Atomistry » Iron » PDB 6cdk-6cxu » 6ci0
Atomistry »
  Iron »
    PDB 6cdk-6cxu »
      6ci0 »

Iron in PDB 6ci0: Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation

Enzymatic activity of Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation

All present enzymatic activity of Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation:
1.9.3.1;

Protein crystallography data

The structure of Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation, PDB code: 6ci0 was solved by J.Liu, C.Hiser, S.Ferguson-Miller, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.09 / 2.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 124.916, 130.969, 177.788, 90.00, 90.00, 90.00
R / Rfree (%) 19.9 / 23.4

Other elements in 6ci0:

The structure of Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms
Potassium (K) 1 atom
Cadmium (Cd) 2 atoms
Calcium (Ca) 2 atoms
Copper (Cu) 6 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation (pdb code 6ci0). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation, PDB code: 6ci0:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 6ci0

Go back to Iron Binding Sites List in 6ci0
Iron binding site 1 out of 4 in the Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe617

b:38.6
occ:1.00
 FE A:HEA617 0.0 38.6 1.0
NA A:HEA617 2.0 44.7 1.0
NC A:HEA617 2.0 45.1 1.0
NB A:HEA617 2.1 39.9 1.0
ND A:HEA617 2.1 41.1 1.0
NE2 A:HIS421 2.3 33.7 1.0
NE2 A:HIS102 2.3 31.5 1.0
C4A A:HEA617 3.0 35.8 1.0
C1A A:HEA617 3.0 36.5 1.0
C4C A:HEA617 3.0 46.3 1.0
C4B A:HEA617 3.0 43.5 1.0
C1B A:HEA617 3.1 34.5 1.0
C1C A:HEA617 3.1 42.1 1.0
C1D A:HEA617 3.1 44.9 1.0
C4D A:HEA617 3.1 39.9 1.0
CD2 A:HIS421 3.2 40.6 1.0
CD2 A:HIS102 3.2 36.4 1.0
CE1 A:HIS421 3.3 42.2 1.0
CE1 A:HIS102 3.4 40.8 1.0
CHB A:HEA617 3.4 36.4 1.0
CHC A:HEA617 3.4 37.4 1.0
CHD A:HEA617 3.4 45.2 1.0
CHA A:HEA617 3.4 39.8 1.0
C3A A:HEA617 4.1 37.3 1.0
C2A A:HEA617 4.2 35.3 1.0
C3C A:HEA617 4.3 41.9 1.0
C3B A:HEA617 4.3 42.5 1.0
C2B A:HEA617 4.3 35.9 1.0
C2C A:HEA617 4.4 46.4 1.0
CG A:HIS421 4.4 45.9 1.0
C2D A:HEA617 4.4 51.3 1.0
ND1 A:HIS421 4.4 43.2 1.0
CG A:HIS102 4.4 37.9 1.0
C3D A:HEA617 4.4 40.2 1.0
ND1 A:HIS102 4.4 41.6 1.0
CG2 A:THR48 4.7 35.1 1.0
CE1 A:PHE420 4.9 40.4 1.0

Iron binding site 2 out of 4 in 6ci0

Go back to Iron Binding Sites List in 6ci0
Iron binding site 2 out of 4 in the Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe618

b:46.5
occ:1.00
 FE A:HEA618 0.0 46.5 1.0
NA A:HEA618 2.1 57.6 1.0
NC A:HEA618 2.1 47.7 1.0
ND A:HEA618 2.1 47.6 1.0
NB A:HEA618 2.1 48.3 1.0
NE2 A:HIS419 2.4 42.8 1.0
O A:HOH770 2.5 47.0 1.0
C1A A:HEA618 3.0 42.8 1.0
C4A A:HEA618 3.0 44.0 1.0
C1C A:HEA618 3.0 45.0 1.0
C4C A:HEA618 3.1 41.2 1.0
C1D A:HEA618 3.1 44.6 1.0
C4D A:HEA618 3.1 39.7 1.0
C1B A:HEA618 3.1 48.6 1.0
C4B A:HEA618 3.1 48.2 1.0
CD2 A:HIS419 3.3 46.0 1.0
CE1 A:HIS419 3.3 48.5 1.0
CHC A:HEA618 3.4 42.7 1.0
CHA A:HEA618 3.4 45.1 1.0
CHB A:HEA618 3.4 49.0 1.0
CHD A:HEA618 3.4 44.4 1.0
C3A A:HEA618 4.2 53.8 1.0
C2A A:HEA618 4.2 52.6 1.0
C3C A:HEA618 4.3 41.6 1.0
C2C A:HEA618 4.3 46.5 1.0
C2D A:HEA618 4.4 41.3 1.0
C3D A:HEA618 4.4 42.0 1.0
C2B A:HEA618 4.4 50.7 1.0
C3B A:HEA618 4.4 56.8 1.0
ND1 A:HIS419 4.5 45.6 1.0
CG A:HIS419 4.5 44.2 1.0
CU A:CU614 4.8 51.4 1.0
CG1 A:VAL287 4.9 45.0 1.0

Iron binding site 3 out of 4 in 6ci0

Go back to Iron Binding Sites List in 6ci0
Iron binding site 3 out of 4 in the Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe605

b:56.6
occ:1.00
 FE C:HEA605 0.0 56.6 1.0
NA C:HEA605 1.9 72.0 1.0
NC C:HEA605 2.1 67.9 1.0
NB C:HEA605 2.1 54.3 1.0
ND C:HEA605 2.1 64.4 1.0
NE2 C:HIS102 2.4 63.6 1.0
NE2 C:HIS421 2.5 59.8 1.0
C1A C:HEA605 2.9 51.1 1.0
C4A C:HEA605 3.0 57.1 1.0
C4C C:HEA605 3.1 53.1 1.0
C1D C:HEA605 3.1 62.7 1.0
C4B C:HEA605 3.1 63.0 1.0
C1C C:HEA605 3.1 52.6 1.0
C1B C:HEA605 3.1 60.0 1.0
C4D C:HEA605 3.1 61.5 1.0
CD2 C:HIS102 3.3 65.4 1.0
CHA C:HEA605 3.4 54.5 1.0
CHD C:HEA605 3.4 67.4 1.0
CD2 C:HIS421 3.4 63.0 1.0
CHC C:HEA605 3.4 57.6 1.0
CHB C:HEA605 3.4 65.3 1.0
CE1 C:HIS421 3.4 63.4 1.0
CE1 C:HIS102 3.5 66.0 1.0
C3A C:HEA605 4.1 63.6 1.0
C2A C:HEA605 4.2 63.3 1.0
C3C C:HEA605 4.3 62.7 1.0
C3B C:HEA605 4.4 64.3 1.0
C2D C:HEA605 4.4 57.9 1.0
C2B C:HEA605 4.4 58.4 1.0
C2C C:HEA605 4.4 70.8 1.0
C3D C:HEA605 4.4 62.5 1.0
CG C:HIS102 4.4 74.2 1.0
ND1 C:HIS102 4.5 75.4 1.0
ND1 C:HIS421 4.6 67.4 1.0
CG C:HIS421 4.6 70.8 1.0
CG2 C:THR48 4.9 63.2 1.0
CE1 C:PHE420 5.0 58.2 1.0

Iron binding site 4 out of 4 in 6ci0

Go back to Iron Binding Sites List in 6ci0
Iron binding site 4 out of 4 in the Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Catalytic Core Subunits (I and II) of Cytochrome C Oxidase From Rhodobacter Sphaeroides with E101A (II) Mutation within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe606

b:57.5
occ:1.00
 FE C:HEA606 0.0 57.5 1.0
NA C:HEA606 2.0 71.3 1.0
ND C:HEA606 2.1 66.4 1.0
NC C:HEA606 2.1 71.7 1.0
NB C:HEA606 2.1 71.9 1.0
NE2 C:HIS419 2.4 51.5 1.0
O C:HOH730 2.6 51.4 1.0
C1A C:HEA606 3.0 57.3 1.0
C4A C:HEA606 3.0 56.9 1.0
C1D C:HEA606 3.1 67.2 1.0
C1C C:HEA606 3.1 59.9 1.0
C4D C:HEA606 3.1 54.3 1.0
C4B C:HEA606 3.1 67.5 1.0
C4C C:HEA606 3.1 65.7 1.0
C1B C:HEA606 3.2 64.5 1.0
CE1 C:HIS419 3.4 62.6 1.0
CD2 C:HIS419 3.4 65.1 1.0
CHA C:HEA606 3.5 59.7 1.0
CHD C:HEA606 3.5 65.3 1.0
CHC C:HEA606 3.5 61.7 1.0
CHB C:HEA606 3.5 67.2 1.0
C3A C:HEA606 4.3 57.9 1.0
C2A C:HEA606 4.3 63.1 1.0
C3C C:HEA606 4.5 75.3 1.0
C3D C:HEA606 4.5 60.5 1.0
C2D C:HEA606 4.5 66.1 1.0
C3B C:HEA606 4.5 68.3 1.0
C2B C:HEA606 4.5 66.4 1.0
C2C C:HEA606 4.5 73.9 1.0
ND1 C:HIS419 4.5 61.1 1.0
CG C:HIS419 4.5 58.8 1.0
CU C:CU604 4.7 62.1 1.0

Reference:

C.Hiser, J.Liu, S.Ferguson-Miller. The K-Path Entrance in Cytochrome C Oxidase Is Defined By Mutation of E101 and Controlled By An Adjacent Ligand Binding Domain. Biochim. Biophys. Acta V.1859 725 2018.
ISSN: ISSN 0006-3002
PubMed: 29626419
DOI: 10.1016/J.BBABIO.2018.03.017
Page generated: Tue Aug 6 14:59:09 2024

Last articles

Cl in 3ZG5
Cl in 3ZH8
Cl in 3ZFZ
Cl in 3ZG0
Cl in 3ZG1
Cl in 3ZG2
Cl in 3ZEU
Cl in 3ZFT
Cl in 3ZFP
Cl in 3ZFK
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy