Iron in PDB 7qbt: B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound.
Protein crystallography data
The structure of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound., PDB code: 7qbt
was solved by
C.D.Fyfe,
L.M.G.Chavas,
P.Legrand,
A.Benjdia,
O.Berteau,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
44.71 /
1.90
|
Space group
|
P 21 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
156.064,
163.915,
77.805,
90,
90,
90
|
R / Rfree (%)
|
20.3 /
22.9
|
Other elements in 7qbt:
The structure of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound. also contains other interesting chemical elements:
Iron Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
20;
Binding sites:
The binding sites of Iron atom in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound.
(pdb code 7qbt). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 20 binding sites of Iron where determined in the
B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound., PDB code: 7qbt:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Iron binding site 1 out
of 20 in 7qbt
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Iron Binding Sites List in 7qbt
Iron binding site 1 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound.
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe501
b:26.8
occ:1.00
|
FE1
|
A:SF4501
|
0.0
|
26.8
|
1.0
|
S4
|
A:SF4501
|
2.3
|
29.0
|
1.0
|
SG
|
A:CYS22
|
2.3
|
26.2
|
1.0
|
S2
|
A:SF4501
|
2.4
|
27.8
|
1.0
|
S3
|
A:SF4501
|
2.4
|
27.9
|
1.0
|
FE2
|
A:SF4501
|
2.8
|
28.2
|
1.0
|
FE3
|
A:SF4501
|
2.8
|
29.1
|
1.0
|
FE4
|
A:SF4501
|
2.8
|
27.4
|
1.0
|
CB
|
A:CYS22
|
3.0
|
26.3
|
1.0
|
S1
|
A:SF4501
|
4.0
|
29.3
|
1.0
|
CS
|
A:MTA503
|
4.0
|
42.9
|
1.0
|
CA
|
A:CYS22
|
4.1
|
27.0
|
1.0
|
CB
|
A:PRO11
|
4.3
|
28.5
|
1.0
|
OH
|
A:TYR115
|
4.4
|
35.0
|
1.0
|
S5'
|
A:MTA503
|
4.5
|
43.3
|
1.0
|
N
|
A:GLY12
|
4.7
|
27.1
|
1.0
|
CD1
|
A:PHE18
|
4.8
|
30.9
|
1.0
|
SG
|
A:CYS19
|
4.8
|
29.1
|
1.0
|
N
|
A:CYS19
|
4.8
|
29.8
|
1.0
|
SG
|
A:CYS15
|
4.9
|
26.4
|
1.0
|
CB
|
A:CYS19
|
4.9
|
29.0
|
1.0
|
CA
|
A:PRO11
|
4.9
|
27.6
|
1.0
|
|
Iron binding site 2 out
of 20 in 7qbt
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Iron Binding Sites List in 7qbt
Iron binding site 2 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound.
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe501
b:28.2
occ:1.00
|
FE2
|
A:SF4501
|
0.0
|
28.2
|
1.0
|
SG
|
A:CYS19
|
2.2
|
29.1
|
1.0
|
S3
|
A:SF4501
|
2.3
|
27.9
|
1.0
|
S1
|
A:SF4501
|
2.3
|
29.3
|
1.0
|
S4
|
A:SF4501
|
2.3
|
29.0
|
1.0
|
FE3
|
A:SF4501
|
2.8
|
29.1
|
1.0
|
FE1
|
A:SF4501
|
2.8
|
26.8
|
1.0
|
FE4
|
A:SF4501
|
2.8
|
27.4
|
1.0
|
CB
|
A:CYS19
|
3.2
|
29.0
|
1.0
|
N
|
A:CYS19
|
3.8
|
29.8
|
1.0
|
O
|
A:HOH736
|
3.9
|
59.0
|
1.0
|
S2
|
A:SF4501
|
3.9
|
27.8
|
1.0
|
NZ
|
A:LYS119
|
4.0
|
38.1
|
1.0
|
CA
|
A:CYS19
|
4.1
|
29.1
|
1.0
|
CE
|
A:LYS119
|
4.2
|
38.3
|
1.0
|
OH
|
A:TYR115
|
4.2
|
35.0
|
1.0
|
CB
|
A:CYS22
|
4.4
|
26.3
|
1.0
|
SG
|
A:CYS22
|
4.7
|
26.2
|
1.0
|
CB
|
A:CYS15
|
4.9
|
25.8
|
1.0
|
C
|
A:PHE18
|
4.9
|
30.3
|
1.0
|
SG
|
A:CYS15
|
4.9
|
26.4
|
1.0
|
|
Iron binding site 3 out
of 20 in 7qbt
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Iron Binding Sites List in 7qbt
Iron binding site 3 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound.
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe501
b:29.1
occ:1.00
|
FE3
|
A:SF4501
|
0.0
|
29.1
|
1.0
|
OH
|
A:TYR115
|
1.8
|
35.0
|
1.0
|
S2
|
A:SF4501
|
2.3
|
27.8
|
1.0
|
S1
|
A:SF4501
|
2.3
|
29.3
|
1.0
|
S4
|
A:SF4501
|
2.3
|
29.0
|
1.0
|
FE4
|
A:SF4501
|
2.7
|
27.4
|
1.0
|
FE2
|
A:SF4501
|
2.8
|
28.2
|
1.0
|
FE1
|
A:SF4501
|
2.8
|
26.8
|
1.0
|
CZ
|
A:TYR115
|
2.8
|
34.5
|
1.0
|
CE2
|
A:TYR115
|
3.2
|
33.2
|
1.0
|
O
|
A:HOH736
|
3.4
|
59.0
|
1.0
|
S5'
|
A:MTA503
|
3.7
|
43.3
|
1.0
|
S3
|
A:SF4501
|
3.9
|
27.9
|
1.0
|
CE1
|
A:TYR115
|
4.1
|
34.1
|
1.0
|
OG
|
A:SER117
|
4.3
|
29.6
|
1.0
|
CS
|
A:MTA503
|
4.4
|
42.9
|
1.0
|
C2'
|
A:MTA503
|
4.5
|
36.2
|
1.0
|
CD2
|
A:TYR115
|
4.6
|
31.9
|
1.0
|
SG
|
A:CYS19
|
4.7
|
29.1
|
1.0
|
O2'
|
A:MTA503
|
4.8
|
38.2
|
1.0
|
SG
|
A:CYS15
|
4.8
|
26.4
|
1.0
|
C3'
|
A:MTA503
|
4.9
|
36.8
|
1.0
|
O
|
A:HOH708
|
5.0
|
47.4
|
1.0
|
SG
|
A:CYS22
|
5.0
|
26.2
|
1.0
|
|
Iron binding site 4 out
of 20 in 7qbt
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Iron Binding Sites List in 7qbt
Iron binding site 4 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound.
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe501
b:27.4
occ:1.00
|
FE4
|
A:SF4501
|
0.0
|
27.4
|
1.0
|
S1
|
A:SF4501
|
2.3
|
29.3
|
1.0
|
SG
|
A:CYS15
|
2.3
|
26.4
|
1.0
|
S2
|
A:SF4501
|
2.3
|
27.8
|
1.0
|
S3
|
A:SF4501
|
2.4
|
27.9
|
1.0
|
FE3
|
A:SF4501
|
2.7
|
29.1
|
1.0
|
FE2
|
A:SF4501
|
2.8
|
28.2
|
1.0
|
FE1
|
A:SF4501
|
2.8
|
26.8
|
1.0
|
CB
|
A:CYS15
|
3.1
|
25.8
|
1.0
|
N
|
A:GLY12
|
3.9
|
27.1
|
1.0
|
S4
|
A:SF4501
|
4.0
|
29.0
|
1.0
|
N
|
A:ASP90
|
4.3
|
27.2
|
1.0
|
OH
|
A:TYR115
|
4.3
|
35.0
|
1.0
|
CA
|
A:PRO11
|
4.5
|
27.6
|
1.0
|
CA
|
A:CYS15
|
4.6
|
28.0
|
1.0
|
CE2
|
A:TYR115
|
4.6
|
33.2
|
1.0
|
CA
|
A:GLY89
|
4.7
|
30.6
|
1.0
|
CB
|
A:ASP90
|
4.7
|
24.8
|
1.0
|
C
|
A:PRO11
|
4.7
|
27.2
|
1.0
|
CB
|
A:PRO11
|
4.7
|
28.5
|
1.0
|
CA
|
A:GLY12
|
4.8
|
27.8
|
1.0
|
CE
|
A:LYS119
|
4.8
|
38.3
|
1.0
|
SG
|
A:CYS19
|
4.8
|
29.1
|
1.0
|
NZ
|
A:LYS119
|
4.8
|
38.1
|
1.0
|
C
|
A:GLY89
|
4.9
|
29.7
|
1.0
|
CZ
|
A:TYR115
|
4.9
|
34.5
|
1.0
|
SG
|
A:CYS22
|
5.0
|
26.2
|
1.0
|
|
Iron binding site 5 out
of 20 in 7qbt
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Iron Binding Sites List in 7qbt
Iron binding site 5 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound.
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 5 of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe502
b:32.5
occ:1.00
|
SG
|
A:CYS35
|
2.3
|
32.3
|
1.0
|
SG
|
A:CYS38
|
2.3
|
34.8
|
1.0
|
SG
|
A:CYS45
|
2.3
|
38.5
|
1.0
|
SG
|
A:CYS48
|
2.4
|
35.7
|
1.0
|
CB
|
A:CYS48
|
3.4
|
35.8
|
1.0
|
CB
|
A:CYS35
|
3.5
|
31.9
|
1.0
|
CB
|
A:CYS45
|
3.5
|
38.5
|
1.0
|
N
|
A:CYS35
|
3.5
|
32.3
|
1.0
|
N
|
A:CYS38
|
3.5
|
33.8
|
1.0
|
CB
|
A:CYS38
|
3.5
|
34.3
|
1.0
|
N
|
A:CYS45
|
3.7
|
39.2
|
1.0
|
CA
|
A:CYS38
|
3.7
|
34.3
|
1.0
|
CA
|
A:CYS35
|
3.9
|
31.9
|
1.0
|
N
|
A:CYS48
|
4.0
|
35.9
|
1.0
|
CA
|
A:CYS45
|
4.1
|
39.2
|
1.0
|
C
|
A:GLY34
|
4.1
|
33.9
|
1.0
|
O
|
A:CYS35
|
4.1
|
31.9
|
1.0
|
C
|
A:GLY44
|
4.2
|
39.7
|
1.0
|
C
|
A:TYR37
|
4.2
|
34.9
|
1.0
|
CA
|
A:CYS48
|
4.3
|
36.4
|
1.0
|
C
|
A:CYS35
|
4.3
|
32.4
|
1.0
|
CA
|
A:GLY34
|
4.4
|
35.2
|
1.0
|
CA
|
A:GLY44
|
4.5
|
40.0
|
1.0
|
C
|
A:CYS45
|
4.6
|
40.4
|
1.0
|
N
|
A:TYR37
|
4.6
|
34.5
|
1.0
|
O
|
A:CYS45
|
4.7
|
40.4
|
1.0
|
N
|
A:GLY44
|
4.7
|
40.6
|
1.0
|
N
|
A:GLY34
|
4.7
|
36.1
|
1.0
|
CA
|
A:TYR37
|
4.8
|
34.8
|
1.0
|
CB
|
A:TYR37
|
4.8
|
34.9
|
1.0
|
CB
|
A:TYR47
|
4.8
|
35.2
|
1.0
|
O
|
A:TYR37
|
4.9
|
35.6
|
1.0
|
O
|
A:GLY44
|
4.9
|
39.9
|
1.0
|
O
|
A:GLY34
|
4.9
|
33.4
|
1.0
|
|
Iron binding site 6 out
of 20 in 7qbt
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Iron Binding Sites List in 7qbt
Iron binding site 6 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound.
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 6 of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe501
b:29.3
occ:1.00
|
FE1
|
B:SF4501
|
0.0
|
29.3
|
1.0
|
SG
|
B:CYS22
|
2.3
|
29.2
|
1.0
|
S2
|
B:SF4501
|
2.3
|
29.9
|
1.0
|
S4
|
B:SF4501
|
2.3
|
29.5
|
1.0
|
S3
|
B:SF4501
|
2.4
|
30.3
|
1.0
|
FE2
|
B:SF4501
|
2.8
|
29.4
|
1.0
|
FE3
|
B:SF4501
|
2.8
|
30.1
|
1.0
|
FE4
|
B:SF4501
|
2.8
|
29.3
|
1.0
|
CB
|
B:CYS22
|
3.1
|
27.2
|
1.0
|
CS
|
B:MTA503
|
3.9
|
44.3
|
1.0
|
S1
|
B:SF4501
|
4.0
|
30.6
|
1.0
|
CA
|
B:CYS22
|
4.2
|
28.1
|
1.0
|
CB
|
B:PRO11
|
4.3
|
32.9
|
1.0
|
OH
|
B:TYR115
|
4.4
|
38.0
|
1.0
|
S5'
|
B:MTA503
|
4.4
|
44.6
|
1.0
|
N
|
B:GLY12
|
4.7
|
32.3
|
1.0
|
CD1
|
B:PHE18
|
4.7
|
33.4
|
1.0
|
SG
|
B:CYS19
|
4.8
|
29.6
|
1.0
|
N
|
B:CYS19
|
4.8
|
30.0
|
1.0
|
CA
|
B:PRO11
|
4.9
|
32.3
|
1.0
|
SG
|
B:CYS15
|
4.9
|
30.3
|
1.0
|
CB
|
B:CYS19
|
4.9
|
29.4
|
1.0
|
|
Iron binding site 7 out
of 20 in 7qbt
Go back to
Iron Binding Sites List in 7qbt
Iron binding site 7 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound.
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 7 of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe501
b:29.4
occ:1.00
|
FE2
|
B:SF4501
|
0.0
|
29.4
|
1.0
|
SG
|
B:CYS19
|
2.3
|
29.6
|
1.0
|
S3
|
B:SF4501
|
2.3
|
30.3
|
1.0
|
S1
|
B:SF4501
|
2.3
|
30.6
|
1.0
|
S4
|
B:SF4501
|
2.3
|
29.5
|
1.0
|
FE4
|
B:SF4501
|
2.8
|
29.3
|
1.0
|
FE3
|
B:SF4501
|
2.8
|
30.1
|
1.0
|
FE1
|
B:SF4501
|
2.8
|
29.3
|
1.0
|
CB
|
B:CYS19
|
3.2
|
29.4
|
1.0
|
O
|
B:HOH631
|
3.4
|
37.2
|
1.0
|
N
|
B:CYS19
|
3.8
|
30.0
|
1.0
|
S2
|
B:SF4501
|
3.9
|
29.9
|
1.0
|
NZ
|
B:LYS119
|
4.0
|
40.6
|
1.0
|
CA
|
B:CYS19
|
4.1
|
29.0
|
1.0
|
OH
|
B:TYR115
|
4.2
|
38.0
|
1.0
|
CE
|
B:LYS119
|
4.3
|
39.8
|
1.0
|
CB
|
B:CYS22
|
4.4
|
27.2
|
1.0
|
SG
|
B:CYS22
|
4.7
|
29.2
|
1.0
|
CB
|
B:CYS15
|
4.8
|
29.8
|
1.0
|
SG
|
B:CYS15
|
4.9
|
30.3
|
1.0
|
C
|
B:PHE18
|
4.9
|
30.9
|
1.0
|
|
Iron binding site 8 out
of 20 in 7qbt
Go back to
Iron Binding Sites List in 7qbt
Iron binding site 8 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound.
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 8 of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe501
b:30.1
occ:1.00
|
FE3
|
B:SF4501
|
0.0
|
30.1
|
1.0
|
OH
|
B:TYR115
|
1.7
|
38.0
|
1.0
|
S2
|
B:SF4501
|
2.3
|
29.9
|
1.0
|
S4
|
B:SF4501
|
2.3
|
29.5
|
1.0
|
S1
|
B:SF4501
|
2.4
|
30.6
|
1.0
|
FE4
|
B:SF4501
|
2.8
|
29.3
|
1.0
|
FE2
|
B:SF4501
|
2.8
|
29.4
|
1.0
|
FE1
|
B:SF4501
|
2.8
|
29.3
|
1.0
|
CZ
|
B:TYR115
|
2.8
|
36.4
|
1.0
|
CE2
|
B:TYR115
|
3.2
|
34.9
|
1.0
|
S5'
|
B:MTA503
|
3.6
|
44.6
|
1.0
|
S3
|
B:SF4501
|
3.9
|
30.3
|
1.0
|
O
|
B:HOH631
|
4.1
|
37.2
|
1.0
|
CE1
|
B:TYR115
|
4.1
|
36.1
|
1.0
|
CS
|
B:MTA503
|
4.3
|
44.3
|
1.0
|
OG
|
B:SER117
|
4.4
|
34.2
|
1.0
|
C2'
|
B:MTA503
|
4.5
|
37.0
|
1.0
|
CD2
|
B:TYR115
|
4.6
|
34.2
|
1.0
|
O2'
|
B:MTA503
|
4.7
|
37.6
|
1.0
|
O
|
B:HOH613
|
4.7
|
61.1
|
1.0
|
C3'
|
B:MTA503
|
4.8
|
37.9
|
1.0
|
SG
|
B:CYS19
|
4.8
|
29.6
|
1.0
|
SG
|
B:CYS15
|
4.8
|
30.3
|
1.0
|
SG
|
B:CYS22
|
4.9
|
29.2
|
1.0
|
|
Iron binding site 9 out
of 20 in 7qbt
Go back to
Iron Binding Sites List in 7qbt
Iron binding site 9 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound.
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 9 of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe501
b:29.3
occ:1.00
|
FE4
|
B:SF4501
|
0.0
|
29.3
|
1.0
|
S1
|
B:SF4501
|
2.3
|
30.6
|
1.0
|
S3
|
B:SF4501
|
2.3
|
30.3
|
1.0
|
S2
|
B:SF4501
|
2.3
|
29.9
|
1.0
|
SG
|
B:CYS15
|
2.3
|
30.3
|
1.0
|
FE3
|
B:SF4501
|
2.8
|
30.1
|
1.0
|
FE2
|
B:SF4501
|
2.8
|
29.4
|
1.0
|
FE1
|
B:SF4501
|
2.8
|
29.3
|
1.0
|
CB
|
B:CYS15
|
3.1
|
29.8
|
1.0
|
N
|
B:GLY12
|
3.9
|
32.3
|
1.0
|
S4
|
B:SF4501
|
4.0
|
29.5
|
1.0
|
OH
|
B:TYR115
|
4.3
|
38.0
|
1.0
|
N
|
B:ASP90
|
4.4
|
29.9
|
1.0
|
CA
|
B:PRO11
|
4.4
|
32.3
|
1.0
|
CA
|
B:CYS15
|
4.6
|
30.4
|
1.0
|
CE2
|
B:TYR115
|
4.6
|
34.9
|
1.0
|
C
|
B:PRO11
|
4.7
|
32.6
|
1.0
|
CA
|
B:GLY12
|
4.7
|
32.5
|
1.0
|
CB
|
B:PRO11
|
4.7
|
32.9
|
1.0
|
CB
|
B:ASP90
|
4.8
|
27.1
|
1.0
|
SG
|
B:CYS19
|
4.8
|
29.6
|
1.0
|
NZ
|
B:LYS119
|
4.8
|
40.6
|
1.0
|
CE
|
B:LYS119
|
4.9
|
39.8
|
1.0
|
CA
|
B:GLY89
|
4.9
|
33.6
|
1.0
|
SG
|
B:CYS22
|
4.9
|
29.2
|
1.0
|
CZ
|
B:TYR115
|
4.9
|
36.4
|
1.0
|
|
Iron binding site 10 out
of 20 in 7qbt
Go back to
Iron Binding Sites List in 7qbt
Iron binding site 10 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound.
Mono view
Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 10 of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Methyl-5'-Thioadenosine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe502
b:46.1
occ:1.00
|
SG
|
B:CYS45
|
2.3
|
52.0
|
1.0
|
SG
|
B:CYS38
|
2.3
|
51.1
|
1.0
|
SG
|
B:CYS35
|
2.3
|
43.9
|
1.0
|
SG
|
B:CYS48
|
2.3
|
50.4
|
1.0
|
CB
|
B:CYS48
|
3.3
|
50.7
|
1.0
|
CB
|
B:CYS45
|
3.4
|
54.3
|
1.0
|
CB
|
B:CYS35
|
3.5
|
45.2
|
1.0
|
N
|
B:CYS35
|
3.5
|
46.9
|
1.0
|
N
|
B:CYS45
|
3.6
|
55.9
|
1.0
|
N
|
B:CYS38
|
3.6
|
54.0
|
1.0
|
CB
|
B:CYS38
|
3.7
|
54.4
|
1.0
|
CA
|
B:CYS38
|
3.8
|
55.8
|
1.0
|
N
|
B:CYS48
|
3.9
|
50.7
|
1.0
|
CA
|
B:CYS35
|
4.0
|
46.4
|
1.0
|
CA
|
B:CYS45
|
4.0
|
54.8
|
1.0
|
C
|
B:GLY34
|
4.1
|
48.5
|
1.0
|
C
|
B:GLY44
|
4.1
|
58.0
|
1.0
|
CA
|
B:CYS48
|
4.2
|
51.1
|
1.0
|
O
|
B:CYS35
|
4.3
|
48.3
|
1.0
|
C
|
B:TYR37
|
4.3
|
53.1
|
1.0
|
C
|
B:CYS35
|
4.4
|
47.7
|
1.0
|
CA
|
B:GLY34
|
4.4
|
49.6
|
1.0
|
CA
|
B:GLY44
|
4.5
|
60.1
|
1.0
|
C
|
B:CYS45
|
4.5
|
54.5
|
1.0
|
O
|
B:CYS45
|
4.5
|
53.8
|
1.0
|
N
|
B:GLY44
|
4.7
|
62.0
|
1.0
|
N
|
B:GLY34
|
4.7
|
50.3
|
1.0
|
N
|
B:TYR37
|
4.7
|
50.8
|
1.0
|
CB
|
B:TYR47
|
4.8
|
50.5
|
1.0
|
CA
|
B:TYR37
|
4.8
|
51.1
|
1.0
|
CB
|
B:TYR37
|
4.9
|
50.1
|
1.0
|
C
|
B:TYR47
|
4.9
|
51.0
|
1.0
|
O
|
B:GLY44
|
4.9
|
58.6
|
1.0
|
O
|
B:GLY34
|
4.9
|
48.5
|
1.0
|
O
|
B:TYR37
|
5.0
|
53.4
|
1.0
|
|
Reference:
C.D.Fyfe,
N.Bernardo-Garcia,
L.Fradale,
S.Grimaldi,
A.Guillot,
C.Brewee,
L.M.G.Chavas,
P.Legrand,
A.Benjdia,
O.Berteau.
Crystallographic Snapshots of A B 12 -Dependent Radical Sam Methyltransferase. Nature V. 602 336 2022.
ISSN: ESSN 1476-4687
PubMed: 35110733
DOI: 10.1038/S41586-021-04355-9
Page generated: Thu Aug 8 18:10:34 2024
|