Iron in PDB 3ubr: Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase
Enzymatic activity of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase
All present enzymatic activity of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase:
1.7.2.2;
Protein crystallography data
The structure of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase, PDB code: 3ubr
was solved by
M.Youngblut,
E.T.Judd,
V.Srajer,
B.Sayed,
T.Goeltzner,
S.Elliott,
M.Schmidt,
A.Pacheco,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
40.56 /
2.59
|
|
Space group
|
P 21 21 21
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
51.500,
95.900,
223.800,
90.00,
90.00,
90.00
|
|
R / Rfree (%)
|
19 /
28.5
|
Other elements in 3ubr:
The structure of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase also contains other interesting chemical elements:
Iron Binding Sites:
The binding sites of Iron atom in the Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase
(pdb code 3ubr). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 10 binding sites of Iron where determined in the
Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase, PDB code: 3ubr:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Iron binding site 1 out
of 10 in 3ubr
Go back to
Iron Binding Sites List in 3ubr
Iron binding site 1 out
of 10 in the Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe471
b:14.5
occ:1.00
|
FE
|
A:HEC471
|
0.0
|
14.5
|
1.0
|
|
O
|
A:HOH488
|
1.9
|
2.1
|
1.0
|
|
NA
|
A:HEC471
|
2.0
|
13.0
|
1.0
|
|
NC
|
A:HEC471
|
2.0
|
15.6
|
1.0
|
|
ND
|
A:HEC471
|
2.0
|
12.3
|
1.0
|
|
NB
|
A:HEC471
|
2.0
|
15.0
|
1.0
|
|
NZ
|
A:LYS123
|
2.3
|
25.1
|
1.0
|
|
C4A
|
A:HEC471
|
3.0
|
13.0
|
1.0
|
|
C1D
|
A:HEC471
|
3.0
|
12.7
|
1.0
|
|
C1A
|
A:HEC471
|
3.0
|
13.5
|
1.0
|
|
C4B
|
A:HEC471
|
3.0
|
16.4
|
1.0
|
|
C4C
|
A:HEC471
|
3.0
|
14.6
|
1.0
|
|
C4D
|
A:HEC471
|
3.0
|
12.8
|
1.0
|
|
C1B
|
A:HEC471
|
3.0
|
15.9
|
1.0
|
|
C1C
|
A:HEC471
|
3.0
|
16.2
|
1.0
|
|
CE
|
A:LYS123
|
3.1
|
25.1
|
1.0
|
|
CHB
|
A:HEC471
|
3.4
|
14.4
|
1.0
|
|
CHD
|
A:HEC471
|
3.4
|
14.5
|
1.0
|
|
CHA
|
A:HEC471
|
3.4
|
12.2
|
1.0
|
|
CHC
|
A:HEC471
|
3.4
|
16.9
|
1.0
|
|
O
|
A:HOH535
|
3.9
|
18.7
|
1.0
|
|
NE2
|
A:HIS257
|
4.1
|
24.4
|
1.0
|
|
C3A
|
A:HEC471
|
4.2
|
13.5
|
1.0
|
|
C2A
|
A:HEC471
|
4.2
|
14.3
|
1.0
|
|
C3C
|
A:HEC471
|
4.3
|
13.8
|
1.0
|
|
C2D
|
A:HEC471
|
4.3
|
11.5
|
1.0
|
|
C3B
|
A:HEC471
|
4.3
|
17.1
|
1.0
|
|
C2B
|
A:HEC471
|
4.3
|
16.4
|
1.0
|
|
C2C
|
A:HEC471
|
4.3
|
15.9
|
1.0
|
|
C3D
|
A:HEC471
|
4.3
|
12.2
|
1.0
|
|
CD
|
A:LYS123
|
4.4
|
25.4
|
1.0
|
|
CMD
|
A:HEC473
|
4.7
|
11.4
|
1.0
|
|
CD2
|
A:HIS257
|
4.9
|
23.6
|
1.0
|
|
CE1
|
A:HIS257
|
5.0
|
25.5
|
1.0
|
|
Iron binding site 2 out
of 10 in 3ubr
Go back to
Iron Binding Sites List in 3ubr
Iron binding site 2 out
of 10 in the Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe472
b:31.6
occ:1.00
|
FE
|
A:HEC472
|
0.0
|
31.6
|
1.0
|
|
NE2
|
A:HIS294
|
1.9
|
25.7
|
1.0
|
|
NE2
|
A:HIS161
|
1.9
|
30.2
|
1.0
|
|
NB
|
A:HEC472
|
2.0
|
30.3
|
1.0
|
|
NA
|
A:HEC472
|
2.0
|
32.1
|
1.0
|
|
NC
|
A:HEC472
|
2.1
|
30.8
|
1.0
|
|
ND
|
A:HEC472
|
2.1
|
33.4
|
1.0
|
|
CE1
|
A:HIS294
|
2.8
|
27.0
|
1.0
|
|
CD2
|
A:HIS161
|
2.8
|
31.0
|
1.0
|
|
CE1
|
A:HIS161
|
3.0
|
29.5
|
1.0
|
|
C1B
|
A:HEC472
|
3.0
|
30.6
|
1.0
|
|
CD2
|
A:HIS294
|
3.0
|
26.9
|
1.0
|
|
C4A
|
A:HEC472
|
3.0
|
32.6
|
1.0
|
|
C4B
|
A:HEC472
|
3.0
|
30.1
|
1.0
|
|
C1A
|
A:HEC472
|
3.1
|
33.1
|
1.0
|
|
C4C
|
A:HEC472
|
3.1
|
31.1
|
1.0
|
|
C1C
|
A:HEC472
|
3.1
|
30.2
|
1.0
|
|
C1D
|
A:HEC472
|
3.1
|
33.8
|
1.0
|
|
C4D
|
A:HEC472
|
3.1
|
34.6
|
1.0
|
|
CHB
|
A:HEC472
|
3.3
|
31.3
|
1.0
|
|
CHC
|
A:HEC472
|
3.4
|
30.3
|
1.0
|
|
CHD
|
A:HEC472
|
3.4
|
32.6
|
1.0
|
|
CHA
|
A:HEC472
|
3.5
|
34.3
|
1.0
|
|
ND1
|
A:HIS294
|
4.0
|
27.8
|
1.0
|
|
CG
|
A:HIS161
|
4.0
|
31.7
|
1.0
|
|
ND1
|
A:HIS161
|
4.0
|
29.5
|
1.0
|
|
CG
|
A:HIS294
|
4.1
|
27.1
|
1.0
|
|
C2B
|
A:HEC472
|
4.2
|
30.2
|
1.0
|
|
C3B
|
A:HEC472
|
4.2
|
29.5
|
1.0
|
|
C3A
|
A:HEC472
|
4.2
|
33.4
|
1.0
|
|
C2A
|
A:HEC472
|
4.3
|
32.9
|
1.0
|
|
C2C
|
A:HEC472
|
4.3
|
30.9
|
1.0
|
|
C3C
|
A:HEC472
|
4.3
|
30.1
|
1.0
|
|
C2D
|
A:HEC472
|
4.3
|
35.0
|
1.0
|
|
C3D
|
A:HEC472
|
4.4
|
36.2
|
1.0
|
|
CE
|
A:MET280
|
4.9
|
27.4
|
1.0
|
|
Iron binding site 3 out
of 10 in 3ubr
Go back to
Iron Binding Sites List in 3ubr
Iron binding site 3 out
of 10 in the Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe473
b:13.8
occ:1.00
|
FE
|
A:HEC473
|
0.0
|
13.8
|
1.0
|
|
NA
|
A:HEC473
|
2.0
|
11.3
|
1.0
|
|
ND
|
A:HEC473
|
2.0
|
12.3
|
1.0
|
|
NC
|
A:HEC473
|
2.0
|
12.5
|
1.0
|
|
NE2
|
A:HIS91
|
2.0
|
22.5
|
1.0
|
|
NE2
|
A:HIS203
|
2.0
|
15.0
|
1.0
|
|
NB
|
A:HEC473
|
2.1
|
13.4
|
1.0
|
|
CE1
|
A:HIS91
|
2.8
|
24.1
|
1.0
|
|
CE1
|
A:HIS203
|
2.9
|
15.0
|
1.0
|
|
C4D
|
A:HEC473
|
3.0
|
13.2
|
1.0
|
|
C1A
|
A:HEC473
|
3.0
|
12.7
|
1.0
|
|
C1C
|
A:HEC473
|
3.0
|
13.1
|
1.0
|
|
C1D
|
A:HEC473
|
3.1
|
12.5
|
1.0
|
|
C4A
|
A:HEC473
|
3.1
|
12.3
|
1.0
|
|
C4C
|
A:HEC473
|
3.1
|
13.9
|
1.0
|
|
C4B
|
A:HEC473
|
3.1
|
12.5
|
1.0
|
|
CD2
|
A:HIS91
|
3.1
|
22.9
|
1.0
|
|
CD2
|
A:HIS203
|
3.1
|
14.5
|
1.0
|
|
C1B
|
A:HEC473
|
3.2
|
12.8
|
1.0
|
|
CHA
|
A:HEC473
|
3.3
|
12.8
|
1.0
|
|
CHC
|
A:HEC473
|
3.4
|
13.2
|
1.0
|
|
CHD
|
A:HEC473
|
3.4
|
13.7
|
1.0
|
|
CHB
|
A:HEC473
|
3.5
|
11.9
|
1.0
|
|
ND1
|
A:HIS91
|
4.0
|
24.0
|
1.0
|
|
ND1
|
A:HIS203
|
4.1
|
14.7
|
1.0
|
|
CG
|
A:HIS91
|
4.1
|
22.5
|
1.0
|
|
CG
|
A:HIS203
|
4.2
|
14.8
|
1.0
|
|
C2A
|
A:HEC473
|
4.2
|
13.6
|
1.0
|
|
C3D
|
A:HEC473
|
4.2
|
12.7
|
1.0
|
|
C3A
|
A:HEC473
|
4.3
|
14.1
|
1.0
|
|
C2C
|
A:HEC473
|
4.3
|
13.2
|
1.0
|
|
C2D
|
A:HEC473
|
4.3
|
11.8
|
1.0
|
|
C3C
|
A:HEC473
|
4.3
|
12.8
|
1.0
|
|
C3B
|
A:HEC473
|
4.3
|
10.7
|
1.0
|
|
C2B
|
A:HEC473
|
4.4
|
10.7
|
1.0
|
|
CMD
|
A:HEC471
|
4.9
|
12.5
|
1.0
|
|
Iron binding site 4 out
of 10 in 3ubr
Go back to
Iron Binding Sites List in 3ubr
Iron binding site 4 out
of 10 in the Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe474
b:19.0
occ:1.00
|
FE
|
A:HEC474
|
0.0
|
19.0
|
1.0
|
|
NA
|
A:HEC474
|
1.9
|
17.2
|
1.0
|
|
NB
|
A:HEC474
|
1.9
|
17.4
|
1.0
|
|
NE2
|
A:HIS279
|
1.9
|
20.7
|
1.0
|
|
NE2
|
A:HIS386
|
2.0
|
16.6
|
1.0
|
|
NC
|
A:HEC474
|
2.0
|
19.4
|
1.0
|
|
ND
|
A:HEC474
|
2.1
|
19.2
|
1.0
|
|
CE1
|
A:HIS279
|
2.8
|
20.1
|
1.0
|
|
CE1
|
A:HIS386
|
2.8
|
16.9
|
1.0
|
|
CD2
|
A:HIS279
|
2.9
|
22.3
|
1.0
|
|
C1A
|
A:HEC474
|
2.9
|
18.2
|
1.0
|
|
C1B
|
A:HEC474
|
3.0
|
17.6
|
1.0
|
|
C4A
|
A:HEC474
|
3.0
|
18.1
|
1.0
|
|
C4B
|
A:HEC474
|
3.0
|
18.1
|
1.0
|
|
C4D
|
A:HEC474
|
3.0
|
19.6
|
1.0
|
|
C4C
|
A:HEC474
|
3.0
|
21.0
|
1.0
|
|
C1C
|
A:HEC474
|
3.1
|
19.6
|
1.0
|
|
C1D
|
A:HEC474
|
3.1
|
20.3
|
1.0
|
|
CD2
|
A:HIS386
|
3.1
|
17.2
|
1.0
|
|
CHB
|
A:HEC474
|
3.3
|
17.4
|
1.0
|
|
CHA
|
A:HEC474
|
3.3
|
20.2
|
1.0
|
|
CHC
|
A:HEC474
|
3.4
|
18.5
|
1.0
|
|
CHD
|
A:HEC474
|
3.4
|
20.2
|
1.0
|
|
ND1
|
A:HIS279
|
3.9
|
21.3
|
1.0
|
|
ND1
|
A:HIS386
|
4.0
|
16.0
|
1.0
|
|
CG
|
A:HIS279
|
4.0
|
23.1
|
1.0
|
|
CG
|
A:HIS386
|
4.2
|
17.0
|
1.0
|
|
C2A
|
A:HEC474
|
4.2
|
18.1
|
1.0
|
|
C2B
|
A:HEC474
|
4.2
|
18.6
|
1.0
|
|
C3A
|
A:HEC474
|
4.2
|
17.5
|
1.0
|
|
C3B
|
A:HEC474
|
4.2
|
17.2
|
1.0
|
|
C3C
|
A:HEC474
|
4.3
|
20.5
|
1.0
|
|
C2C
|
A:HEC474
|
4.3
|
19.7
|
1.0
|
|
C3D
|
A:HEC474
|
4.3
|
21.0
|
1.0
|
|
C2D
|
A:HEC474
|
4.3
|
20.7
|
1.0
|
|
Iron binding site 5 out
of 10 in 3ubr
Go back to
Iron Binding Sites List in 3ubr
Iron binding site 5 out
of 10 in the Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 5 of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe475
b:16.2
occ:1.00
|
FE
|
A:HEC475
|
0.0
|
16.2
|
1.0
|
|
NC
|
A:HEC475
|
2.0
|
16.3
|
1.0
|
|
ND
|
A:HEC475
|
2.0
|
17.8
|
1.0
|
|
NB
|
A:HEC475
|
2.0
|
14.6
|
1.0
|
|
NE2
|
A:HIS311
|
2.0
|
26.6
|
1.0
|
|
NE2
|
A:HIS268
|
2.1
|
25.1
|
1.0
|
|
NA
|
A:HEC475
|
2.1
|
17.0
|
1.0
|
|
CE1
|
A:HIS311
|
2.9
|
26.5
|
1.0
|
|
CE1
|
A:HIS268
|
3.0
|
24.7
|
1.0
|
|
C1C
|
A:HEC475
|
3.0
|
16.6
|
1.0
|
|
C4C
|
A:HEC475
|
3.0
|
16.9
|
1.0
|
|
C4D
|
A:HEC475
|
3.0
|
18.5
|
1.0
|
|
C1D
|
A:HEC475
|
3.0
|
17.9
|
1.0
|
|
C4B
|
A:HEC475
|
3.0
|
14.3
|
1.0
|
|
C1B
|
A:HEC475
|
3.1
|
15.1
|
1.0
|
|
C1A
|
A:HEC475
|
3.1
|
16.9
|
1.0
|
|
C4A
|
A:HEC475
|
3.1
|
16.2
|
1.0
|
|
CD2
|
A:HIS311
|
3.1
|
25.4
|
1.0
|
|
CD2
|
A:HIS268
|
3.2
|
24.6
|
1.0
|
|
CHD
|
A:HEC475
|
3.4
|
17.4
|
1.0
|
|
CHC
|
A:HEC475
|
3.4
|
14.8
|
1.0
|
|
CHA
|
A:HEC475
|
3.4
|
18.4
|
1.0
|
|
CHB
|
A:HEC475
|
3.5
|
14.6
|
1.0
|
|
ND1
|
A:HIS311
|
4.1
|
25.7
|
1.0
|
|
ND1
|
A:HIS268
|
4.1
|
24.1
|
1.0
|
|
CG
|
A:HIS311
|
4.2
|
25.4
|
1.0
|
|
C3C
|
A:HEC475
|
4.2
|
17.5
|
1.0
|
|
C2C
|
A:HEC475
|
4.2
|
16.9
|
1.0
|
|
C3D
|
A:HEC475
|
4.2
|
20.0
|
1.0
|
|
CG
|
A:HIS268
|
4.2
|
24.1
|
1.0
|
|
C2D
|
A:HEC475
|
4.2
|
18.3
|
1.0
|
|
C3B
|
A:HEC475
|
4.3
|
14.5
|
1.0
|
|
C2B
|
A:HEC475
|
4.3
|
15.1
|
1.0
|
|
C2A
|
A:HEC475
|
4.3
|
15.1
|
1.0
|
|
C3A
|
A:HEC475
|
4.4
|
16.0
|
1.0
|
|
CBC
|
A:HEC474
|
4.8
|
21.3
|
1.0
|
|
Iron binding site 6 out
of 10 in 3ubr
Go back to
Iron Binding Sites List in 3ubr
Iron binding site 6 out
of 10 in the Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 6 of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe471
b:18.2
occ:1.00
|
FE
|
B:HEC471
|
0.0
|
18.2
|
1.0
|
|
NA
|
B:HEC471
|
1.9
|
17.8
|
1.0
|
|
NB
|
B:HEC471
|
2.0
|
15.9
|
1.0
|
|
NC
|
B:HEC471
|
2.1
|
17.4
|
1.0
|
|
ND
|
B:HEC471
|
2.1
|
18.5
|
1.0
|
|
O
|
B:HOH484
|
2.2
|
7.1
|
1.0
|
|
NZ
|
B:LYS123
|
2.4
|
19.3
|
1.0
|
|
CE
|
B:LYS123
|
2.9
|
19.2
|
1.0
|
|
C1A
|
B:HEC471
|
2.9
|
18.6
|
1.0
|
|
C4B
|
B:HEC471
|
3.0
|
15.7
|
1.0
|
|
C4A
|
B:HEC471
|
3.0
|
17.2
|
1.0
|
|
C1B
|
B:HEC471
|
3.0
|
16.6
|
1.0
|
|
C4D
|
B:HEC471
|
3.1
|
19.6
|
1.0
|
|
C1C
|
B:HEC471
|
3.1
|
16.5
|
1.0
|
|
C1D
|
B:HEC471
|
3.1
|
18.6
|
1.0
|
|
C4C
|
B:HEC471
|
3.1
|
16.9
|
1.0
|
|
CHA
|
B:HEC471
|
3.4
|
19.1
|
1.0
|
|
CHB
|
B:HEC471
|
3.4
|
16.2
|
1.0
|
|
CHC
|
B:HEC471
|
3.4
|
16.7
|
1.0
|
|
CHD
|
B:HEC471
|
3.5
|
18.0
|
1.0
|
|
C2A
|
B:HEC471
|
4.1
|
17.6
|
1.0
|
|
C3A
|
B:HEC471
|
4.2
|
18.0
|
1.0
|
|
C3B
|
B:HEC471
|
4.2
|
15.6
|
1.0
|
|
C2B
|
B:HEC471
|
4.2
|
16.7
|
1.0
|
|
CD
|
B:LYS123
|
4.3
|
20.1
|
1.0
|
|
NE2
|
B:HIS257
|
4.3
|
19.1
|
1.0
|
|
C2C
|
B:HEC471
|
4.3
|
15.4
|
1.0
|
|
C3D
|
B:HEC471
|
4.3
|
20.0
|
1.0
|
|
C2D
|
B:HEC471
|
4.3
|
18.6
|
1.0
|
|
C3C
|
B:HEC471
|
4.3
|
15.9
|
1.0
|
|
O
|
B:HOH6
|
4.6
|
2.0
|
1.0
|
|
O
|
B:HOH521
|
4.7
|
40.3
|
1.0
|
|
CD2
|
B:HIS257
|
5.0
|
17.9
|
1.0
|
|
Iron binding site 7 out
of 10 in 3ubr
Go back to
Iron Binding Sites List in 3ubr
Iron binding site 7 out
of 10 in the Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 7 of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe472
b:27.7
occ:1.00
|
FE
|
B:HEC472
|
0.0
|
27.7
|
1.0
|
|
NE2
|
B:HIS294
|
1.9
|
23.7
|
1.0
|
|
NB
|
B:HEC472
|
2.0
|
27.8
|
1.0
|
|
NA
|
B:HEC472
|
2.0
|
27.7
|
1.0
|
|
ND
|
B:HEC472
|
2.0
|
27.6
|
1.0
|
|
NC
|
B:HEC472
|
2.1
|
27.6
|
1.0
|
|
NE2
|
B:HIS161
|
2.1
|
34.5
|
1.0
|
|
CD2
|
B:HIS161
|
2.8
|
34.1
|
1.0
|
|
CD2
|
B:HIS294
|
2.9
|
23.9
|
1.0
|
|
CE1
|
B:HIS294
|
2.9
|
23.5
|
1.0
|
|
C1B
|
B:HEC472
|
3.0
|
27.9
|
1.0
|
|
C4B
|
B:HEC472
|
3.0
|
28.9
|
1.0
|
|
C4A
|
B:HEC472
|
3.0
|
27.4
|
1.0
|
|
C1D
|
B:HEC472
|
3.0
|
27.3
|
1.0
|
|
C4D
|
B:HEC472
|
3.1
|
28.1
|
1.0
|
|
C1A
|
B:HEC472
|
3.1
|
28.0
|
1.0
|
|
C4C
|
B:HEC472
|
3.1
|
27.0
|
1.0
|
|
C1C
|
B:HEC472
|
3.1
|
28.0
|
1.0
|
|
CE1
|
B:HIS161
|
3.3
|
35.1
|
1.0
|
|
CHB
|
B:HEC472
|
3.4
|
27.6
|
1.0
|
|
CHD
|
B:HEC472
|
3.4
|
27.5
|
1.0
|
|
CHC
|
B:HEC472
|
3.4
|
29.0
|
1.0
|
|
CHA
|
B:HEC472
|
3.4
|
28.5
|
1.0
|
|
ND1
|
B:HIS294
|
4.0
|
24.0
|
1.0
|
|
CG
|
B:HIS294
|
4.0
|
24.1
|
1.0
|
|
CG
|
B:HIS161
|
4.1
|
33.7
|
1.0
|
|
C2B
|
B:HEC472
|
4.2
|
27.8
|
1.0
|
|
ND1
|
B:HIS161
|
4.2
|
34.5
|
1.0
|
|
C3B
|
B:HEC472
|
4.2
|
27.3
|
1.0
|
|
C3A
|
B:HEC472
|
4.2
|
27.6
|
1.0
|
|
C2A
|
B:HEC472
|
4.3
|
28.4
|
1.0
|
|
C2D
|
B:HEC472
|
4.3
|
26.5
|
1.0
|
|
C3D
|
B:HEC472
|
4.3
|
27.9
|
1.0
|
|
C2C
|
B:HEC472
|
4.3
|
27.5
|
1.0
|
|
C3C
|
B:HEC472
|
4.3
|
27.3
|
1.0
|
|
CE
|
B:MET280
|
4.7
|
27.2
|
1.0
|
|
Iron binding site 8 out
of 10 in 3ubr
Go back to
Iron Binding Sites List in 3ubr
Iron binding site 8 out
of 10 in the Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 8 of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe473
b:18.4
occ:1.00
|
FE
|
B:HEC473
|
0.0
|
18.4
|
1.0
|
|
NE2
|
B:HIS203
|
1.9
|
15.6
|
1.0
|
|
NC
|
B:HEC473
|
2.0
|
19.1
|
1.0
|
|
NB
|
B:HEC473
|
2.0
|
17.9
|
1.0
|
|
ND
|
B:HEC473
|
2.1
|
18.4
|
1.0
|
|
NA
|
B:HEC473
|
2.1
|
19.6
|
1.0
|
|
NE2
|
B:HIS91
|
2.1
|
25.7
|
1.0
|
|
CE1
|
B:HIS203
|
2.9
|
15.7
|
1.0
|
|
CD2
|
B:HIS203
|
2.9
|
17.6
|
1.0
|
|
C4C
|
B:HEC473
|
3.0
|
20.0
|
1.0
|
|
CE1
|
B:HIS91
|
3.0
|
26.0
|
1.0
|
|
C1B
|
B:HEC473
|
3.0
|
17.9
|
1.0
|
|
C1C
|
B:HEC473
|
3.0
|
19.0
|
1.0
|
|
C4B
|
B:HEC473
|
3.0
|
18.7
|
1.0
|
|
C1D
|
B:HEC473
|
3.1
|
18.6
|
1.0
|
|
C4A
|
B:HEC473
|
3.1
|
19.4
|
1.0
|
|
C4D
|
B:HEC473
|
3.1
|
18.6
|
1.0
|
|
C1A
|
B:HEC473
|
3.1
|
19.1
|
1.0
|
|
CD2
|
B:HIS91
|
3.2
|
25.8
|
1.0
|
|
CHD
|
B:HEC473
|
3.4
|
19.0
|
1.0
|
|
CHB
|
B:HEC473
|
3.4
|
18.5
|
1.0
|
|
CHC
|
B:HEC473
|
3.4
|
19.8
|
1.0
|
|
CHA
|
B:HEC473
|
3.5
|
18.2
|
1.0
|
|
ND1
|
B:HIS203
|
4.0
|
16.9
|
1.0
|
|
CG
|
B:HIS203
|
4.0
|
17.9
|
1.0
|
|
ND1
|
B:HIS91
|
4.2
|
25.6
|
1.0
|
|
C2B
|
B:HEC473
|
4.2
|
17.8
|
1.0
|
|
C3C
|
B:HEC473
|
4.2
|
19.1
|
1.0
|
|
C3B
|
B:HEC473
|
4.2
|
18.1
|
1.0
|
|
C2C
|
B:HEC473
|
4.2
|
18.5
|
1.0
|
|
C3A
|
B:HEC473
|
4.3
|
19.7
|
1.0
|
|
CG
|
B:HIS91
|
4.3
|
25.3
|
1.0
|
|
C2D
|
B:HEC473
|
4.3
|
19.0
|
1.0
|
|
C2A
|
B:HEC473
|
4.3
|
20.8
|
1.0
|
|
C3D
|
B:HEC473
|
4.3
|
19.5
|
1.0
|
|
Iron binding site 9 out
of 10 in 3ubr
Go back to
Iron Binding Sites List in 3ubr
Iron binding site 9 out
of 10 in the Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 9 of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe474
b:17.1
occ:1.00
|
FE
|
B:HEC474
|
0.0
|
17.1
|
1.0
|
|
NE2
|
B:HIS279
|
1.9
|
15.3
|
1.0
|
|
NB
|
B:HEC474
|
2.0
|
16.8
|
1.0
|
|
NC
|
B:HEC474
|
2.0
|
16.9
|
1.0
|
|
NA
|
B:HEC474
|
2.0
|
17.5
|
1.0
|
|
ND
|
B:HEC474
|
2.0
|
17.1
|
1.0
|
|
NE2
|
B:HIS386
|
2.1
|
8.0
|
1.0
|
|
CE1
|
B:HIS386
|
2.8
|
7.6
|
1.0
|
|
CD2
|
B:HIS279
|
2.9
|
17.5
|
1.0
|
|
CE1
|
B:HIS279
|
3.0
|
16.4
|
1.0
|
|
C4B
|
B:HEC474
|
3.0
|
16.5
|
1.0
|
|
C1B
|
B:HEC474
|
3.0
|
17.3
|
1.0
|
|
C1C
|
B:HEC474
|
3.0
|
17.6
|
1.0
|
|
C4C
|
B:HEC474
|
3.0
|
17.7
|
1.0
|
|
C1A
|
B:HEC474
|
3.0
|
18.7
|
1.0
|
|
C4D
|
B:HEC474
|
3.0
|
18.8
|
1.0
|
|
C4A
|
B:HEC474
|
3.1
|
17.4
|
1.0
|
|
C1D
|
B:HEC474
|
3.1
|
17.7
|
1.0
|
|
CHC
|
B:HEC474
|
3.3
|
16.6
|
1.0
|
|
CD2
|
B:HIS386
|
3.3
|
7.9
|
1.0
|
|
CHA
|
B:HEC474
|
3.4
|
19.1
|
1.0
|
|
CHD
|
B:HEC474
|
3.4
|
17.9
|
1.0
|
|
CHB
|
B:HEC474
|
3.4
|
17.8
|
1.0
|
|
CG
|
B:HIS279
|
4.0
|
19.9
|
1.0
|
|
ND1
|
B:HIS279
|
4.0
|
17.6
|
1.0
|
|
ND1
|
B:HIS386
|
4.0
|
7.6
|
1.0
|
|
C3B
|
B:HEC474
|
4.2
|
16.7
|
1.0
|
|
C2B
|
B:HEC474
|
4.2
|
17.5
|
1.0
|
|
C3C
|
B:HEC474
|
4.2
|
18.7
|
1.0
|
|
C2C
|
B:HEC474
|
4.2
|
19.1
|
1.0
|
|
C2A
|
B:HEC474
|
4.3
|
18.7
|
1.0
|
|
C3A
|
B:HEC474
|
4.3
|
18.1
|
1.0
|
|
C3D
|
B:HEC474
|
4.3
|
20.4
|
1.0
|
|
CG
|
B:HIS386
|
4.3
|
8.4
|
1.0
|
|
C2D
|
B:HEC474
|
4.3
|
18.1
|
1.0
|
|
Iron binding site 10 out
of 10 in 3ubr
Go back to
Iron Binding Sites List in 3ubr
Iron binding site 10 out
of 10 in the Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 10 of Laue Structure of Shewanella Oneidensis Cytochrome-C Nitrite Reductase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe475
b:13.8
occ:1.00
|
FE
|
B:HEC475
|
0.0
|
13.8
|
1.0
|
|
NC
|
B:HEC475
|
1.9
|
13.1
|
1.0
|
|
NE2
|
B:HIS311
|
2.0
|
32.9
|
1.0
|
|
NA
|
B:HEC475
|
2.1
|
12.1
|
1.0
|
|
NB
|
B:HEC475
|
2.1
|
11.1
|
1.0
|
|
NE2
|
B:HIS268
|
2.1
|
23.1
|
1.0
|
|
ND
|
B:HEC475
|
2.1
|
14.5
|
1.0
|
|
CD2
|
B:HIS311
|
2.9
|
33.4
|
1.0
|
|
C1C
|
B:HEC475
|
2.9
|
15.1
|
1.0
|
|
CE1
|
B:HIS311
|
3.0
|
33.5
|
1.0
|
|
C4C
|
B:HEC475
|
3.0
|
14.2
|
1.0
|
|
CE1
|
B:HIS268
|
3.0
|
23.8
|
1.0
|
|
C4B
|
B:HEC475
|
3.0
|
11.2
|
1.0
|
|
C1A
|
B:HEC475
|
3.0
|
13.6
|
1.0
|
|
C4A
|
B:HEC475
|
3.1
|
12.0
|
1.0
|
|
C1B
|
B:HEC475
|
3.1
|
9.7
|
1.0
|
|
CD2
|
B:HIS268
|
3.1
|
22.5
|
1.0
|
|
C4D
|
B:HEC475
|
3.1
|
15.2
|
1.0
|
|
C1D
|
B:HEC475
|
3.1
|
14.9
|
1.0
|
|
CHC
|
B:HEC475
|
3.3
|
13.5
|
1.0
|
|
CHA
|
B:HEC475
|
3.4
|
14.7
|
1.0
|
|
CHB
|
B:HEC475
|
3.4
|
11.3
|
1.0
|
|
CHD
|
B:HEC475
|
3.5
|
14.6
|
1.0
|
|
ND1
|
B:HIS311
|
4.1
|
33.3
|
1.0
|
|
CG
|
B:HIS311
|
4.1
|
32.3
|
1.0
|
|
ND1
|
B:HIS268
|
4.2
|
22.7
|
1.0
|
|
C2C
|
B:HEC475
|
4.2
|
15.8
|
1.0
|
|
C3C
|
B:HEC475
|
4.2
|
14.9
|
1.0
|
|
CG
|
B:HIS268
|
4.2
|
22.3
|
1.0
|
|
C3B
|
B:HEC475
|
4.2
|
10.6
|
1.0
|
|
C3A
|
B:HEC475
|
4.2
|
13.8
|
1.0
|
|
C2A
|
B:HEC475
|
4.3
|
13.9
|
1.0
|
|
C2B
|
B:HEC475
|
4.3
|
9.4
|
1.0
|
|
C3D
|
B:HEC475
|
4.3
|
17.1
|
1.0
|
|
C2D
|
B:HEC475
|
4.4
|
17.1
|
1.0
|
|
CBC
|
B:HEC474
|
4.8
|
22.3
|
1.0
|
|
Reference:
M.Youngblut,
E.T.Judd,
V.Srajer,
B.Sayyed,
T.Goelzer,
S.J.Elliott,
M.Schmidt,
A.A.Pacheco.
Laue Crystal Structure of Shewanella Oneidensis Cytochrome C Nitrite Reductase From A High-Yield Expression System. J.Biol.Inorg.Chem. V. 17 647 2012.
ISSN: ISSN 0949-8257
PubMed: 22382353
DOI: 10.1007/S00775-012-0885-0
Page generated: Sun Dec 13 15:23:01 2020
|
