Iron in PDB 7qbv: B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Adenosyl-L-Homocysteine Bound.
Protein crystallography data
The structure of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Adenosyl-L-Homocysteine Bound., PDB code: 7qbv
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)
|
49.40 /
2.70
|
Space group
|
P 21 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
155.498,
163,
77.328,
90,
90,
90
|
R / Rfree (%)
|
21.4 /
23.5
|
Other elements in 7qbv:
The structure of B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Adenosyl-L-Homocysteine 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-Adenosyl-L-Homocysteine Bound.
(pdb code 7qbv). 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-Adenosyl-L-Homocysteine Bound., PDB code: 7qbv:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Iron binding site 1 out
of 20 in 7qbv
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Iron Binding Sites List in 7qbv
Iron binding site 1 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Adenosyl-L-Homocysteine 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-Adenosyl-L-Homocysteine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe501
b:43.3
occ:1.00
|
FE1
|
A:SF4501
|
0.0
|
43.3
|
1.0
|
SG
|
A:CYS22
|
2.2
|
46.4
|
1.0
|
S2
|
A:SF4501
|
2.3
|
42.8
|
1.0
|
S4
|
A:SF4501
|
2.3
|
42.8
|
1.0
|
S3
|
A:SF4501
|
2.3
|
42.7
|
1.0
|
FE3
|
A:SF4501
|
2.8
|
42.3
|
1.0
|
FE2
|
A:SF4501
|
2.8
|
42.7
|
1.0
|
FE4
|
A:SF4501
|
2.8
|
42.7
|
1.0
|
CB
|
A:CYS22
|
3.1
|
43.3
|
1.0
|
S1
|
A:SF4501
|
3.9
|
42.6
|
1.0
|
CB
|
A:PRO11
|
4.1
|
49.2
|
1.0
|
OH
|
A:TYR115
|
4.2
|
53.4
|
1.0
|
CA
|
A:CYS22
|
4.2
|
42.7
|
1.0
|
N
|
A:GLY12
|
4.6
|
46.0
|
1.0
|
CD1
|
A:PHE18
|
4.7
|
44.8
|
1.0
|
SG
|
A:CYS15
|
4.8
|
44.3
|
1.0
|
SG
|
A:CYS19
|
4.8
|
43.5
|
1.0
|
CA
|
A:PRO11
|
4.8
|
48.2
|
1.0
|
N
|
A:CYS19
|
4.9
|
42.2
|
1.0
|
CB
|
A:CYS19
|
5.0
|
42.3
|
1.0
|
|
Iron binding site 2 out
of 20 in 7qbv
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Iron Binding Sites List in 7qbv
Iron binding site 2 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Adenosyl-L-Homocysteine 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-Adenosyl-L-Homocysteine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe501
b:42.7
occ:1.00
|
FE2
|
A:SF4501
|
0.0
|
42.7
|
1.0
|
SG
|
A:CYS19
|
2.3
|
43.5
|
1.0
|
S3
|
A:SF4501
|
2.3
|
42.7
|
1.0
|
S1
|
A:SF4501
|
2.3
|
42.6
|
1.0
|
S4
|
A:SF4501
|
2.3
|
42.8
|
1.0
|
FE4
|
A:SF4501
|
2.8
|
42.7
|
1.0
|
FE1
|
A:SF4501
|
2.8
|
43.3
|
1.0
|
FE3
|
A:SF4501
|
2.8
|
42.3
|
1.0
|
CB
|
A:CYS19
|
3.2
|
42.3
|
1.0
|
O
|
A:HOH606
|
3.8
|
47.5
|
1.0
|
N
|
A:CYS19
|
3.8
|
42.2
|
1.0
|
OH
|
A:TYR115
|
3.9
|
53.4
|
1.0
|
S2
|
A:SF4501
|
3.9
|
42.8
|
1.0
|
NZ
|
A:LYS119
|
4.0
|
59.3
|
1.0
|
CA
|
A:CYS19
|
4.1
|
42.2
|
1.0
|
CE
|
A:LYS119
|
4.3
|
57.4
|
1.0
|
CB
|
A:CYS22
|
4.4
|
43.3
|
1.0
|
SG
|
A:CYS22
|
4.5
|
46.4
|
1.0
|
SG
|
A:CYS15
|
4.9
|
44.3
|
1.0
|
CB
|
A:CYS15
|
4.9
|
43.0
|
1.0
|
OG
|
A:SER117
|
4.9
|
49.4
|
1.0
|
C
|
A:PHE18
|
4.9
|
42.7
|
1.0
|
|
Iron binding site 3 out
of 20 in 7qbv
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Iron Binding Sites List in 7qbv
Iron binding site 3 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Adenosyl-L-Homocysteine 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-Adenosyl-L-Homocysteine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe501
b:42.3
occ:1.00
|
FE3
|
A:SF4501
|
0.0
|
42.3
|
1.0
|
OH
|
A:TYR115
|
1.6
|
53.4
|
1.0
|
S2
|
A:SF4501
|
2.3
|
42.8
|
1.0
|
S4
|
A:SF4501
|
2.3
|
42.8
|
1.0
|
S1
|
A:SF4501
|
2.3
|
42.6
|
1.0
|
CZ
|
A:TYR115
|
2.6
|
52.2
|
1.0
|
FE1
|
A:SF4501
|
2.8
|
43.3
|
1.0
|
FE4
|
A:SF4501
|
2.8
|
42.7
|
1.0
|
FE2
|
A:SF4501
|
2.8
|
42.7
|
1.0
|
CE2
|
A:TYR115
|
3.0
|
51.2
|
1.0
|
O
|
A:HOH606
|
3.4
|
47.5
|
1.0
|
CE1
|
A:TYR115
|
3.9
|
51.4
|
1.0
|
S3
|
A:SF4501
|
3.9
|
42.7
|
1.0
|
OG
|
A:SER117
|
4.3
|
49.4
|
1.0
|
C5'
|
A:SAH503
|
4.4
|
51.0
|
0.9
|
CD2
|
A:TYR115
|
4.4
|
50.1
|
1.0
|
CG
|
A:SAH503
|
4.6
|
53.5
|
0.9
|
C3'
|
A:SAH503
|
4.7
|
49.0
|
0.9
|
C2'
|
A:SAH503
|
4.7
|
48.6
|
0.9
|
SG
|
A:CYS15
|
4.7
|
44.3
|
1.0
|
SG
|
A:CYS22
|
4.9
|
46.4
|
1.0
|
SG
|
A:CYS19
|
4.9
|
43.5
|
1.0
|
|
Iron binding site 4 out
of 20 in 7qbv
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Iron Binding Sites List in 7qbv
Iron binding site 4 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Adenosyl-L-Homocysteine 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-Adenosyl-L-Homocysteine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe501
b:42.7
occ:1.00
|
FE4
|
A:SF4501
|
0.0
|
42.7
|
1.0
|
SG
|
A:CYS15
|
2.3
|
44.3
|
1.0
|
S1
|
A:SF4501
|
2.3
|
42.6
|
1.0
|
S3
|
A:SF4501
|
2.3
|
42.7
|
1.0
|
S2
|
A:SF4501
|
2.3
|
42.8
|
1.0
|
FE2
|
A:SF4501
|
2.8
|
42.7
|
1.0
|
FE1
|
A:SF4501
|
2.8
|
43.3
|
1.0
|
FE3
|
A:SF4501
|
2.8
|
42.3
|
1.0
|
CB
|
A:CYS15
|
3.1
|
43.0
|
1.0
|
N
|
A:GLY12
|
3.8
|
46.0
|
1.0
|
S4
|
A:SF4501
|
3.9
|
42.8
|
1.0
|
OH
|
A:TYR115
|
4.2
|
53.4
|
1.0
|
CA
|
A:PRO11
|
4.3
|
48.2
|
1.0
|
N
|
A:ASP90
|
4.5
|
50.2
|
1.0
|
CB
|
A:PRO11
|
4.5
|
49.2
|
1.0
|
CA
|
A:CYS15
|
4.5
|
43.0
|
1.0
|
CE2
|
A:TYR115
|
4.5
|
51.2
|
1.0
|
C
|
A:PRO11
|
4.6
|
47.1
|
1.0
|
CA
|
A:GLY12
|
4.6
|
45.8
|
1.0
|
NZ
|
A:LYS119
|
4.7
|
59.3
|
1.0
|
SG
|
A:CYS19
|
4.8
|
43.5
|
1.0
|
CE
|
A:LYS119
|
4.8
|
57.4
|
1.0
|
CA
|
A:GLY89
|
4.8
|
51.5
|
1.0
|
SG
|
A:CYS22
|
4.8
|
46.4
|
1.0
|
CZ
|
A:TYR115
|
4.9
|
52.2
|
1.0
|
CB
|
A:ASP90
|
4.9
|
50.2
|
1.0
|
O
|
A:GLY17
|
5.0
|
43.8
|
1.0
|
|
Iron binding site 5 out
of 20 in 7qbv
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Iron Binding Sites List in 7qbv
Iron binding site 5 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Adenosyl-L-Homocysteine 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-Adenosyl-L-Homocysteine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe502
b:42.8
occ:1.00
|
SG
|
A:CYS35
|
2.3
|
57.0
|
1.0
|
SG
|
A:CYS45
|
2.3
|
56.8
|
1.0
|
SG
|
A:CYS38
|
2.3
|
54.6
|
1.0
|
SG
|
A:CYS48
|
2.4
|
63.1
|
1.0
|
CB
|
A:CYS48
|
3.3
|
59.8
|
1.0
|
CB
|
A:CYS35
|
3.4
|
54.1
|
1.0
|
N
|
A:CYS35
|
3.5
|
54.2
|
1.0
|
CB
|
A:CYS45
|
3.5
|
55.8
|
1.0
|
N
|
A:CYS38
|
3.5
|
52.5
|
1.0
|
CB
|
A:CYS38
|
3.6
|
53.4
|
1.0
|
N
|
A:CYS45
|
3.7
|
56.0
|
1.0
|
CA
|
A:CYS38
|
3.7
|
53.3
|
1.0
|
CA
|
A:CYS35
|
3.9
|
53.6
|
1.0
|
N
|
A:CYS48
|
3.9
|
57.8
|
1.0
|
CA
|
A:CYS45
|
4.1
|
55.9
|
1.0
|
C
|
A:GLY34
|
4.1
|
55.1
|
1.0
|
CA
|
A:CYS48
|
4.2
|
59.1
|
1.0
|
O
|
A:CYS35
|
4.2
|
53.3
|
1.0
|
C
|
A:TYR37
|
4.3
|
52.0
|
1.0
|
C
|
A:CYS35
|
4.3
|
52.9
|
1.0
|
C
|
A:GLY44
|
4.3
|
56.7
|
1.0
|
CA
|
A:GLY34
|
4.4
|
56.2
|
1.0
|
CA
|
A:GLY44
|
4.6
|
57.3
|
1.0
|
C
|
A:CYS45
|
4.6
|
56.5
|
1.0
|
O
|
A:CYS45
|
4.7
|
56.9
|
1.0
|
N
|
A:TYR37
|
4.7
|
51.1
|
1.0
|
CB
|
A:TYR47
|
4.8
|
55.3
|
1.0
|
N
|
A:GLY34
|
4.8
|
57.0
|
1.0
|
CA
|
A:TYR37
|
4.8
|
51.4
|
1.0
|
N
|
A:GLY44
|
4.8
|
57.5
|
1.0
|
CB
|
A:TYR37
|
4.8
|
50.9
|
1.0
|
O
|
A:GLY34
|
4.9
|
55.0
|
1.0
|
C
|
A:TYR47
|
4.9
|
56.8
|
1.0
|
O
|
A:TYR37
|
5.0
|
51.9
|
1.0
|
|
Iron binding site 6 out
of 20 in 7qbv
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Iron Binding Sites List in 7qbv
Iron binding site 6 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Adenosyl-L-Homocysteine 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-Adenosyl-L-Homocysteine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe501
b:40.7
occ:1.00
|
FE1
|
B:SF4501
|
0.0
|
40.7
|
1.0
|
SG
|
B:CYS22
|
2.2
|
43.0
|
1.0
|
S3
|
B:SF4501
|
2.3
|
40.6
|
1.0
|
S4
|
B:SF4501
|
2.3
|
40.6
|
1.0
|
S2
|
B:SF4501
|
2.3
|
40.5
|
1.0
|
FE2
|
B:SF4501
|
2.7
|
40.8
|
1.0
|
FE3
|
B:SF4501
|
2.8
|
40.6
|
1.0
|
FE4
|
B:SF4501
|
2.8
|
40.6
|
1.0
|
CB
|
B:CYS22
|
3.0
|
41.6
|
1.0
|
S1
|
B:SF4501
|
3.9
|
40.6
|
1.0
|
CA
|
B:CYS22
|
4.1
|
41.3
|
1.0
|
CB
|
B:PRO11
|
4.2
|
42.5
|
1.0
|
OH
|
B:TYR115
|
4.3
|
45.7
|
1.0
|
CD1
|
B:PHE18
|
4.6
|
40.6
|
1.0
|
N
|
B:GLY12
|
4.6
|
40.2
|
1.0
|
N
|
B:CYS19
|
4.7
|
39.5
|
1.0
|
SG
|
B:CYS19
|
4.7
|
43.2
|
1.0
|
CB
|
B:CYS19
|
4.7
|
40.2
|
1.0
|
SG
|
B:CYS15
|
4.7
|
40.6
|
1.0
|
CA
|
B:PRO11
|
4.9
|
41.7
|
1.0
|
CD2
|
B:PHE24
|
4.9
|
47.4
|
1.0
|
CE1
|
B:PHE18
|
5.0
|
41.1
|
1.0
|
|
Iron binding site 7 out
of 20 in 7qbv
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Iron Binding Sites List in 7qbv
Iron binding site 7 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Adenosyl-L-Homocysteine 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-Adenosyl-L-Homocysteine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe501
b:40.8
occ:1.00
|
FE2
|
B:SF4501
|
0.0
|
40.8
|
1.0
|
SG
|
B:CYS19
|
2.3
|
43.2
|
1.0
|
S4
|
B:SF4501
|
2.3
|
40.6
|
1.0
|
S3
|
B:SF4501
|
2.3
|
40.6
|
1.0
|
S1
|
B:SF4501
|
2.3
|
40.6
|
1.0
|
FE1
|
B:SF4501
|
2.7
|
40.7
|
1.0
|
FE3
|
B:SF4501
|
2.8
|
40.6
|
1.0
|
FE4
|
B:SF4501
|
2.8
|
40.6
|
1.0
|
CB
|
B:CYS19
|
3.2
|
40.2
|
1.0
|
N
|
B:CYS19
|
3.8
|
39.5
|
1.0
|
NZ
|
B:LYS119
|
3.8
|
55.3
|
1.0
|
S2
|
B:SF4501
|
3.9
|
40.5
|
1.0
|
O
|
B:HOH605
|
3.9
|
36.2
|
1.0
|
OH
|
B:TYR115
|
4.0
|
45.7
|
1.0
|
CA
|
B:CYS19
|
4.1
|
39.8
|
1.0
|
CE
|
B:LYS119
|
4.1
|
53.6
|
1.0
|
CB
|
B:CYS22
|
4.4
|
41.6
|
1.0
|
SG
|
B:CYS22
|
4.6
|
43.0
|
1.0
|
SG
|
B:CYS15
|
4.8
|
40.6
|
1.0
|
CB
|
B:CYS15
|
4.8
|
39.4
|
1.0
|
C
|
B:PHE18
|
4.9
|
39.7
|
1.0
|
OG
|
B:SER117
|
4.9
|
42.9
|
1.0
|
|
Iron binding site 8 out
of 20 in 7qbv
Go back to
Iron Binding Sites List in 7qbv
Iron binding site 8 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Adenosyl-L-Homocysteine 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-Adenosyl-L-Homocysteine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe501
b:40.6
occ:1.00
|
FE3
|
B:SF4501
|
0.0
|
40.6
|
1.0
|
OH
|
B:TYR115
|
1.6
|
45.7
|
1.0
|
S1
|
B:SF4501
|
2.3
|
40.6
|
1.0
|
S2
|
B:SF4501
|
2.3
|
40.5
|
1.0
|
S4
|
B:SF4501
|
2.3
|
40.6
|
1.0
|
CZ
|
B:TYR115
|
2.7
|
44.3
|
1.0
|
FE4
|
B:SF4501
|
2.8
|
40.6
|
1.0
|
FE1
|
B:SF4501
|
2.8
|
40.7
|
1.0
|
FE2
|
B:SF4501
|
2.8
|
40.8
|
1.0
|
O
|
B:HOH605
|
3.2
|
36.2
|
1.0
|
CE2
|
B:TYR115
|
3.2
|
43.5
|
1.0
|
S3
|
B:SF4501
|
3.9
|
40.6
|
1.0
|
CE1
|
B:TYR115
|
3.9
|
43.2
|
1.0
|
OG
|
B:SER117
|
4.3
|
42.9
|
1.0
|
C5'
|
B:SAH503
|
4.3
|
49.7
|
0.9
|
C2'
|
B:SAH503
|
4.5
|
48.1
|
0.9
|
CD2
|
B:TYR115
|
4.6
|
42.6
|
1.0
|
CG
|
B:SAH503
|
4.6
|
51.4
|
0.9
|
C3'
|
B:SAH503
|
4.7
|
48.7
|
0.9
|
SG
|
B:CYS19
|
4.7
|
43.2
|
1.0
|
SG
|
B:CYS22
|
4.8
|
43.0
|
1.0
|
SG
|
B:CYS15
|
4.8
|
40.6
|
1.0
|
|
Iron binding site 9 out
of 20 in 7qbv
Go back to
Iron Binding Sites List in 7qbv
Iron binding site 9 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Adenosyl-L-Homocysteine 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-Adenosyl-L-Homocysteine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe501
b:40.6
occ:1.00
|
FE4
|
B:SF4501
|
0.0
|
40.6
|
1.0
|
SG
|
B:CYS15
|
2.3
|
40.6
|
1.0
|
S1
|
B:SF4501
|
2.3
|
40.6
|
1.0
|
S2
|
B:SF4501
|
2.3
|
40.5
|
1.0
|
S3
|
B:SF4501
|
2.3
|
40.6
|
1.0
|
FE3
|
B:SF4501
|
2.8
|
40.6
|
1.0
|
FE1
|
B:SF4501
|
2.8
|
40.7
|
1.0
|
FE2
|
B:SF4501
|
2.8
|
40.8
|
1.0
|
CB
|
B:CYS15
|
3.1
|
39.4
|
1.0
|
N
|
B:GLY12
|
3.9
|
40.2
|
1.0
|
S4
|
B:SF4501
|
3.9
|
40.6
|
1.0
|
OH
|
B:TYR115
|
4.1
|
45.7
|
1.0
|
N
|
B:ASP90
|
4.4
|
43.8
|
1.0
|
CE2
|
B:TYR115
|
4.4
|
43.5
|
1.0
|
CA
|
B:PRO11
|
4.4
|
41.7
|
1.0
|
CB
|
B:PRO11
|
4.5
|
42.5
|
1.0
|
CA
|
B:CYS15
|
4.6
|
39.6
|
1.0
|
C
|
B:PRO11
|
4.7
|
41.5
|
1.0
|
NZ
|
B:LYS119
|
4.7
|
55.3
|
1.0
|
CA
|
B:GLY89
|
4.7
|
44.9
|
1.0
|
CZ
|
B:TYR115
|
4.7
|
44.3
|
1.0
|
CA
|
B:GLY12
|
4.7
|
40.0
|
1.0
|
CE
|
B:LYS119
|
4.8
|
53.6
|
1.0
|
CB
|
B:ASP90
|
4.8
|
44.1
|
1.0
|
SG
|
B:CYS22
|
4.8
|
43.0
|
1.0
|
C
|
B:GLY89
|
4.9
|
44.9
|
1.0
|
SG
|
B:CYS19
|
4.9
|
43.2
|
1.0
|
|
Iron binding site 10 out
of 20 in 7qbv
Go back to
Iron Binding Sites List in 7qbv
Iron binding site 10 out
of 20 in the B12-Dependent Radical Sam Methyltransferase, MMP10 with [4FE-4S] Cluster, Cobalamin, and S-Adenosyl-L-Homocysteine 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-Adenosyl-L-Homocysteine Bound. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe502
b:47.3
occ:1.00
|
SG
|
B:CYS38
|
2.2
|
52.9
|
1.0
|
SG
|
B:CYS45
|
2.3
|
56.8
|
1.0
|
SG
|
B:CYS35
|
2.3
|
53.3
|
1.0
|
SG
|
B:CYS48
|
2.5
|
58.8
|
1.0
|
N
|
B:CYS38
|
3.4
|
52.1
|
1.0
|
CB
|
B:CYS38
|
3.4
|
52.1
|
1.0
|
CB
|
B:CYS48
|
3.4
|
56.5
|
1.0
|
N
|
B:CYS35
|
3.5
|
52.0
|
1.0
|
CB
|
B:CYS45
|
3.5
|
54.7
|
1.0
|
CB
|
B:CYS35
|
3.5
|
51.8
|
1.0
|
CA
|
B:CYS38
|
3.6
|
52.2
|
1.0
|
N
|
B:CYS45
|
3.8
|
54.9
|
1.0
|
CA
|
B:CYS35
|
3.9
|
51.7
|
1.0
|
N
|
B:CYS48
|
4.0
|
54.8
|
1.0
|
C
|
B:TYR37
|
4.1
|
52.5
|
1.0
|
C
|
B:GLY34
|
4.1
|
52.8
|
1.0
|
CA
|
B:CYS45
|
4.2
|
54.8
|
1.0
|
O
|
B:CYS35
|
4.2
|
52.2
|
1.0
|
C
|
B:CYS35
|
4.3
|
51.8
|
1.0
|
CA
|
B:CYS48
|
4.3
|
55.9
|
1.0
|
C
|
B:GLY44
|
4.3
|
55.6
|
1.0
|
CA
|
B:GLY34
|
4.5
|
53.6
|
1.0
|
N
|
B:TYR37
|
4.6
|
51.5
|
1.0
|
CA
|
B:GLY44
|
4.7
|
56.0
|
1.0
|
CA
|
B:TYR37
|
4.7
|
52.1
|
1.0
|
C
|
B:CYS45
|
4.7
|
55.3
|
1.0
|
O
|
B:CYS45
|
4.8
|
55.5
|
1.0
|
CB
|
B:TYR37
|
4.8
|
52.2
|
1.0
|
N
|
B:GLY44
|
4.8
|
56.3
|
1.0
|
CB
|
B:TYR47
|
4.8
|
53.3
|
1.0
|
N
|
B:GLY34
|
4.8
|
54.3
|
1.0
|
O
|
B:TYR37
|
4.8
|
53.0
|
1.0
|
O
|
B:GLY34
|
4.9
|
53.0
|
1.0
|
C
|
B:TYR47
|
5.0
|
54.3
|
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 18:12:47 2024
|