Iron in PDB 6sdr: W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form
Enzymatic activity of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form
All present enzymatic activity of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form:
1.2.1.2;
Protein crystallography data
The structure of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form, PDB code: 6sdr
was solved by
A.R.Oliveira,
C.Mota,
C.Mourato,
R.M.Domingos,
M.F.A.Santos,
D.Gesto,
B.Guigliarelli,
T.Santos-Silva,
M.J.Romao,
I.C.Pereira,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
48.36 /
2.10
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
64.593,
127.644,
148.213,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
18.6 /
22.6
|
Other elements in 6sdr:
The structure of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form 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 W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form
(pdb code 6sdr). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 16 binding sites of Iron where determined in the
W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form, PDB code: 6sdr:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Iron binding site 1 out
of 16 in 6sdr
Go back to
Iron Binding Sites List in 6sdr
Iron binding site 1 out
of 16 in the W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_01.jpg) Mono view
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_01_stereo.jpg) Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe1103
b:16.9
occ:1.00
|
FE1
|
A:SF41103
|
0.0
|
16.9
|
1.0
|
S3
|
A:SF41103
|
2.2
|
14.3
|
1.0
|
S4
|
A:SF41103
|
2.3
|
18.3
|
1.0
|
S2
|
A:SF41103
|
2.3
|
17.7
|
1.0
|
SG
|
A:CYS53
|
2.4
|
18.7
|
1.0
|
FE4
|
A:SF41103
|
2.7
|
16.9
|
1.0
|
FE2
|
A:SF41103
|
2.7
|
18.4
|
1.0
|
FE3
|
A:SF41103
|
2.7
|
18.9
|
1.0
|
CB
|
A:CYS53
|
3.5
|
14.4
|
1.0
|
N
|
A:CYS53
|
3.7
|
16.9
|
1.0
|
CB
|
A:VAL55
|
3.8
|
24.2
|
1.0
|
S1
|
A:SF41103
|
3.8
|
20.9
|
1.0
|
CA
|
A:CYS53
|
3.9
|
15.1
|
1.0
|
O
|
A:HOH1357
|
4.0
|
15.1
|
1.0
|
O
|
A:CYS53
|
4.0
|
16.9
|
1.0
|
CG2
|
A:VAL55
|
4.1
|
20.4
|
1.0
|
C
|
A:CYS53
|
4.1
|
20.0
|
1.0
|
N
|
A:VAL55
|
4.4
|
20.2
|
1.0
|
CD
|
A:PRO234
|
4.5
|
17.1
|
1.0
|
CA
|
A:VAL55
|
4.7
|
16.7
|
1.0
|
SG
|
A:CYS50
|
4.7
|
17.0
|
1.0
|
SG
|
A:CYS88
|
4.8
|
15.7
|
1.0
|
SG
|
A:CYS57
|
4.8
|
18.0
|
1.0
|
CG1
|
A:VAL55
|
4.8
|
19.2
|
1.0
|
C
|
A:TYR52
|
4.9
|
27.6
|
1.0
|
N
|
A:ALA54
|
4.9
|
18.7
|
1.0
|
|
Iron binding site 2 out
of 16 in 6sdr
Go back to
Iron Binding Sites List in 6sdr
Iron binding site 2 out
of 16 in the W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_02.jpg) Mono view
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_02_stereo.jpg) Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe1103
b:18.4
occ:1.00
|
FE2
|
A:SF41103
|
0.0
|
18.4
|
1.0
|
SG
|
A:CYS57
|
2.3
|
18.0
|
1.0
|
S4
|
A:SF41103
|
2.3
|
18.3
|
1.0
|
S1
|
A:SF41103
|
2.3
|
20.9
|
1.0
|
S3
|
A:SF41103
|
2.3
|
14.3
|
1.0
|
FE3
|
A:SF41103
|
2.7
|
18.9
|
1.0
|
FE1
|
A:SF41103
|
2.7
|
16.9
|
1.0
|
FE4
|
A:SF41103
|
2.8
|
16.9
|
1.0
|
CB
|
A:CYS57
|
3.2
|
18.4
|
1.0
|
CD1
|
A:ILE235
|
3.8
|
24.3
|
1.0
|
S2
|
A:SF41103
|
3.9
|
17.7
|
1.0
|
CB
|
A:VAL55
|
4.0
|
24.2
|
1.0
|
CG1
|
A:VAL55
|
4.0
|
19.2
|
1.0
|
N
|
A:CYS57
|
4.2
|
18.3
|
1.0
|
CG1
|
A:ILE235
|
4.3
|
15.8
|
1.0
|
CA
|
A:CYS57
|
4.3
|
21.4
|
1.0
|
CB
|
A:ILE235
|
4.3
|
14.2
|
1.0
|
SG
|
A:CYS50
|
4.6
|
17.0
|
1.0
|
CB
|
A:CYS50
|
4.7
|
18.0
|
1.0
|
CG2
|
A:VAL55
|
4.7
|
20.4
|
1.0
|
SG
|
A:CYS53
|
4.8
|
18.7
|
1.0
|
CD2
|
A:LEU87
|
4.9
|
19.5
|
1.0
|
N
|
A:GLY56
|
5.0
|
14.9
|
1.0
|
|
Iron binding site 3 out
of 16 in 6sdr
Go back to
Iron Binding Sites List in 6sdr
Iron binding site 3 out
of 16 in the W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_03.jpg) Mono view
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_03_stereo.jpg) Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe1103
b:18.9
occ:1.00
|
FE3
|
A:SF41103
|
0.0
|
18.9
|
1.0
|
S1
|
A:SF41103
|
2.2
|
20.9
|
1.0
|
SG
|
A:CYS50
|
2.2
|
17.0
|
1.0
|
S4
|
A:SF41103
|
2.3
|
18.3
|
1.0
|
S2
|
A:SF41103
|
2.3
|
17.7
|
1.0
|
FE2
|
A:SF41103
|
2.7
|
18.4
|
1.0
|
FE4
|
A:SF41103
|
2.7
|
16.9
|
1.0
|
FE1
|
A:SF41103
|
2.7
|
16.9
|
1.0
|
CB
|
A:CYS50
|
3.2
|
18.0
|
1.0
|
S3
|
A:SF41103
|
3.9
|
14.3
|
1.0
|
CB
|
A:TYR52
|
4.2
|
16.9
|
1.0
|
CA
|
A:GLY91
|
4.2
|
29.8
|
1.0
|
N
|
A:GLY91
|
4.3
|
25.0
|
1.0
|
N
|
A:CYS53
|
4.3
|
16.9
|
1.0
|
SG
|
A:CYS88
|
4.6
|
15.7
|
1.0
|
SG
|
A:CYS57
|
4.6
|
18.0
|
1.0
|
CA
|
A:CYS50
|
4.6
|
18.9
|
1.0
|
CB
|
A:CYS57
|
4.7
|
18.4
|
1.0
|
N
|
A:TYR52
|
4.7
|
17.5
|
1.0
|
CD2
|
A:TYR52
|
4.8
|
23.4
|
1.0
|
CA
|
A:TYR52
|
4.8
|
17.0
|
1.0
|
SG
|
A:CYS53
|
4.9
|
18.7
|
1.0
|
C
|
A:TYR52
|
5.0
|
27.6
|
1.0
|
O
|
A:CYS53
|
5.0
|
16.9
|
1.0
|
|
Iron binding site 4 out
of 16 in 6sdr
Go back to
Iron Binding Sites List in 6sdr
Iron binding site 4 out
of 16 in the W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_04.jpg) Mono view
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_04_stereo.jpg) Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe1103
b:16.9
occ:1.00
|
FE4
|
A:SF41103
|
0.0
|
16.9
|
1.0
|
S1
|
A:SF41103
|
2.3
|
20.9
|
1.0
|
S2
|
A:SF41103
|
2.3
|
17.7
|
1.0
|
S3
|
A:SF41103
|
2.3
|
14.3
|
1.0
|
SG
|
A:CYS88
|
2.3
|
15.7
|
1.0
|
FE1
|
A:SF41103
|
2.7
|
16.9
|
1.0
|
FE3
|
A:SF41103
|
2.7
|
18.9
|
1.0
|
FE2
|
A:SF41103
|
2.8
|
18.4
|
1.0
|
CB
|
A:CYS88
|
3.3
|
18.3
|
1.0
|
S4
|
A:SF41103
|
3.9
|
18.3
|
1.0
|
N
|
A:CYS88
|
3.9
|
19.6
|
1.0
|
CA
|
A:CYS88
|
4.1
|
20.9
|
1.0
|
CD1
|
A:ILE235
|
4.2
|
24.3
|
1.0
|
CD
|
A:PRO234
|
4.2
|
17.1
|
1.0
|
NZ
|
A:LYS90
|
4.4
|
15.8
|
1.0
|
N
|
A:GLY91
|
4.4
|
25.0
|
1.0
|
CG
|
A:PRO234
|
4.5
|
20.6
|
1.0
|
O
|
A:HOH1357
|
4.5
|
15.1
|
1.0
|
C
|
A:CYS88
|
4.7
|
22.5
|
1.0
|
SG
|
A:CYS53
|
4.8
|
18.7
|
1.0
|
SG
|
A:CYS50
|
4.8
|
17.0
|
1.0
|
O
|
A:CYS88
|
4.8
|
18.7
|
1.0
|
CB
|
A:PRO234
|
4.9
|
16.0
|
1.0
|
SG
|
A:CYS57
|
4.9
|
18.0
|
1.0
|
CA
|
A:GLY91
|
4.9
|
29.8
|
1.0
|
CE
|
A:LYS90
|
5.0
|
20.2
|
1.0
|
|
Iron binding site 5 out
of 16 in 6sdr
Go back to
Iron Binding Sites List in 6sdr
Iron binding site 5 out
of 16 in the W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_05.jpg) Mono view
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_05_stereo.jpg) Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 5 of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe301
b:19.7
occ:1.00
|
FE1
|
B:SF4301
|
0.0
|
19.7
|
1.0
|
S3
|
B:SF4301
|
2.3
|
24.3
|
1.0
|
S4
|
B:SF4301
|
2.3
|
24.4
|
1.0
|
S2
|
B:SF4301
|
2.3
|
23.0
|
1.0
|
SG
|
B:CYS157
|
2.3
|
25.5
|
1.0
|
FE2
|
B:SF4301
|
2.7
|
21.5
|
1.0
|
FE4
|
B:SF4301
|
2.7
|
22.2
|
1.0
|
FE3
|
B:SF4301
|
2.8
|
22.1
|
1.0
|
CB
|
B:CYS157
|
3.3
|
22.0
|
1.0
|
OG1
|
B:THR159
|
3.8
|
16.9
|
1.0
|
CA
|
B:CYS157
|
3.8
|
18.3
|
1.0
|
S1
|
B:SF4301
|
3.9
|
18.6
|
1.0
|
CB
|
B:THR161
|
4.0
|
22.7
|
1.0
|
CG
|
B:MET162
|
4.3
|
25.4
|
1.0
|
CD
|
B:PRO158
|
4.3
|
16.1
|
1.0
|
OG1
|
B:THR161
|
4.4
|
26.1
|
1.0
|
CG2
|
B:THR161
|
4.5
|
19.8
|
1.0
|
C
|
B:CYS157
|
4.6
|
22.5
|
1.0
|
SG
|
B:CYS15
|
4.6
|
19.8
|
1.0
|
N
|
B:PRO158
|
4.7
|
18.1
|
1.0
|
SG
|
B:CYS18
|
4.8
|
28.4
|
1.0
|
SG
|
B:CYS12
|
4.9
|
21.5
|
1.0
|
N
|
B:THR159
|
5.0
|
20.5
|
1.0
|
|
Iron binding site 6 out
of 16 in 6sdr
Go back to
Iron Binding Sites List in 6sdr
Iron binding site 6 out
of 16 in the W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_06.jpg) Mono view
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_06_stereo.jpg) Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 6 of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe301
b:21.5
occ:1.00
|
FE2
|
B:SF4301
|
0.0
|
21.5
|
1.0
|
S4
|
B:SF4301
|
2.3
|
24.4
|
1.0
|
SG
|
B:CYS18
|
2.3
|
28.4
|
1.0
|
S3
|
B:SF4301
|
2.3
|
24.3
|
1.0
|
S1
|
B:SF4301
|
2.3
|
18.6
|
1.0
|
FE1
|
B:SF4301
|
2.7
|
19.7
|
1.0
|
FE3
|
B:SF4301
|
2.7
|
22.1
|
1.0
|
FE4
|
B:SF4301
|
2.7
|
22.2
|
1.0
|
CB
|
B:CYS18
|
3.2
|
20.1
|
1.0
|
O
|
B:HOH444
|
3.8
|
21.1
|
1.0
|
N
|
B:CYS18
|
3.8
|
20.9
|
1.0
|
S2
|
B:SF4301
|
3.9
|
23.0
|
1.0
|
CA
|
B:CYS18
|
4.2
|
20.0
|
1.0
|
CG
|
B:PRO71
|
4.4
|
24.9
|
1.0
|
N
|
B:ARG16
|
4.5
|
21.5
|
1.0
|
SG
|
B:CYS15
|
4.6
|
19.8
|
1.0
|
N
|
B:GLY17
|
4.7
|
18.1
|
1.0
|
CA
|
B:ARG16
|
4.7
|
25.3
|
1.0
|
SG
|
B:CYS12
|
4.7
|
21.5
|
1.0
|
SG
|
B:CYS157
|
4.8
|
25.5
|
1.0
|
CB
|
B:PRO71
|
4.8
|
24.2
|
1.0
|
CG2
|
B:VAL53
|
4.9
|
31.3
|
1.0
|
C
|
B:ARG16
|
5.0
|
25.5
|
1.0
|
C
|
B:GLY17
|
5.0
|
25.5
|
1.0
|
|
Iron binding site 7 out
of 16 in 6sdr
Go back to
Iron Binding Sites List in 6sdr
Iron binding site 7 out
of 16 in the W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_07.jpg) Mono view
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_07_stereo.jpg) Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 7 of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe301
b:22.1
occ:1.00
|
FE3
|
B:SF4301
|
0.0
|
22.1
|
1.0
|
S1
|
B:SF4301
|
2.3
|
18.6
|
1.0
|
S2
|
B:SF4301
|
2.3
|
23.0
|
1.0
|
S4
|
B:SF4301
|
2.3
|
24.4
|
1.0
|
SG
|
B:CYS15
|
2.3
|
19.8
|
1.0
|
FE2
|
B:SF4301
|
2.7
|
21.5
|
1.0
|
FE4
|
B:SF4301
|
2.7
|
22.2
|
1.0
|
FE1
|
B:SF4301
|
2.8
|
19.7
|
1.0
|
N
|
B:CYS15
|
3.4
|
27.4
|
1.0
|
CB
|
B:CYS15
|
3.4
|
23.1
|
1.0
|
N
|
B:ARG16
|
3.6
|
21.5
|
1.0
|
CA
|
B:CYS15
|
3.8
|
16.7
|
1.0
|
S3
|
B:SF4301
|
3.9
|
24.3
|
1.0
|
C
|
B:CYS15
|
4.0
|
20.1
|
1.0
|
N
|
B:GLY17
|
4.2
|
18.1
|
1.0
|
C
|
B:ALA14
|
4.4
|
27.1
|
1.0
|
CD
|
B:PRO158
|
4.4
|
16.1
|
1.0
|
OG1
|
B:THR13
|
4.5
|
23.0
|
1.0
|
CA
|
B:ARG16
|
4.5
|
25.3
|
1.0
|
N
|
B:ALA14
|
4.5
|
17.5
|
1.0
|
SG
|
B:CYS12
|
4.7
|
21.5
|
1.0
|
SG
|
B:CYS18
|
4.7
|
28.4
|
1.0
|
CA
|
B:ALA14
|
4.8
|
22.6
|
1.0
|
SG
|
B:CYS157
|
4.8
|
25.5
|
1.0
|
N
|
B:CYS18
|
4.9
|
20.9
|
1.0
|
C
|
B:ARG16
|
4.9
|
25.5
|
1.0
|
N
|
B:THR13
|
5.0
|
20.5
|
1.0
|
|
Iron binding site 8 out
of 16 in 6sdr
Go back to
Iron Binding Sites List in 6sdr
Iron binding site 8 out
of 16 in the W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_08.jpg) Mono view
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_08_stereo.jpg) Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 8 of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe301
b:22.2
occ:1.00
|
FE4
|
B:SF4301
|
0.0
|
22.2
|
1.0
|
S2
|
B:SF4301
|
2.3
|
23.0
|
1.0
|
SG
|
B:CYS12
|
2.3
|
21.5
|
1.0
|
S3
|
B:SF4301
|
2.3
|
24.3
|
1.0
|
S1
|
B:SF4301
|
2.3
|
18.6
|
1.0
|
FE1
|
B:SF4301
|
2.7
|
19.7
|
1.0
|
FE3
|
B:SF4301
|
2.7
|
22.1
|
1.0
|
FE2
|
B:SF4301
|
2.7
|
21.5
|
1.0
|
CB
|
B:CYS12
|
3.4
|
21.7
|
1.0
|
CA
|
B:CYS12
|
3.8
|
19.1
|
1.0
|
S4
|
B:SF4301
|
3.9
|
24.4
|
1.0
|
N
|
B:ALA14
|
4.0
|
17.5
|
1.0
|
N
|
B:THR13
|
4.1
|
20.5
|
1.0
|
C
|
B:CYS12
|
4.4
|
20.1
|
1.0
|
CG
|
B:PRO71
|
4.4
|
24.9
|
1.0
|
OG1
|
B:THR161
|
4.4
|
26.1
|
1.0
|
CA
|
B:ALA14
|
4.5
|
22.6
|
1.0
|
CG2
|
B:THR161
|
4.5
|
19.8
|
1.0
|
N
|
B:CYS15
|
4.5
|
27.4
|
1.0
|
CB
|
B:THR161
|
4.6
|
22.7
|
1.0
|
SG
|
B:CYS18
|
4.8
|
28.4
|
1.0
|
OG1
|
B:THR159
|
4.8
|
16.9
|
1.0
|
SG
|
B:CYS157
|
4.9
|
25.5
|
1.0
|
C
|
B:THR13
|
5.0
|
19.4
|
1.0
|
C
|
B:ALA14
|
5.0
|
27.1
|
1.0
|
|
Iron binding site 9 out
of 16 in 6sdr
Go back to
Iron Binding Sites List in 6sdr
Iron binding site 9 out
of 16 in the W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_09.jpg) Mono view
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_09_stereo.jpg) Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 9 of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe302
b:41.3
occ:1.00
|
FE1
|
B:SF4302
|
0.0
|
41.3
|
1.0
|
S3
|
B:SF4302
|
2.3
|
39.9
|
1.0
|
S2
|
B:SF4302
|
2.3
|
41.8
|
1.0
|
S4
|
B:SF4302
|
2.3
|
37.0
|
1.0
|
SG
|
B:CYS77
|
2.4
|
47.0
|
1.0
|
FE4
|
B:SF4302
|
2.7
|
41.0
|
1.0
|
FE2
|
B:SF4302
|
2.8
|
40.7
|
1.0
|
FE3
|
B:SF4302
|
2.8
|
40.5
|
1.0
|
CB
|
B:CYS77
|
3.6
|
45.5
|
1.0
|
N
|
B:CYS77
|
3.7
|
42.0
|
1.0
|
S1
|
B:SF4302
|
3.9
|
45.6
|
1.0
|
CA
|
B:CYS77
|
4.2
|
45.0
|
1.0
|
N
|
B:HIS76
|
4.3
|
33.9
|
1.0
|
CB
|
B:PRO80
|
4.5
|
48.9
|
1.0
|
CD2
|
B:TYR123
|
4.6
|
44.1
|
1.0
|
SG
|
B:CYS74
|
4.6
|
36.7
|
1.0
|
SG
|
B:CYS121
|
4.7
|
40.6
|
1.0
|
CA
|
B:HIS76
|
4.7
|
34.9
|
1.0
|
C
|
B:HIS76
|
4.7
|
38.6
|
1.0
|
CB
|
B:ARG75
|
4.7
|
32.7
|
1.0
|
CD
|
B:PRO81
|
4.7
|
43.5
|
1.0
|
CA
|
B:PRO80
|
4.7
|
45.5
|
1.0
|
N
|
B:ARG75
|
4.7
|
37.6
|
1.0
|
SG
|
B:CYS82
|
4.8
|
43.1
|
1.0
|
CE2
|
B:TYR123
|
4.9
|
42.2
|
1.0
|
C
|
B:ARG75
|
4.9
|
40.5
|
1.0
|
|
Iron binding site 10 out
of 16 in 6sdr
Go back to
Iron Binding Sites List in 6sdr
Iron binding site 10 out
of 16 in the W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_10.jpg) Mono view
![](/pictures/FE/pdb/sd/6sdr-FE-sphere_10_stereo.jpg) Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 10 of W-Formate Dehydrogenase From Desulfovibrio Vulgaris - Oxidized Form within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe302
b:40.7
occ:1.00
|
FE2
|
B:SF4302
|
0.0
|
40.7
|
1.0
|
S1
|
B:SF4302
|
2.3
|
45.6
|
1.0
|
S3
|
B:SF4302
|
2.3
|
39.9
|
1.0
|
S4
|
B:SF4302
|
2.3
|
37.0
|
1.0
|
SG
|
B:CYS82
|
2.3
|
43.1
|
1.0
|
FE4
|
B:SF4302
|
2.7
|
41.0
|
1.0
|
FE3
|
B:SF4302
|
2.7
|
40.5
|
1.0
|
FE1
|
B:SF4302
|
2.8
|
41.3
|
1.0
|
CB
|
B:CYS82
|
3.1
|
42.8
|
1.0
|
S2
|
B:SF4302
|
3.9
|
41.8
|
1.0
|
CB
|
B:PRO80
|
4.2
|
48.9
|
1.0
|
N
|
B:CYS82
|
4.2
|
52.5
|
1.0
|
CA
|
B:CYS82
|
4.2
|
53.8
|
1.0
|
CG1
|
B:VAL103
|
4.5
|
42.3
|
1.0
|
CE
|
B:LYS137
|
4.7
|
40.5
|
1.0
|
SG
|
B:CYS74
|
4.7
|
36.7
|
1.0
|
CB
|
B:CYS121
|
4.8
|
43.8
|
1.0
|
SG
|
B:CYS121
|
4.8
|
40.6
|
1.0
|
CA
|
B:PRO80
|
4.8
|
45.5
|
1.0
|
SG
|
B:CYS77
|
4.9
|
47.0
|
1.0
|
CD
|
B:LYS137
|
5.0
|
49.8
|
1.0
|
CZ
|
B:PHE105
|
5.0
|
47.4
|
1.0
|
|
Reference:
A.R.Oliveira,
C.Mota,
C.Mourato,
R.M.Domingos,
M.F.A.Santos,
D.Gesto,
B.Guigliarelli,
T.Santos-Silva,
M.J.Romao,
I.C.Pereira.
Towards the Mechanistic Understanding of Enzymatic CO2 Reduction Acs Catalysis 2020.
ISSN: ESSN 2155-5435
DOI: 10.1021/ACSCATAL.0C00086
Page generated: Wed Aug 7 09:41:44 2024
|