Iron in PDB 3sxq: Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus
Protein crystallography data
The structure of Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus, PDB code: 3sxq
was solved by
K.M.Polyakov,
A.A.Trofimov,
T.V.Tikhonova,
A.V.Tikhonov,
K.M.Boyko,
V.O.Popov,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
29.90 /
1.90
|
|
Space group
|
P 21 3
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
193.640,
193.640,
193.640,
90.00,
90.00,
90.00
|
|
R / Rfree (%)
|
13.8 /
16.2
|
Other elements in 3sxq:
The structure of Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus also contains other interesting chemical elements:
Iron Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
16;
Binding sites:
The binding sites of Iron atom in the Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus
(pdb code 3sxq). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 16 binding sites of Iron where determined in the
Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus, PDB code: 3sxq:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Iron binding site 1 out
of 16 in 3sxq
Go back to
Iron Binding Sites List in 3sxq
Iron binding site 1 out
of 16 in the Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe1004
b:9.6
occ:1.00
|
FE
|
A:HEC1004
|
0.0
|
9.6
|
1.0
|
|
NZ
|
A:LYS188
|
1.9
|
14.8
|
1.0
|
|
NA
|
A:HEC1004
|
2.0
|
10.3
|
1.0
|
|
NC
|
A:HEC1004
|
2.0
|
10.5
|
1.0
|
|
ND
|
A:HEC1004
|
2.1
|
8.2
|
1.0
|
|
NB
|
A:HEC1004
|
2.1
|
8.8
|
1.0
|
|
O
|
A:HOH793
|
2.3
|
14.1
|
1.0
|
|
C1C
|
A:HEC1004
|
3.0
|
10.7
|
1.0
|
|
C4A
|
A:HEC1004
|
3.0
|
13.3
|
1.0
|
|
CE
|
A:LYS188
|
3.0
|
15.5
|
1.0
|
|
C4B
|
A:HEC1004
|
3.1
|
12.7
|
1.0
|
|
C1A
|
A:HEC1004
|
3.1
|
9.8
|
1.0
|
|
C4D
|
A:HEC1004
|
3.1
|
11.0
|
1.0
|
|
C4C
|
A:HEC1004
|
3.1
|
10.8
|
1.0
|
|
C1D
|
A:HEC1004
|
3.1
|
10.6
|
1.0
|
|
C1B
|
A:HEC1004
|
3.1
|
9.3
|
1.0
|
|
CHC
|
A:HEC1004
|
3.4
|
9.5
|
1.0
|
|
CHB
|
A:HEC1004
|
3.4
|
8.8
|
1.0
|
|
CHA
|
A:HEC1004
|
3.4
|
8.1
|
1.0
|
|
CHD
|
A:HEC1004
|
3.5
|
7.2
|
1.0
|
|
C3A
|
A:HEC1004
|
4.3
|
13.2
|
1.0
|
|
C2C
|
A:HEC1004
|
4.3
|
14.3
|
1.0
|
|
C2A
|
A:HEC1004
|
4.3
|
12.5
|
1.0
|
|
NE2
|
A:HIS361
|
4.3
|
13.5
|
1.0
|
|
C3D
|
A:HEC1004
|
4.3
|
8.3
|
1.0
|
|
C3C
|
A:HEC1004
|
4.3
|
9.7
|
1.0
|
|
C3B
|
A:HEC1004
|
4.3
|
7.5
|
1.0
|
|
C2D
|
A:HEC1004
|
4.3
|
7.5
|
1.0
|
|
C2B
|
A:HEC1004
|
4.3
|
9.3
|
1.0
|
|
CD
|
A:LYS188
|
4.5
|
10.5
|
1.0
|
|
O
|
A:HOH750
|
4.7
|
14.9
|
0.5
|
|
OH
|
A:TYR303
|
4.7
|
15.3
|
1.0
|
|
O
|
A:HOH568
|
4.8
|
12.8
|
1.0
|
|
O
|
A:HOH606
|
4.9
|
22.2
|
1.0
|
|
CMD
|
A:HEC1006
|
4.9
|
6.3
|
1.0
|
|
Iron binding site 2 out
of 16 in 3sxq
Go back to
Iron Binding Sites List in 3sxq
Iron binding site 2 out
of 16 in the Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe1005
b:10.3
occ:1.00
|
FE
|
A:HEC1005
|
0.0
|
10.3
|
1.0
|
|
NE2
|
A:HIS398
|
1.9
|
8.9
|
1.0
|
|
ND
|
A:HEC1005
|
2.0
|
8.9
|
1.0
|
|
NE2
|
A:HIS231
|
2.0
|
9.0
|
1.0
|
|
NB
|
A:HEC1005
|
2.0
|
10.3
|
1.0
|
|
NA
|
A:HEC1005
|
2.0
|
9.0
|
1.0
|
|
NC
|
A:HEC1005
|
2.0
|
11.1
|
1.0
|
|
CD2
|
A:HIS398
|
2.9
|
9.2
|
1.0
|
|
CE1
|
A:HIS231
|
2.9
|
10.1
|
1.0
|
|
CE1
|
A:HIS398
|
3.0
|
10.8
|
1.0
|
|
C1D
|
A:HEC1005
|
3.0
|
9.2
|
1.0
|
|
CD2
|
A:HIS231
|
3.0
|
9.3
|
1.0
|
|
C4A
|
A:HEC1005
|
3.0
|
8.1
|
1.0
|
|
C1B
|
A:HEC1005
|
3.0
|
14.5
|
1.0
|
|
C4D
|
A:HEC1005
|
3.1
|
8.8
|
1.0
|
|
C4B
|
A:HEC1005
|
3.1
|
8.2
|
1.0
|
|
C1A
|
A:HEC1005
|
3.1
|
11.7
|
1.0
|
|
C4C
|
A:HEC1005
|
3.1
|
8.1
|
1.0
|
|
C1C
|
A:HEC1005
|
3.1
|
10.4
|
1.0
|
|
CHD
|
A:HEC1005
|
3.4
|
6.4
|
1.0
|
|
CHB
|
A:HEC1005
|
3.4
|
7.2
|
1.0
|
|
CHA
|
A:HEC1005
|
3.4
|
8.1
|
1.0
|
|
CHC
|
A:HEC1005
|
3.4
|
8.6
|
1.0
|
|
ND1
|
A:HIS398
|
4.1
|
9.8
|
1.0
|
|
ND1
|
A:HIS231
|
4.1
|
10.8
|
1.0
|
|
CG
|
A:HIS398
|
4.1
|
9.7
|
1.0
|
|
CG
|
A:HIS231
|
4.2
|
9.8
|
1.0
|
|
C2B
|
A:HEC1005
|
4.2
|
12.8
|
1.0
|
|
C2D
|
A:HEC1005
|
4.2
|
9.3
|
1.0
|
|
C3D
|
A:HEC1005
|
4.3
|
9.1
|
1.0
|
|
C3A
|
A:HEC1005
|
4.3
|
9.2
|
1.0
|
|
C3B
|
A:HEC1005
|
4.3
|
10.7
|
1.0
|
|
C2A
|
A:HEC1005
|
4.3
|
12.8
|
1.0
|
|
C2C
|
A:HEC1005
|
4.3
|
8.5
|
1.0
|
|
C3C
|
A:HEC1005
|
4.3
|
7.7
|
1.0
|
|
Iron binding site 3 out
of 16 in 3sxq
Go back to
Iron Binding Sites List in 3sxq
Iron binding site 3 out
of 16 in the Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe1006
b:8.8
occ:1.00
|
FE
|
A:HEC1006
|
0.0
|
8.8
|
1.0
|
|
NE2
|
A:HIS119
|
2.0
|
9.0
|
1.0
|
|
NE2
|
A:HIS300
|
2.0
|
8.4
|
1.0
|
|
ND
|
A:HEC1006
|
2.0
|
7.3
|
1.0
|
|
NB
|
A:HEC1006
|
2.0
|
7.1
|
1.0
|
|
NA
|
A:HEC1006
|
2.1
|
5.4
|
1.0
|
|
NC
|
A:HEC1006
|
2.1
|
8.2
|
1.0
|
|
CE1
|
A:HIS300
|
2.9
|
7.7
|
1.0
|
|
CE1
|
A:HIS119
|
2.9
|
6.7
|
1.0
|
|
CD2
|
A:HIS119
|
3.0
|
10.5
|
1.0
|
|
C1D
|
A:HEC1006
|
3.0
|
10.2
|
1.0
|
|
CD2
|
A:HIS300
|
3.0
|
8.1
|
1.0
|
|
C1B
|
A:HEC1006
|
3.1
|
7.9
|
1.0
|
|
C4B
|
A:HEC1006
|
3.1
|
9.6
|
1.0
|
|
C4A
|
A:HEC1006
|
3.1
|
8.7
|
1.0
|
|
C4D
|
A:HEC1006
|
3.1
|
11.5
|
1.0
|
|
C1C
|
A:HEC1006
|
3.1
|
10.1
|
1.0
|
|
C4C
|
A:HEC1006
|
3.1
|
10.3
|
1.0
|
|
C1A
|
A:HEC1006
|
3.1
|
7.6
|
1.0
|
|
CHB
|
A:HEC1006
|
3.4
|
8.4
|
1.0
|
|
CHD
|
A:HEC1006
|
3.4
|
8.7
|
1.0
|
|
CHC
|
A:HEC1006
|
3.4
|
8.6
|
1.0
|
|
CHA
|
A:HEC1006
|
3.5
|
8.1
|
1.0
|
|
ND1
|
A:HIS300
|
4.1
|
8.4
|
1.0
|
|
ND1
|
A:HIS119
|
4.1
|
7.8
|
1.0
|
|
CG
|
A:HIS119
|
4.1
|
9.4
|
1.0
|
|
CG
|
A:HIS300
|
4.2
|
9.4
|
1.0
|
|
C2B
|
A:HEC1006
|
4.3
|
8.9
|
1.0
|
|
C2D
|
A:HEC1006
|
4.3
|
6.7
|
1.0
|
|
C3B
|
A:HEC1006
|
4.3
|
9.2
|
1.0
|
|
C2A
|
A:HEC1006
|
4.3
|
7.2
|
1.0
|
|
C3A
|
A:HEC1006
|
4.3
|
8.3
|
1.0
|
|
C3D
|
A:HEC1006
|
4.3
|
9.0
|
1.0
|
|
C2C
|
A:HEC1006
|
4.3
|
7.6
|
1.0
|
|
C3C
|
A:HEC1006
|
4.3
|
9.5
|
1.0
|
|
CG
|
A:PRO400
|
4.5
|
16.8
|
1.0
|
|
CE
|
A:MET122
|
4.9
|
9.9
|
1.0
|
|
Iron binding site 4 out
of 16 in 3sxq
Go back to
Iron Binding Sites List in 3sxq
Iron binding site 4 out
of 16 in the Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe1007
b:9.5
occ:1.00
|
FE
|
A:HEC1007
|
0.0
|
9.5
|
1.0
|
|
NE2
|
A:HIS491
|
1.9
|
8.3
|
1.0
|
|
NE2
|
A:HIS383
|
1.9
|
8.0
|
1.0
|
|
NA
|
A:HEC1007
|
2.0
|
7.2
|
1.0
|
|
NC
|
A:HEC1007
|
2.0
|
9.5
|
1.0
|
|
NB
|
A:HEC1007
|
2.0
|
10.4
|
1.0
|
|
ND
|
A:HEC1007
|
2.0
|
11.0
|
1.0
|
|
CE1
|
A:HIS491
|
2.9
|
7.7
|
1.0
|
|
CE1
|
A:HIS383
|
2.9
|
8.9
|
1.0
|
|
CD2
|
A:HIS383
|
3.0
|
7.3
|
1.0
|
|
CD2
|
A:HIS491
|
3.0
|
9.7
|
1.0
|
|
C1A
|
A:HEC1007
|
3.0
|
6.8
|
1.0
|
|
C1C
|
A:HEC1007
|
3.0
|
11.5
|
1.0
|
|
C4A
|
A:HEC1007
|
3.0
|
6.9
|
1.0
|
|
C1B
|
A:HEC1007
|
3.0
|
6.8
|
1.0
|
|
C4B
|
A:HEC1007
|
3.0
|
7.9
|
1.0
|
|
C1D
|
A:HEC1007
|
3.0
|
14.5
|
1.0
|
|
C4C
|
A:HEC1007
|
3.1
|
9.6
|
1.0
|
|
C4D
|
A:HEC1007
|
3.1
|
12.2
|
1.0
|
|
CHC
|
A:HEC1007
|
3.4
|
7.6
|
1.0
|
|
CHA
|
A:HEC1007
|
3.4
|
9.8
|
1.0
|
|
CHD
|
A:HEC1007
|
3.4
|
12.1
|
1.0
|
|
CHB
|
A:HEC1007
|
3.4
|
5.3
|
1.0
|
|
ND1
|
A:HIS491
|
4.0
|
10.3
|
1.0
|
|
ND1
|
A:HIS383
|
4.0
|
9.4
|
1.0
|
|
CG
|
A:HIS383
|
4.1
|
11.9
|
1.0
|
|
CG
|
A:HIS491
|
4.1
|
10.6
|
1.0
|
|
C2A
|
A:HEC1007
|
4.2
|
7.2
|
1.0
|
|
C3A
|
A:HEC1007
|
4.2
|
8.6
|
1.0
|
|
C2B
|
A:HEC1007
|
4.2
|
10.1
|
1.0
|
|
C2C
|
A:HEC1007
|
4.3
|
10.8
|
1.0
|
|
C3B
|
A:HEC1007
|
4.3
|
6.6
|
1.0
|
|
C2D
|
A:HEC1007
|
4.3
|
7.5
|
1.0
|
|
C3C
|
A:HEC1007
|
4.3
|
9.2
|
1.0
|
|
C3D
|
A:HEC1007
|
4.3
|
6.2
|
1.0
|
|
CB
|
A:SER487
|
4.9
|
7.9
|
1.0
|
|
Iron binding site 5 out
of 16 in 3sxq
Go back to
Iron Binding Sites List in 3sxq
Iron binding site 5 out
of 16 in the Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 5 of Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe1008
b:11.8
occ:1.00
|
FE
|
A:HEC1008
|
0.0
|
11.8
|
1.0
|
|
NE2
|
A:HIS415
|
1.9
|
14.2
|
1.0
|
|
NE2
|
A:HIS372
|
1.9
|
13.1
|
1.0
|
|
NB
|
A:HEC1008
|
2.0
|
9.3
|
1.0
|
|
NA
|
A:HEC1008
|
2.0
|
9.7
|
1.0
|
|
ND
|
A:HEC1008
|
2.0
|
14.8
|
1.0
|
|
NC
|
A:HEC1008
|
2.0
|
13.7
|
1.0
|
|
CE1
|
A:HIS415
|
2.9
|
17.8
|
1.0
|
|
CE1
|
A:HIS372
|
2.9
|
17.9
|
1.0
|
|
CD2
|
A:HIS372
|
3.0
|
12.8
|
1.0
|
|
CD2
|
A:HIS415
|
3.0
|
14.0
|
1.0
|
|
C1B
|
A:HEC1008
|
3.0
|
9.7
|
1.0
|
|
C4A
|
A:HEC1008
|
3.0
|
15.2
|
1.0
|
|
C4B
|
A:HEC1008
|
3.0
|
9.2
|
1.0
|
|
C1A
|
A:HEC1008
|
3.1
|
16.4
|
1.0
|
|
C1C
|
A:HEC1008
|
3.1
|
11.4
|
1.0
|
|
C1D
|
A:HEC1008
|
3.1
|
16.6
|
1.0
|
|
C4D
|
A:HEC1008
|
3.1
|
17.8
|
1.0
|
|
C4C
|
A:HEC1008
|
3.1
|
20.6
|
1.0
|
|
CHB
|
A:HEC1008
|
3.4
|
12.0
|
1.0
|
|
CHD
|
A:HEC1008
|
3.4
|
18.5
|
1.0
|
|
CHA
|
A:HEC1008
|
3.4
|
15.8
|
1.0
|
|
CHC
|
A:HEC1008
|
3.4
|
13.4
|
1.0
|
|
ND1
|
A:HIS415
|
4.0
|
15.8
|
1.0
|
|
ND1
|
A:HIS372
|
4.1
|
11.8
|
1.0
|
|
CG
|
A:HIS415
|
4.1
|
12.3
|
1.0
|
|
CG
|
A:HIS372
|
4.1
|
13.1
|
1.0
|
|
C2B
|
A:HEC1008
|
4.2
|
8.6
|
1.0
|
|
C3B
|
A:HEC1008
|
4.2
|
11.3
|
1.0
|
|
C3A
|
A:HEC1008
|
4.3
|
15.1
|
1.0
|
|
C2A
|
A:HEC1008
|
4.3
|
12.1
|
1.0
|
|
C2C
|
A:HEC1008
|
4.3
|
17.2
|
1.0
|
|
C3D
|
A:HEC1008
|
4.3
|
22.2
|
1.0
|
|
C2D
|
A:HEC1008
|
4.3
|
26.4
|
1.0
|
|
C3C
|
A:HEC1008
|
4.3
|
15.5
|
1.0
|
|
Iron binding site 6 out
of 16 in 3sxq
Go back to
Iron Binding Sites List in 3sxq
Iron binding site 6 out
of 16 in the Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 6 of Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe1002
b:11.7
occ:1.00
|
FE
|
A:HEC1002
|
0.0
|
11.7
|
1.0
|
|
NE2
|
A:HIS234
|
1.9
|
10.5
|
1.0
|
|
NE2
|
A:HIS39
|
1.9
|
11.4
|
1.0
|
|
NA
|
A:HEC1002
|
2.1
|
11.3
|
1.0
|
|
ND
|
A:HEC1002
|
2.1
|
13.2
|
1.0
|
|
NC
|
A:HEC1002
|
2.1
|
12.2
|
1.0
|
|
NB
|
A:HEC1002
|
2.1
|
13.7
|
1.0
|
|
CE1
|
A:HIS234
|
2.9
|
9.6
|
1.0
|
|
CE1
|
A:HIS39
|
2.9
|
11.6
|
1.0
|
|
CD2
|
A:HIS39
|
3.0
|
11.4
|
1.0
|
|
CD2
|
A:HIS234
|
3.0
|
7.2
|
1.0
|
|
C1D
|
A:HEC1002
|
3.1
|
15.2
|
1.0
|
|
C4A
|
A:HEC1002
|
3.1
|
10.5
|
1.0
|
|
C1A
|
A:HEC1002
|
3.1
|
16.7
|
1.0
|
|
C1B
|
A:HEC1002
|
3.1
|
13.8
|
1.0
|
|
C4C
|
A:HEC1002
|
3.1
|
14.0
|
1.0
|
|
C4D
|
A:HEC1002
|
3.1
|
17.1
|
1.0
|
|
C1C
|
A:HEC1002
|
3.1
|
14.1
|
1.0
|
|
C4B
|
A:HEC1002
|
3.2
|
11.3
|
1.0
|
|
CHD
|
A:HEC1002
|
3.4
|
11.6
|
1.0
|
|
CHB
|
A:HEC1002
|
3.4
|
13.5
|
1.0
|
|
CHA
|
A:HEC1002
|
3.4
|
13.2
|
1.0
|
|
CHC
|
A:HEC1002
|
3.5
|
11.2
|
1.0
|
|
ND1
|
A:HIS234
|
4.0
|
9.9
|
1.0
|
|
ND1
|
A:HIS39
|
4.0
|
11.5
|
1.0
|
|
CG
|
A:HIS234
|
4.1
|
10.6
|
1.0
|
|
CG
|
A:HIS39
|
4.1
|
12.0
|
1.0
|
|
C2D
|
A:HEC1002
|
4.3
|
8.4
|
1.0
|
|
C2A
|
A:HEC1002
|
4.3
|
11.9
|
1.0
|
|
C3A
|
A:HEC1002
|
4.3
|
10.4
|
1.0
|
|
C3D
|
A:HEC1002
|
4.3
|
8.6
|
1.0
|
|
C2C
|
A:HEC1002
|
4.3
|
9.5
|
1.0
|
|
C2B
|
A:HEC1002
|
4.3
|
12.8
|
1.0
|
|
C3C
|
A:HEC1002
|
4.3
|
10.4
|
1.0
|
|
C3B
|
A:HEC1002
|
4.4
|
12.8
|
1.0
|
|
CMA
|
A:HEC1001
|
4.9
|
10.6
|
1.0
|
|
Iron binding site 7 out
of 16 in 3sxq
Go back to
Iron Binding Sites List in 3sxq
Iron binding site 7 out
of 16 in the Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 7 of Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe1003
b:11.0
occ:1.00
|
FE
|
A:HEC1003
|
0.0
|
11.0
|
1.0
|
|
NA
|
A:HEC1003
|
2.0
|
9.8
|
1.0
|
|
NE2
|
A:HIS30
|
2.0
|
11.2
|
1.0
|
|
NC
|
A:HEC1003
|
2.0
|
9.9
|
1.0
|
|
NE2
|
A:HIS70
|
2.0
|
10.6
|
1.0
|
|
NB
|
A:HEC1003
|
2.0
|
8.6
|
1.0
|
|
ND
|
A:HEC1003
|
2.0
|
11.0
|
1.0
|
|
CE1
|
A:HIS30
|
2.9
|
11.5
|
1.0
|
|
CD2
|
A:HIS70
|
3.0
|
10.6
|
1.0
|
|
CE1
|
A:HIS70
|
3.0
|
10.9
|
1.0
|
|
C4C
|
A:HEC1003
|
3.0
|
10.7
|
1.0
|
|
C4A
|
A:HEC1003
|
3.0
|
11.1
|
1.0
|
|
C1D
|
A:HEC1003
|
3.0
|
10.9
|
1.0
|
|
C1C
|
A:HEC1003
|
3.0
|
9.7
|
1.0
|
|
C1A
|
A:HEC1003
|
3.0
|
13.8
|
1.0
|
|
CD2
|
A:HIS30
|
3.0
|
11.4
|
1.0
|
|
C1B
|
A:HEC1003
|
3.1
|
9.8
|
1.0
|
|
C4B
|
A:HEC1003
|
3.1
|
7.4
|
1.0
|
|
C4D
|
A:HEC1003
|
3.1
|
8.5
|
1.0
|
|
CHD
|
A:HEC1003
|
3.4
|
11.1
|
1.0
|
|
CHB
|
A:HEC1003
|
3.4
|
8.0
|
1.0
|
|
CHC
|
A:HEC1003
|
3.4
|
11.5
|
1.0
|
|
CHA
|
A:HEC1003
|
3.5
|
12.3
|
1.0
|
|
ND1
|
A:HIS30
|
4.0
|
11.8
|
1.0
|
|
ND1
|
A:HIS70
|
4.1
|
11.2
|
1.0
|
|
CG
|
A:HIS70
|
4.1
|
10.7
|
1.0
|
|
CG
|
A:HIS30
|
4.1
|
11.9
|
1.0
|
|
C3A
|
A:HEC1003
|
4.2
|
13.5
|
1.0
|
|
C2C
|
A:HEC1003
|
4.2
|
12.9
|
1.0
|
|
C2A
|
A:HEC1003
|
4.3
|
12.3
|
1.0
|
|
C3C
|
A:HEC1003
|
4.3
|
8.2
|
1.0
|
|
C2D
|
A:HEC1003
|
4.3
|
9.3
|
1.0
|
|
C2B
|
A:HEC1003
|
4.3
|
11.4
|
1.0
|
|
C3D
|
A:HEC1003
|
4.3
|
11.6
|
1.0
|
|
C3B
|
A:HEC1003
|
4.3
|
9.4
|
1.0
|
|
CG2
|
A:THR236
|
4.9
|
10.9
|
1.0
|
|
Iron binding site 8 out
of 16 in 3sxq
Go back to
Iron Binding Sites List in 3sxq
Iron binding site 8 out
of 16 in the Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 8 of Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe1001
b:15.1
occ:1.00
|
FE
|
A:HEC1001
|
0.0
|
15.1
|
1.0
|
|
NE2
|
A:HIS18
|
1.9
|
14.7
|
1.0
|
|
NE2
|
A:HIS44
|
1.9
|
15.5
|
1.0
|
|
NC
|
A:HEC1001
|
2.1
|
15.2
|
1.0
|
|
NA
|
A:HEC1001
|
2.1
|
14.2
|
1.0
|
|
NB
|
A:HEC1001
|
2.1
|
14.7
|
1.0
|
|
ND
|
A:HEC1001
|
2.1
|
16.1
|
1.0
|
|
CE1
|
A:HIS18
|
2.8
|
15.2
|
1.0
|
|
CE1
|
A:HIS44
|
2.9
|
16.1
|
1.0
|
|
CD2
|
A:HIS44
|
3.0
|
16.0
|
1.0
|
|
CD2
|
A:HIS18
|
3.0
|
15.1
|
1.0
|
|
C1D
|
A:HEC1001
|
3.1
|
21.4
|
1.0
|
|
C1B
|
A:HEC1001
|
3.1
|
17.4
|
1.0
|
|
C4A
|
A:HEC1001
|
3.1
|
16.8
|
1.0
|
|
C4C
|
A:HEC1001
|
3.1
|
24.5
|
1.0
|
|
C1A
|
A:HEC1001
|
3.1
|
15.9
|
1.0
|
|
C4D
|
A:HEC1001
|
3.1
|
20.2
|
1.0
|
|
C1C
|
A:HEC1001
|
3.1
|
32.2
|
1.0
|
|
C4B
|
A:HEC1001
|
3.1
|
16.9
|
1.0
|
|
CHD
|
A:HEC1001
|
3.4
|
14.5
|
1.0
|
|
CHB
|
A:HEC1001
|
3.4
|
14.5
|
1.0
|
|
CHA
|
A:HEC1001
|
3.5
|
15.9
|
1.0
|
|
CHC
|
A:HEC1001
|
3.5
|
17.2
|
1.0
|
|
ND1
|
A:HIS18
|
3.9
|
14.9
|
1.0
|
|
ND1
|
A:HIS44
|
4.0
|
16.1
|
1.0
|
|
CG
|
A:HIS18
|
4.1
|
15.7
|
1.0
|
|
CG
|
A:HIS44
|
4.1
|
16.8
|
1.0
|
|
C2D
|
A:HEC1001
|
4.3
|
21.8
|
1.0
|
|
C3A
|
A:HEC1001
|
4.3
|
16.7
|
1.0
|
|
C2A
|
A:HEC1001
|
4.3
|
14.9
|
1.0
|
|
C2B
|
A:HEC1001
|
4.3
|
11.2
|
1.0
|
|
C2C
|
A:HEC1001
|
4.3
|
22.4
|
1.0
|
|
C3D
|
A:HEC1001
|
4.3
|
17.8
|
1.0
|
|
C3C
|
A:HEC1001
|
4.3
|
21.2
|
1.0
|
|
C3B
|
A:HEC1001
|
4.4
|
15.9
|
1.0
|
|
CMA
|
A:HEC1002
|
4.8
|
12.7
|
1.0
|
|
Iron binding site 9 out
of 16 in 3sxq
Go back to
Iron Binding Sites List in 3sxq
Iron binding site 9 out
of 16 in the Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 9 of Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe1004
b:10.4
occ:1.00
|
FE
|
B:HEC1004
|
0.0
|
10.4
|
1.0
|
|
NZ
|
B:LYS188
|
1.9
|
14.1
|
1.0
|
|
NC
|
B:HEC1004
|
2.0
|
9.6
|
1.0
|
|
NA
|
B:HEC1004
|
2.0
|
12.0
|
1.0
|
|
ND
|
B:HEC1004
|
2.1
|
9.2
|
1.0
|
|
NB
|
B:HEC1004
|
2.1
|
7.5
|
1.0
|
|
O
|
B:HOH795
|
2.2
|
14.2
|
1.0
|
|
CE
|
B:LYS188
|
2.9
|
11.0
|
1.0
|
|
C1C
|
B:HEC1004
|
3.0
|
12.0
|
1.0
|
|
C1A
|
B:HEC1004
|
3.1
|
7.2
|
1.0
|
|
C4D
|
B:HEC1004
|
3.1
|
10.3
|
1.0
|
|
C4B
|
B:HEC1004
|
3.1
|
11.9
|
1.0
|
|
C4A
|
B:HEC1004
|
3.1
|
10.4
|
1.0
|
|
C4C
|
B:HEC1004
|
3.1
|
9.0
|
1.0
|
|
C1D
|
B:HEC1004
|
3.1
|
9.6
|
1.0
|
|
C1B
|
B:HEC1004
|
3.1
|
10.0
|
1.0
|
|
CHC
|
B:HEC1004
|
3.4
|
11.5
|
1.0
|
|
CHA
|
B:HEC1004
|
3.4
|
6.7
|
1.0
|
|
CHD
|
B:HEC1004
|
3.5
|
7.8
|
1.0
|
|
CHB
|
B:HEC1004
|
3.5
|
6.5
|
1.0
|
|
C2C
|
B:HEC1004
|
4.3
|
12.2
|
1.0
|
|
C3A
|
B:HEC1004
|
4.3
|
10.0
|
1.0
|
|
C2A
|
B:HEC1004
|
4.3
|
14.0
|
1.0
|
|
C3C
|
B:HEC1004
|
4.3
|
9.7
|
1.0
|
|
NE2
|
B:HIS361
|
4.3
|
12.2
|
1.0
|
|
C3D
|
B:HEC1004
|
4.3
|
8.7
|
1.0
|
|
C3B
|
B:HEC1004
|
4.3
|
10.0
|
1.0
|
|
C2D
|
B:HEC1004
|
4.3
|
7.5
|
1.0
|
|
C2B
|
B:HEC1004
|
4.3
|
11.3
|
1.0
|
|
CD
|
B:LYS188
|
4.4
|
14.0
|
1.0
|
|
O
|
B:HOH629
|
4.7
|
18.3
|
1.0
|
|
OH
|
B:TYR303
|
4.7
|
17.0
|
1.0
|
|
O
|
B:HOH756
|
4.7
|
11.8
|
0.5
|
|
O
|
B:HOH590
|
4.8
|
14.6
|
1.0
|
|
CMD
|
B:HEC1006
|
4.8
|
8.0
|
1.0
|
|
Iron binding site 10 out
of 16 in 3sxq
Go back to
Iron Binding Sites List in 3sxq
Iron binding site 10 out
of 16 in the Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus
 Mono view
 Stereo pair view
|
|
A full contact list of Iron with other atoms in the Fe binding
site number 10 of Structure of A Hexameric Multiheme C Nitrite Reductase From the Extremophile Bacterium Thiolkalivibrio Paradoxus within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe1005
b:10.5
occ:1.00
|
FE
|
B:HEC1005
|
0.0
|
10.5
|
1.0
|
|
NE2
|
B:HIS398
|
2.0
|
8.1
|
1.0
|
|
NE2
|
B:HIS231
|
2.0
|
10.9
|
1.0
|
|
ND
|
B:HEC1005
|
2.0
|
9.3
|
1.0
|
|
NA
|
B:HEC1005
|
2.0
|
9.2
|
1.0
|
|
NB
|
B:HEC1005
|
2.0
|
10.3
|
1.0
|
|
NC
|
B:HEC1005
|
2.1
|
11.5
|
1.0
|
|
CE1
|
B:HIS231
|
2.9
|
11.0
|
1.0
|
|
CD2
|
B:HIS398
|
3.0
|
7.8
|
1.0
|
|
CE1
|
B:HIS398
|
3.0
|
9.3
|
1.0
|
|
CD2
|
B:HIS231
|
3.0
|
9.7
|
1.0
|
|
C1D
|
B:HEC1005
|
3.0
|
11.8
|
1.0
|
|
C4D
|
B:HEC1005
|
3.0
|
11.3
|
1.0
|
|
C4A
|
B:HEC1005
|
3.0
|
9.6
|
1.0
|
|
C1A
|
B:HEC1005
|
3.0
|
9.1
|
1.0
|
|
C1B
|
B:HEC1005
|
3.1
|
10.4
|
1.0
|
|
C4B
|
B:HEC1005
|
3.1
|
7.9
|
1.0
|
|
C1C
|
B:HEC1005
|
3.1
|
11.7
|
1.0
|
|
C4C
|
B:HEC1005
|
3.1
|
9.3
|
1.0
|
|
CHB
|
B:HEC1005
|
3.4
|
6.0
|
1.0
|
|
CHA
|
B:HEC1005
|
3.4
|
7.2
|
1.0
|
|
CHD
|
B:HEC1005
|
3.4
|
11.4
|
1.0
|
|
CHC
|
B:HEC1005
|
3.4
|
10.9
|
1.0
|
|
ND1
|
B:HIS231
|
4.1
|
11.0
|
1.0
|
|
ND1
|
B:HIS398
|
4.1
|
8.6
|
1.0
|
|
CG
|
B:HIS398
|
4.1
|
7.5
|
1.0
|
|
CG
|
B:HIS231
|
4.1
|
10.8
|
1.0
|
|
C2D
|
B:HEC1005
|
4.2
|
11.6
|
1.0
|
|
C3D
|
B:HEC1005
|
4.2
|
11.0
|
1.0
|
|
C2B
|
B:HEC1005
|
4.3
|
11.5
|
1.0
|
|
C3A
|
B:HEC1005
|
4.3
|
9.1
|
1.0
|
|
C2A
|
B:HEC1005
|
4.3
|
8.2
|
1.0
|
|
C3B
|
B:HEC1005
|
4.3
|
10.5
|
1.0
|
|
C2C
|
B:HEC1005
|
4.3
|
10.4
|
1.0
|
|
C3C
|
B:HEC1005
|
4.4
|
9.5
|
1.0
|
|
Reference:
T.Tikhonova,
A.Tikhonov,
A.Trofimov,
K.Polyakov,
K.Boyko,
E.Cherkashin,
T.Rakitina,
D.Sorokin,
V.Popov.
Comparative Structural and Functional Analysis of Two Octaheme Nitrite Reductases From Closely Related Thioalkalivibrio Species. Febs J. V. 279 4052 2012.
ISSN: ISSN 1742-464X
PubMed: 22935005
DOI: 10.1111/J.1742-4658.2012.08811.X
Page generated: Tue Aug 5 06:50:54 2025
|
