Mercury in PDB 1o9l: Succinate:Coenzyme-A Transferase (Pig Heart)
Enzymatic activity of Succinate:Coenzyme-A Transferase (Pig Heart)
All present enzymatic activity of Succinate:Coenzyme-A Transferase (Pig Heart):
2.8.3.5;
Protein crystallography data
The structure of Succinate:Coenzyme-A Transferase (Pig Heart), PDB code: 1o9l
was solved by
E.P.Mitchell,
A.J.Lloyd,
G.Lewis,
P.Shoolingin-Jordan,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
29.76 /
2.4
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
74.800,
133.800,
101.900,
90.00,
104.40,
90.00
|
R / Rfree (%)
|
24 /
27
|
Mercury Binding Sites:
The binding sites of Mercury atom in the Succinate:Coenzyme-A Transferase (Pig Heart)
(pdb code 1o9l). This binding sites where shown within
5.0 Angstroms radius around Mercury atom.
In total 9 binding sites of Mercury where determined in the
Succinate:Coenzyme-A Transferase (Pig Heart), PDB code: 1o9l:
Jump to Mercury binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
Mercury binding site 1 out
of 9 in 1o9l
Go back to
Mercury Binding Sites List in 1o9l
Mercury binding site 1 out
of 9 in the Succinate:Coenzyme-A Transferase (Pig Heart)
Mono view
Stereo pair view
|
A full contact list of Mercury with other atoms in the Hg binding
site number 1 of Succinate:Coenzyme-A Transferase (Pig Heart) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Hg9003
b:25.1
occ:0.41
|
HG
|
A:EMC9003
|
0.0
|
25.1
|
0.4
|
C1
|
A:EMC9003
|
2.0
|
23.2
|
0.4
|
SG
|
A:CYS465
|
2.4
|
16.8
|
1.0
|
C2
|
A:EMC9003
|
2.8
|
23.6
|
0.4
|
CB
|
A:CYS465
|
3.2
|
34.5
|
1.0
|
CA
|
A:CYS465
|
3.3
|
40.8
|
1.0
|
O
|
A:GLN464
|
3.6
|
47.6
|
1.0
|
O
|
A:LYS463
|
3.8
|
47.2
|
1.0
|
O
|
A:VAL430
|
3.8
|
35.9
|
1.0
|
N
|
A:CYS465
|
4.0
|
43.5
|
1.0
|
C
|
A:GLN464
|
4.1
|
46.6
|
1.0
|
O
|
A:SER432
|
4.5
|
46.4
|
1.0
|
C
|
A:CYS465
|
4.6
|
43.8
|
1.0
|
O
|
A:SER431
|
4.6
|
42.7
|
1.0
|
CA
|
A:ALA433
|
4.7
|
46.5
|
1.0
|
C
|
A:SER432
|
4.7
|
45.5
|
1.0
|
O
|
A:CYS465
|
4.7
|
45.3
|
1.0
|
N
|
A:ALA433
|
4.8
|
46.1
|
1.0
|
C
|
A:SER431
|
4.9
|
41.8
|
1.0
|
CB
|
A:ALA433
|
4.9
|
45.9
|
1.0
|
C
|
A:LYS463
|
5.0
|
47.4
|
1.0
|
|
Mercury binding site 2 out
of 9 in 1o9l
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Mercury Binding Sites List in 1o9l
Mercury binding site 2 out
of 9 in the Succinate:Coenzyme-A Transferase (Pig Heart)
Mono view
Stereo pair view
|
A full contact list of Mercury with other atoms in the Hg binding
site number 2 of Succinate:Coenzyme-A Transferase (Pig Heart) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Hg9007
b:8.3
occ:0.27
|
HG
|
A:EMT9007
|
0.0
|
8.3
|
0.3
|
C1
|
A:EMT9007
|
2.0
|
5.8
|
0.3
|
SD
|
A:EMT9007
|
2.4
|
13.1
|
0.3
|
C2
|
A:EMT9007
|
2.8
|
7.0
|
0.3
|
CE1
|
A:EMT9007
|
3.2
|
12.2
|
0.3
|
O
|
A:VAL133
|
3.2
|
38.6
|
1.0
|
CG
|
A:LEU135
|
3.5
|
33.1
|
1.0
|
O
|
A:PRO171
|
3.6
|
35.4
|
1.0
|
CD1
|
A:LEU135
|
3.6
|
35.3
|
1.0
|
OD1
|
A:EMT9007
|
3.7
|
11.4
|
0.3
|
CD1
|
A:EMT9007
|
3.8
|
11.8
|
0.3
|
N
|
A:LEU135
|
3.9
|
34.4
|
1.0
|
CB
|
A:LEU135
|
4.0
|
33.5
|
1.0
|
CZ
|
A:EMT9007
|
4.1
|
11.9
|
0.3
|
C
|
A:VAL133
|
4.1
|
36.8
|
1.0
|
CG2
|
A:VAL133
|
4.2
|
34.3
|
1.0
|
CG1
|
A:VAL133
|
4.3
|
36.9
|
1.0
|
OH
|
A:TYR126
|
4.3
|
32.4
|
1.0
|
CG
|
A:EMT9007
|
4.4
|
12.2
|
0.3
|
C
|
A:PRO171
|
4.5
|
37.3
|
1.0
|
CA
|
A:LEU135
|
4.6
|
33.6
|
1.0
|
CB
|
A:VAL133
|
4.7
|
36.3
|
1.0
|
CA
|
A:GLU134
|
4.8
|
35.5
|
1.0
|
CA
|
A:ILE172
|
4.8
|
34.2
|
1.0
|
C
|
A:GLU134
|
4.8
|
35.5
|
1.0
|
CD2
|
A:LEU135
|
4.8
|
33.4
|
1.0
|
CZ
|
A:TYR126
|
4.8
|
31.5
|
1.0
|
N
|
A:GLU134
|
4.8
|
36.0
|
1.0
|
CE1
|
A:TYR126
|
4.9
|
30.2
|
1.0
|
|
Mercury binding site 3 out
of 9 in 1o9l
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Mercury Binding Sites List in 1o9l
Mercury binding site 3 out
of 9 in the Succinate:Coenzyme-A Transferase (Pig Heart)
Mono view
Stereo pair view
|
A full contact list of Mercury with other atoms in the Hg binding
site number 3 of Succinate:Coenzyme-A Transferase (Pig Heart) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Hg9004
b:44.4
occ:0.76
|
HG
|
B:EMC9004
|
0.0
|
44.4
|
0.8
|
C1
|
B:EMC9004
|
2.0
|
42.6
|
0.8
|
SG
|
B:CYS465
|
2.4
|
42.1
|
1.0
|
N
|
B:CYS465
|
2.6
|
52.8
|
1.0
|
C2
|
B:EMC9004
|
2.8
|
45.0
|
0.8
|
CB
|
B:CYS465
|
3.1
|
48.2
|
1.0
|
CA
|
B:CYS465
|
3.4
|
51.0
|
1.0
|
O
|
B:HOH2077
|
3.9
|
24.6
|
1.0
|
OD2
|
B:EMT9008
|
3.9
|
44.9
|
0.7
|
O
|
B:HOH2085
|
4.2
|
46.5
|
1.0
|
CG
|
B:EMT9008
|
4.2
|
45.3
|
0.7
|
CE2
|
B:EMT9008
|
4.2
|
43.3
|
0.7
|
CZ
|
B:EMT9008
|
4.4
|
42.5
|
0.7
|
C
|
B:CYS465
|
4.7
|
52.4
|
1.0
|
OD1
|
B:EMT9008
|
4.9
|
47.7
|
0.7
|
N
|
B:VAL466
|
5.0
|
52.6
|
1.0
|
CD2
|
B:EMT9008
|
5.0
|
42.3
|
0.7
|
|
Mercury binding site 4 out
of 9 in 1o9l
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Mercury Binding Sites List in 1o9l
Mercury binding site 4 out
of 9 in the Succinate:Coenzyme-A Transferase (Pig Heart)
Mono view
Stereo pair view
|
A full contact list of Mercury with other atoms in the Hg binding
site number 4 of Succinate:Coenzyme-A Transferase (Pig Heart) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Hg9008
b:37.5
occ:0.65
|
HG
|
B:EMT9008
|
0.0
|
37.5
|
0.7
|
C1
|
B:EMT9008
|
2.0
|
38.2
|
0.7
|
OD1
|
B:EMT9008
|
2.3
|
47.7
|
0.7
|
SD
|
B:EMT9008
|
2.4
|
32.6
|
0.7
|
C2
|
B:EMT9008
|
2.9
|
37.0
|
0.7
|
CG
|
B:EMT9008
|
3.0
|
45.3
|
0.7
|
CE1
|
B:EMT9008
|
3.2
|
40.1
|
0.7
|
CZ
|
B:EMT9008
|
3.4
|
42.5
|
0.7
|
O
|
B:HOH2086
|
3.9
|
51.0
|
1.0
|
OD2
|
B:EMT9008
|
4.0
|
44.9
|
0.7
|
CG2
|
B:VAL466
|
4.3
|
52.2
|
1.0
|
CD1
|
B:EMT9008
|
4.3
|
41.7
|
0.7
|
CE2
|
B:EMT9008
|
4.7
|
43.3
|
0.7
|
O
|
B:HOH2085
|
4.7
|
46.5
|
1.0
|
O
|
B:HOH2002
|
5.0
|
50.4
|
1.0
|
|
Mercury binding site 5 out
of 9 in 1o9l
Go back to
Mercury Binding Sites List in 1o9l
Mercury binding site 5 out
of 9 in the Succinate:Coenzyme-A Transferase (Pig Heart)
Mono view
Stereo pair view
|
A full contact list of Mercury with other atoms in the Hg binding
site number 5 of Succinate:Coenzyme-A Transferase (Pig Heart) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Hg9005
b:5.8
occ:0.73
|
HG
|
C:EMC9005
|
0.0
|
5.8
|
0.7
|
C1
|
C:EMC9005
|
2.0
|
2.9
|
0.7
|
SG
|
C:CYS465
|
2.4
|
15.4
|
1.0
|
O
|
C:HOH2133
|
2.7
|
49.9
|
1.0
|
C2
|
C:EMC9005
|
2.8
|
2.9
|
0.7
|
CB
|
C:CYS465
|
2.9
|
24.7
|
1.0
|
O
|
C:HOH2013
|
4.3
|
48.2
|
1.0
|
CA
|
C:CYS465
|
4.4
|
36.6
|
1.0
|
N
|
C:CYS465
|
4.9
|
40.3
|
1.0
|
|
Mercury binding site 6 out
of 9 in 1o9l
Go back to
Mercury Binding Sites List in 1o9l
Mercury binding site 6 out
of 9 in the Succinate:Coenzyme-A Transferase (Pig Heart)
Mono view
Stereo pair view
|
A full contact list of Mercury with other atoms in the Hg binding
site number 6 of Succinate:Coenzyme-A Transferase (Pig Heart) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Hg9006
b:70.0
occ:0.37
|
HG
|
C:EMC9006
|
0.0
|
70.0
|
0.4
|
C1
|
C:EMC9006
|
2.0
|
65.6
|
0.4
|
SG
|
C:CYS504
|
2.4
|
69.4
|
1.0
|
C2
|
C:EMC9006
|
2.8
|
65.8
|
0.4
|
CB
|
C:CYS504
|
3.1
|
74.8
|
1.0
|
N
|
C:CYS504
|
3.6
|
75.8
|
1.0
|
CD1
|
C:LEU484
|
3.7
|
65.1
|
1.0
|
CA
|
C:CYS504
|
4.0
|
75.1
|
1.0
|
CG2
|
C:THR502
|
4.0
|
76.9
|
1.0
|
N
|
C:GLY503
|
4.5
|
75.9
|
1.0
|
C
|
C:GLY503
|
4.7
|
75.5
|
1.0
|
C
|
C:CYS504
|
4.9
|
75.8
|
1.0
|
CA
|
C:GLY503
|
4.9
|
75.2
|
1.0
|
O
|
C:CYS504
|
4.9
|
75.6
|
1.0
|
CG
|
C:LEU484
|
5.0
|
66.1
|
1.0
|
|
Mercury binding site 7 out
of 9 in 1o9l
Go back to
Mercury Binding Sites List in 1o9l
Mercury binding site 7 out
of 9 in the Succinate:Coenzyme-A Transferase (Pig Heart)
Mono view
Stereo pair view
|
A full contact list of Mercury with other atoms in the Hg binding
site number 7 of Succinate:Coenzyme-A Transferase (Pig Heart) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Hg9000
b:48.3
occ:0.55
|
HG
|
D:EMC9000
|
0.0
|
48.3
|
0.6
|
C1
|
D:EMC9000
|
2.0
|
47.5
|
0.6
|
O
|
D:ASP505
|
2.1
|
53.9
|
1.0
|
SG
|
D:CYS504
|
2.4
|
48.8
|
1.0
|
C2
|
D:EMC9000
|
2.8
|
46.3
|
0.6
|
CB
|
D:LEU484
|
3.2
|
43.5
|
1.0
|
C
|
D:ASP505
|
3.2
|
53.2
|
1.0
|
CD1
|
D:LEU484
|
3.2
|
44.1
|
1.0
|
CG
|
D:LEU484
|
3.4
|
43.1
|
1.0
|
CB
|
D:CYS504
|
3.5
|
51.2
|
1.0
|
N
|
D:LEU484
|
3.6
|
44.7
|
1.0
|
CA
|
D:PHE506
|
3.7
|
48.9
|
1.0
|
CB
|
D:LYS406
|
3.7
|
36.2
|
1.0
|
N
|
D:PHE506
|
3.9
|
51.3
|
1.0
|
CB
|
D:PHE506
|
3.9
|
46.2
|
1.0
|
CA
|
D:LEU484
|
3.9
|
44.0
|
1.0
|
N
|
D:ASP505
|
3.9
|
54.2
|
1.0
|
CA
|
D:ASP505
|
4.3
|
54.1
|
1.0
|
O
|
D:LEU484
|
4.4
|
43.0
|
1.0
|
C
|
D:CYS504
|
4.5
|
53.4
|
1.0
|
CA
|
D:LYS406
|
4.5
|
34.9
|
1.0
|
C
|
D:LEU484
|
4.6
|
43.5
|
1.0
|
CD
|
D:LYS406
|
4.6
|
41.9
|
1.0
|
CA
|
D:CYS504
|
4.6
|
53.4
|
1.0
|
C
|
D:GLY483
|
4.7
|
45.5
|
1.0
|
CG
|
D:LYS406
|
4.8
|
39.7
|
1.0
|
CD2
|
D:LEU484
|
4.9
|
41.8
|
1.0
|
CB
|
D:ASP505
|
4.9
|
56.3
|
1.0
|
C
|
D:PHE506
|
5.0
|
47.5
|
1.0
|
CA
|
D:GLY483
|
5.0
|
46.7
|
1.0
|
|
Mercury binding site 8 out
of 9 in 1o9l
Go back to
Mercury Binding Sites List in 1o9l
Mercury binding site 8 out
of 9 in the Succinate:Coenzyme-A Transferase (Pig Heart)
Mono view
Stereo pair view
|
A full contact list of Mercury with other atoms in the Hg binding
site number 8 of Succinate:Coenzyme-A Transferase (Pig Heart) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Hg9001
b:11.7
occ:0.71
|
HG
|
D:EMC9001
|
0.0
|
11.7
|
0.7
|
C1
|
D:EMC9001
|
1.9
|
2.9
|
0.7
|
SG
|
D:CYS465
|
2.3
|
28.3
|
1.0
|
C2
|
D:EMC9001
|
2.6
|
2.9
|
0.7
|
CG2
|
D:VAL430
|
2.8
|
32.0
|
1.0
|
O
|
D:VAL430
|
3.2
|
30.4
|
1.0
|
O
|
D:HOH2058
|
3.2
|
26.7
|
1.0
|
CB
|
D:CYS465
|
3.2
|
22.9
|
1.0
|
CA
|
D:GLY462
|
3.2
|
28.2
|
1.0
|
CB
|
D:VAL430
|
3.5
|
32.9
|
1.0
|
C
|
D:GLY462
|
3.6
|
29.2
|
1.0
|
N
|
D:LYS463
|
3.7
|
30.7
|
1.0
|
C
|
D:VAL430
|
3.7
|
32.2
|
1.0
|
O
|
D:HOH2057
|
4.1
|
23.6
|
1.0
|
CA
|
D:CYS465
|
4.2
|
25.5
|
1.0
|
CA
|
D:VAL430
|
4.3
|
31.9
|
1.0
|
N
|
D:GLY462
|
4.3
|
25.5
|
1.0
|
O
|
D:LYS463
|
4.4
|
30.7
|
1.0
|
N
|
D:SER431
|
4.5
|
31.8
|
1.0
|
O
|
D:GLY462
|
4.5
|
28.1
|
1.0
|
N
|
D:CYS465
|
4.6
|
26.4
|
1.0
|
O
|
D:THR461
|
4.6
|
24.2
|
1.0
|
C
|
D:LYS463
|
4.7
|
31.4
|
1.0
|
CA
|
D:SER431
|
4.7
|
30.8
|
1.0
|
CA
|
D:LYS463
|
4.8
|
32.5
|
1.0
|
CG1
|
D:VAL430
|
4.8
|
30.6
|
1.0
|
C
|
D:THR461
|
4.8
|
24.6
|
1.0
|
|
Mercury binding site 9 out
of 9 in 1o9l
Go back to
Mercury Binding Sites List in 1o9l
Mercury binding site 9 out
of 9 in the Succinate:Coenzyme-A Transferase (Pig Heart)
Mono view
Stereo pair view
|
A full contact list of Mercury with other atoms in the Hg binding
site number 9 of Succinate:Coenzyme-A Transferase (Pig Heart) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Hg9002
b:25.8
occ:0.44
|
HG
|
D:EMC9002
|
0.0
|
25.8
|
0.4
|
C1
|
D:EMC9002
|
2.0
|
25.7
|
0.4
|
SG
|
D:CYS456
|
2.4
|
23.1
|
1.0
|
N
|
D:CYS456
|
2.7
|
35.4
|
1.0
|
C2
|
D:EMC9002
|
2.9
|
27.3
|
0.4
|
O
|
D:CYS456
|
3.0
|
30.3
|
1.0
|
CB
|
D:CYS456
|
3.2
|
29.8
|
1.0
|
CA
|
D:CYS456
|
3.3
|
32.6
|
1.0
|
C
|
D:LYS455
|
3.5
|
39.3
|
1.0
|
C
|
D:CYS456
|
3.6
|
31.4
|
1.0
|
CA
|
D:LYS455
|
3.8
|
41.1
|
1.0
|
CB
|
D:LYS455
|
3.8
|
43.4
|
1.0
|
O
|
D:LYS455
|
4.5
|
40.4
|
1.0
|
OD2
|
D:ASP409
|
4.5
|
40.8
|
1.0
|
N
|
D:THR457
|
4.9
|
30.7
|
1.0
|
CD2
|
D:LEU460
|
4.9
|
32.8
|
1.0
|
|
Reference:
E.P.Mitchell,
A.J.Lloyd,
G.Lewis,
P.Shoolingin-Jordan.
Succinate:Coenzyme-A Transferase Deficiency: A Structural View of Pathogenic Mutations To Be Published.
Page generated: Sun Aug 11 00:43:54 2024
|