Iron in PDB 7vuw: Bovine Heart Cytochrome C Oxidase in the Cyanide-Bound Fully Oxidized State at 50 K
Enzymatic activity of Bovine Heart Cytochrome C Oxidase in the Cyanide-Bound Fully Oxidized State at 50 K
All present enzymatic activity of Bovine Heart Cytochrome C Oxidase in the Cyanide-Bound Fully Oxidized State at 50 K:
7.1.1.9;
Protein crystallography data
The structure of Bovine Heart Cytochrome C Oxidase in the Cyanide-Bound Fully Oxidized State at 50 K, PDB code: 7vuw
was solved by
A.Shimada,
T.Tsukihara,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
39.92 /
1.60
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
182.076,
204.481,
177.68,
90,
90,
90
|
R / Rfree (%)
|
15.4 /
17.5
|
Other elements in 7vuw:
The structure of Bovine Heart Cytochrome C Oxidase in the Cyanide-Bound Fully Oxidized State at 50 K also contains other interesting chemical elements:
Iron Binding Sites:
The binding sites of Iron atom in the Bovine Heart Cytochrome C Oxidase in the Cyanide-Bound Fully Oxidized State at 50 K
(pdb code 7vuw). 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 Cyanide-Bound Fully Oxidized State at 50 K, PDB code: 7vuw:
Jump to Iron binding site number:
1;
2;
3;
4;
Iron binding site 1 out
of 4 in 7vuw
Go back to
Iron Binding Sites List in 7vuw
Iron binding site 1 out
of 4 in the Bovine Heart Cytochrome C Oxidase in the Cyanide-Bound Fully Oxidized State at 50 K
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 Cyanide-Bound Fully Oxidized State at 50 K within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe601
b:19.8
occ:1.00
|
FE
|
A:HEA601
|
0.0
|
19.8
|
1.0
|
NE2
|
A:HIS61
|
2.0
|
19.1
|
1.0
|
NC
|
A:HEA601
|
2.0
|
18.2
|
1.0
|
NB
|
A:HEA601
|
2.0
|
20.1
|
1.0
|
NA
|
A:HEA601
|
2.0
|
18.7
|
1.0
|
NE2
|
A:HIS378
|
2.0
|
18.1
|
1.0
|
ND
|
A:HEA601
|
2.0
|
19.8
|
1.0
|
CE1
|
A:HIS378
|
2.9
|
19.6
|
1.0
|
CE1
|
A:HIS61
|
3.0
|
22.4
|
1.0
|
C4A
|
A:HEA601
|
3.0
|
18.3
|
1.0
|
C4C
|
A:HEA601
|
3.0
|
18.3
|
1.0
|
CD2
|
A:HIS61
|
3.0
|
20.6
|
1.0
|
C1B
|
A:HEA601
|
3.0
|
18.7
|
1.0
|
C1C
|
A:HEA601
|
3.0
|
19.4
|
1.0
|
C4B
|
A:HEA601
|
3.0
|
18.6
|
1.0
|
C1D
|
A:HEA601
|
3.1
|
18.8
|
1.0
|
C1A
|
A:HEA601
|
3.1
|
20.2
|
1.0
|
CD2
|
A:HIS378
|
3.1
|
21.7
|
1.0
|
C4D
|
A:HEA601
|
3.1
|
20.0
|
1.0
|
CHD
|
A:HEA601
|
3.4
|
20.0
|
1.0
|
CHB
|
A:HEA601
|
3.4
|
20.1
|
1.0
|
CHC
|
A:HEA601
|
3.5
|
18.7
|
1.0
|
CHA
|
A:HEA601
|
3.5
|
20.2
|
1.0
|
ND1
|
A:HIS61
|
4.1
|
20.0
|
1.0
|
ND1
|
A:HIS378
|
4.1
|
18.5
|
1.0
|
CG
|
A:HIS61
|
4.1
|
18.0
|
1.0
|
CG
|
A:HIS378
|
4.2
|
17.3
|
1.0
|
C3A
|
A:HEA601
|
4.2
|
19.7
|
1.0
|
C2C
|
A:HEA601
|
4.2
|
17.9
|
1.0
|
C2A
|
A:HEA601
|
4.2
|
19.9
|
1.0
|
C3B
|
A:HEA601
|
4.3
|
18.1
|
1.0
|
C3C
|
A:HEA601
|
4.3
|
17.8
|
1.0
|
C2B
|
A:HEA601
|
4.3
|
19.6
|
1.0
|
C2D
|
A:HEA601
|
4.3
|
18.8
|
1.0
|
C3D
|
A:HEA601
|
4.3
|
18.9
|
1.0
|
CE2
|
A:PHE377
|
4.8
|
19.5
|
1.0
|
|
Iron binding site 2 out
of 4 in 7vuw
Go back to
Iron Binding Sites List in 7vuw
Iron binding site 2 out
of 4 in the Bovine Heart Cytochrome C Oxidase in the Cyanide-Bound Fully Oxidized State at 50 K
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 Cyanide-Bound Fully Oxidized State at 50 K within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe602
b:19.1
occ:1.00
|
FE
|
A:HEA602
|
0.0
|
19.1
|
1.0
|
NC
|
A:HEA602
|
2.0
|
18.1
|
1.0
|
NB
|
A:HEA602
|
2.0
|
18.3
|
1.0
|
NA
|
A:HEA602
|
2.0
|
18.5
|
1.0
|
ND
|
A:HEA602
|
2.0
|
17.9
|
1.0
|
NE2
|
A:HIS376
|
2.1
|
17.7
|
1.0
|
C
|
A:CYN606
|
2.1
|
14.4
|
1.0
|
C4A
|
A:HEA602
|
3.0
|
18.5
|
1.0
|
C4C
|
A:HEA602
|
3.0
|
16.9
|
1.0
|
C4B
|
A:HEA602
|
3.0
|
18.9
|
1.0
|
CE1
|
A:HIS376
|
3.1
|
20.8
|
1.0
|
C4D
|
A:HEA602
|
3.1
|
18.0
|
1.0
|
C1B
|
A:HEA602
|
3.1
|
18.6
|
1.0
|
C1C
|
A:HEA602
|
3.1
|
18.9
|
1.0
|
C1A
|
A:HEA602
|
3.1
|
17.5
|
1.0
|
C1D
|
A:HEA602
|
3.1
|
17.7
|
1.0
|
CD2
|
A:HIS376
|
3.1
|
18.0
|
1.0
|
N
|
A:CYN606
|
3.2
|
25.3
|
1.0
|
CHC
|
A:HEA602
|
3.4
|
18.6
|
1.0
|
CHD
|
A:HEA602
|
3.5
|
18.6
|
1.0
|
CHB
|
A:HEA602
|
3.5
|
18.5
|
1.0
|
CHA
|
A:HEA602
|
3.5
|
21.0
|
1.0
|
ND1
|
A:HIS376
|
4.2
|
19.0
|
1.0
|
C3A
|
A:HEA602
|
4.2
|
19.6
|
1.0
|
CG
|
A:HIS376
|
4.2
|
17.9
|
1.0
|
C2A
|
A:HEA602
|
4.3
|
18.4
|
1.0
|
C2C
|
A:HEA602
|
4.3
|
17.2
|
1.0
|
C3B
|
A:HEA602
|
4.3
|
18.4
|
1.0
|
C2D
|
A:HEA602
|
4.3
|
19.1
|
1.0
|
C3D
|
A:HEA602
|
4.3
|
17.2
|
1.0
|
C3C
|
A:HEA602
|
4.3
|
16.9
|
1.0
|
C2B
|
A:HEA602
|
4.3
|
18.0
|
1.0
|
CU
|
A:CU603
|
4.9
|
19.7
|
1.0
|
|
Iron binding site 3 out
of 4 in 7vuw
Go back to
Iron Binding Sites List in 7vuw
Iron binding site 3 out
of 4 in the Bovine Heart Cytochrome C Oxidase in the Cyanide-Bound Fully Oxidized State at 50 K
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 Cyanide-Bound Fully Oxidized State at 50 K within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
N:Fe601
b:23.5
occ:1.00
|
FE
|
N:HEA601
|
0.0
|
23.5
|
1.0
|
NE2
|
N:HIS61
|
2.0
|
21.8
|
1.0
|
NC
|
N:HEA601
|
2.0
|
23.2
|
1.0
|
ND
|
N:HEA601
|
2.0
|
23.0
|
1.0
|
NB
|
N:HEA601
|
2.0
|
23.6
|
1.0
|
NE2
|
N:HIS378
|
2.0
|
24.1
|
1.0
|
NA
|
N:HEA601
|
2.0
|
25.3
|
1.0
|
CE1
|
N:HIS378
|
3.0
|
25.5
|
1.0
|
CE1
|
N:HIS61
|
3.0
|
25.9
|
1.0
|
CD2
|
N:HIS61
|
3.0
|
25.3
|
1.0
|
C1D
|
N:HEA601
|
3.0
|
23.5
|
1.0
|
C4C
|
N:HEA601
|
3.0
|
24.5
|
1.0
|
C4B
|
N:HEA601
|
3.0
|
23.3
|
1.0
|
C1C
|
N:HEA601
|
3.0
|
24.1
|
1.0
|
C1B
|
N:HEA601
|
3.0
|
25.4
|
1.0
|
C4A
|
N:HEA601
|
3.0
|
24.1
|
1.0
|
C4D
|
N:HEA601
|
3.1
|
24.3
|
1.0
|
CD2
|
N:HIS378
|
3.1
|
23.7
|
1.0
|
C1A
|
N:HEA601
|
3.1
|
23.2
|
1.0
|
CHB
|
N:HEA601
|
3.4
|
25.9
|
1.0
|
CHD
|
N:HEA601
|
3.4
|
23.8
|
1.0
|
CHC
|
N:HEA601
|
3.4
|
22.1
|
1.0
|
CHA
|
N:HEA601
|
3.5
|
28.3
|
1.0
|
ND1
|
N:HIS61
|
4.1
|
25.5
|
1.0
|
ND1
|
N:HIS378
|
4.1
|
24.2
|
1.0
|
CG
|
N:HIS61
|
4.1
|
26.3
|
1.0
|
CG
|
N:HIS378
|
4.2
|
22.5
|
1.0
|
C2D
|
N:HEA601
|
4.2
|
22.1
|
1.0
|
C2C
|
N:HEA601
|
4.2
|
22.4
|
1.0
|
C3A
|
N:HEA601
|
4.2
|
23.6
|
1.0
|
C3C
|
N:HEA601
|
4.2
|
25.8
|
1.0
|
C2B
|
N:HEA601
|
4.3
|
24.1
|
1.0
|
C3B
|
N:HEA601
|
4.3
|
21.8
|
1.0
|
C2A
|
N:HEA601
|
4.3
|
22.8
|
1.0
|
C3D
|
N:HEA601
|
4.3
|
23.3
|
1.0
|
CE2
|
N:PHE377
|
4.8
|
22.4
|
1.0
|
|
Iron binding site 4 out
of 4 in 7vuw
Go back to
Iron Binding Sites List in 7vuw
Iron binding site 4 out
of 4 in the Bovine Heart Cytochrome C Oxidase in the Cyanide-Bound Fully Oxidized State at 50 K
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 Cyanide-Bound Fully Oxidized State at 50 K within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
N:Fe602
b:21.8
occ:1.00
|
FE
|
N:HEA602
|
0.0
|
21.8
|
1.0
|
NA
|
N:HEA602
|
2.0
|
20.8
|
1.0
|
NC
|
N:HEA602
|
2.0
|
21.1
|
1.0
|
ND
|
N:HEA602
|
2.0
|
20.5
|
1.0
|
NB
|
N:HEA602
|
2.0
|
20.0
|
1.0
|
NE2
|
N:HIS376
|
2.1
|
21.7
|
1.0
|
C
|
N:CYN606
|
2.1
|
18.0
|
1.0
|
C4A
|
N:HEA602
|
3.0
|
19.6
|
1.0
|
C4D
|
N:HEA602
|
3.0
|
22.2
|
1.0
|
C1A
|
N:HEA602
|
3.0
|
21.5
|
1.0
|
C4C
|
N:HEA602
|
3.0
|
20.3
|
1.0
|
C1D
|
N:HEA602
|
3.1
|
21.2
|
1.0
|
C4B
|
N:HEA602
|
3.1
|
20.1
|
1.0
|
C1B
|
N:HEA602
|
3.1
|
22.4
|
1.0
|
CE1
|
N:HIS376
|
3.1
|
24.4
|
1.0
|
C1C
|
N:HEA602
|
3.1
|
20.4
|
1.0
|
CD2
|
N:HIS376
|
3.1
|
20.9
|
1.0
|
N
|
N:CYN606
|
3.2
|
29.1
|
1.0
|
CHC
|
N:HEA602
|
3.4
|
21.6
|
1.0
|
CHA
|
N:HEA602
|
3.5
|
21.5
|
1.0
|
CHB
|
N:HEA602
|
3.5
|
21.0
|
1.0
|
CHD
|
N:HEA602
|
3.5
|
22.0
|
1.0
|
ND1
|
N:HIS376
|
4.2
|
23.1
|
1.0
|
C3A
|
N:HEA602
|
4.2
|
20.7
|
1.0
|
C2D
|
N:HEA602
|
4.2
|
22.2
|
1.0
|
C2A
|
N:HEA602
|
4.2
|
21.2
|
1.0
|
C3D
|
N:HEA602
|
4.2
|
21.4
|
1.0
|
CG
|
N:HIS376
|
4.3
|
21.5
|
1.0
|
C3B
|
N:HEA602
|
4.3
|
20.4
|
1.0
|
C2C
|
N:HEA602
|
4.3
|
20.8
|
1.0
|
C3C
|
N:HEA602
|
4.3
|
20.8
|
1.0
|
C2B
|
N:HEA602
|
4.3
|
20.6
|
1.0
|
CU
|
N:CU603
|
4.9
|
21.7
|
1.0
|
|
Reference:
A.Shimada,
T.Tsukihara.
Bovine Cytochrome C Oxidese in Cn-Bound Fully Oxidized State at 50 K To Be Published.
Page generated: Fri Aug 9 06:02:41 2024
|