code: 3asn:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 3asn

Go back to Iron Binding Sites List in 3asn
Iron binding site 1 out of 4 in the Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 1.7470 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 1.7470 Angstrom Wavelength within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe515

b:25.6
occ:1.00
 FE A:HEA515 0.0 25.6 1.0
NE2 A:HIS378 2.0 18.8 1.0
NE2 A:HIS61 2.1 18.6 1.0
NC A:HEA515 2.1 19.5 1.0
NB A:HEA515 2.1 18.9 1.0
ND A:HEA515 2.1 18.2 1.0
NA A:HEA515 2.1 18.5 1.0
CE1 A:HIS378 2.8 16.6 1.0
CD2 A:HIS378 3.0 16.2 1.0
CE1 A:HIS61 3.0 14.3 1.0
C4C A:HEA515 3.0 19.9 1.0
CD2 A:HIS61 3.0 14.4 1.0
C1B A:HEA515 3.1 18.7 1.0
C1C A:HEA515 3.1 19.9 1.0
C1D A:HEA515 3.1 16.2 1.0
C4B A:HEA515 3.1 18.8 1.0
C4A A:HEA515 3.1 17.5 1.0
C4D A:HEA515 3.1 19.1 1.0
C1A A:HEA515 3.1 19.5 1.0
CHB A:HEA515 3.4 18.6 1.0
CHD A:HEA515 3.4 16.6 1.0
CHC A:HEA515 3.5 18.9 1.0
CHA A:HEA515 3.5 18.2 1.0
ND1 A:HIS378 4.0 18.5 1.0
CG A:HIS378 4.1 17.2 1.0
ND1 A:HIS61 4.1 14.1 1.0
CG A:HIS61 4.2 14.8 1.0
C2B A:HEA515 4.2 16.9 1.0
C3C A:HEA515 4.3 21.6 1.0
C2C A:HEA515 4.3 20.1 1.0
C3B A:HEA515 4.3 16.6 1.0
C2D A:HEA515 4.3 16.0 1.0
C3A A:HEA515 4.3 17.4 1.0
C3D A:HEA515 4.3 18.8 1.0
C2A A:HEA515 4.4 19.0 1.0
CE2 A:PHE377 4.8 10.9 1.0

Iron binding site 2 out of 4 in 3asn

Go back to Iron Binding Sites List in 3asn
Iron binding site 2 out of 4 in the Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 1.7470 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 1.7470 Angstrom Wavelength within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe516

b:26.8
occ:1.00
 FE A:HEA516 0.0 26.8 1.0
NA A:HEA516 2.1 17.3 1.0
NB A:HEA516 2.1 18.6 1.0
NC A:HEA516 2.1 16.6 1.0
ND A:HEA516 2.1 17.6 1.0
NE2 A:HIS376 2.3 20.7 1.0
C1A A:HEA516 3.0 15.7 1.0
C4A A:HEA516 3.1 15.8 1.0
C1B A:HEA516 3.1 17.2 1.0
C1C A:HEA516 3.1 18.0 1.0
C4B A:HEA516 3.1 18.4 1.0
C4D A:HEA516 3.1 13.7 1.0
C1D A:HEA516 3.1 15.1 1.0
C4C A:HEA516 3.1 14.1 1.0
CE1 A:HIS376 3.1 18.1 1.0
CD2 A:HIS376 3.4 18.6 1.0
CHB A:HEA516 3.4 18.1 1.0
CHA A:HEA516 3.4 13.8 1.0
CHC A:HEA516 3.5 17.5 1.0
CHD A:HEA516 3.5 10.5 1.0
C2A A:HEA516 4.3 15.1 1.0
C3A A:HEA516 4.3 14.9 1.0
C2B A:HEA516 4.3 15.6 1.0
C3B A:HEA516 4.3 16.8 1.0
C2D A:HEA516 4.3 14.2 1.0
C3D A:HEA516 4.3 13.0 1.0
ND1 A:HIS376 4.3 17.8 1.0
C2C A:HEA516 4.3 16.8 1.0
C3C A:HEA516 4.3 16.3 1.0
CG A:HIS376 4.4 17.4 1.0
CU A:CU517 4.7 22.5 1.0

Iron binding site 3 out of 4 in 3asn

Go back to Iron Binding Sites List in 3asn
Iron binding site 3 out of 4 in the Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 1.7470 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 1.7470 Angstrom Wavelength within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe515

b:41.8
occ:1.00
 FE N:HEA515 0.0 41.8 1.0
NE2 N:HIS378 2.0 18.8 1.0
NB N:HEA515 2.0 55.1 1.0
NE2 N:HIS61 2.0 21.5 1.0
NA N:HEA515 2.1 69.8 1.0
ND N:HEA515 2.1 59.3 1.0
NC N:HEA515 2.1 57.3 1.0
CE1 N:HIS378 2.9 16.5 1.0
C1B N:HEA515 3.0 39.5 1.0
CE1 N:HIS61 3.0 16.3 1.0
C4B N:HEA515 3.0 35.9 1.0
CD2 N:HIS61 3.0 17.9 1.0
C4A N:HEA515 3.0 64.4 1.0
C1A N:HEA515 3.0 62.7 1.0
C1D N:HEA515 3.1 46.6 1.0
C4C N:HEA515 3.1 38.4 1.0
CD2 N:HIS378 3.1 15.4 1.0
C4D N:HEA515 3.1 56.4 1.0
C1C N:HEA515 3.1 57.2 1.0
CHB N:HEA515 3.4 69.2 1.0
CHA N:HEA515 3.4 53.1 1.0
CHC N:HEA515 3.4 42.5 1.0
CHD N:HEA515 3.4 40.8 1.0
ND1 N:HIS378 4.0 17.2 1.0
ND1 N:HIS61 4.1 16.9 1.0
CG N:HIS61 4.2 19.1 1.0
CG N:HIS378 4.2 18.2 1.0
C2B N:HEA515 4.2 36.4 1.0
C3A N:HEA515 4.2 70.3 1.0
C2A N:HEA515 4.2 66.0 1.0
C3B N:HEA515 4.3 39.5 1.0
C2D N:HEA515 4.3 33.8 1.0
C3C N:HEA515 4.3 43.2 1.0
C2C N:HEA515 4.3 40.2 1.0
C3D N:HEA515 4.3 35.4 1.0
CE2 N:PHE377 4.8 14.3 1.0

Iron binding site 4 out of 4 in 3asn

Go back to Iron Binding Sites List in 3asn
Iron binding site 4 out of 4 in the Bovine Heart Cytochrome C Oxidase in the Fully Oxidized State Measured at 1.7470 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 1.7470 Angstrom Wavelength within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Fe516

b:21.9
occ:1.00
 FE N:HEA516 0.0 21.9 1.0
ND N:HEA516 2.1 21.5 1.0
NB N:HEA516 2.1 15.9 1.0
NA N:HEA516 2.1 20.1 1.0
NC N:HEA516 2.1 20.6 1.0
NE2 N:HIS376 2.3 21.8 1.0
C1D N:HEA516 3.0 19.7 1.0
C4D N:HEA516 3.1 19.5 1.0
C1B N:HEA516 3.1 15.7 1.0
C4A N:HEA516 3.1 17.5 1.0
C4B N:HEA516 3.1 15.6 1.0
C4C N:HEA516 3.1 17.5 1.0
C1A N:HEA516 3.1 19.3 1.0
C1C N:HEA516 3.1 18.6 1.0
CD2 N:HIS376 3.2 20.5 1.0
CE1 N:HIS376 3.3 20.4 1.0
CHB N:HEA516 3.4 18.9 1.0
CHA N:HEA516 3.4 15.7 1.0
CHD N:HEA516 3.5 17.6 1.0
CHC N:HEA516 3.5 18.5 1.0
C2D N:HEA516 4.2 17.3 1.0
C3D N:HEA516 4.3 17.5 1.0
C3B N:HEA516 4.3 14.5 1.0
C2B N:HEA516 4.3 11.8 1.0
C3A N:HEA516 4.3 17.7 1.0
C2C N:HEA516 4.3 16.9 1.0
C3C N:HEA516 4.3 19.1 1.0
C2A N:HEA516 4.3 16.0 1.0
CG N:HIS376 4.4 18.8 1.0
ND1 N:HIS376 4.4 17.5 1.0
CU N:CU517 4.7 24.9 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 Aug 4 07:24:32 2024

Last articles

Cl in 2XXV
Cl in 2XXW
Cl in 2XXU
Cl in 2XXT
Cl in 2XXR
Cl in 2XVL
Cl in 2XX4
Cl in 2XX5
Cl in 2XVZ
Cl in 2XVX
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy