Zinc in PDB 6zym: Human C Complex Spliceosome - High-Resolution Core
Enzymatic activity of Human C Complex Spliceosome - High-Resolution Core
All present enzymatic activity of Human C Complex Spliceosome - High-Resolution Core:
3.6.4.13;
5.2.1.8;
Other elements in 6zym:
The structure of Human C Complex Spliceosome - High-Resolution Core also contains other interesting chemical elements:
Zinc Binding Sites:
The binding sites of Zinc atom in the Human C Complex Spliceosome - High-Resolution Core
(pdb code 6zym). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 7 binding sites of Zinc where determined in the
Human C Complex Spliceosome - High-Resolution Core, PDB code: 6zym:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
7;
Zinc binding site 1 out
of 7 in 6zym
Go back to
Zinc Binding Sites List in 6zym
Zinc binding site 1 out
of 7 in the Human C Complex Spliceosome - High-Resolution Core
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Human C Complex Spliceosome - High-Resolution Core within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
P:Zn301
b:75.8
occ:1.00
|
NE2
|
P:HIS183
|
2.0
|
53.6
|
1.0
|
SG
|
P:CYS179
|
2.2
|
55.8
|
1.0
|
SG
|
P:CYS173
|
2.2
|
55.0
|
1.0
|
SG
|
P:CYS165
|
2.3
|
50.6
|
1.0
|
CE1
|
P:HIS183
|
3.0
|
53.6
|
1.0
|
CD2
|
P:HIS183
|
3.0
|
53.6
|
1.0
|
CB
|
P:CYS179
|
3.2
|
55.8
|
1.0
|
CB
|
P:CYS173
|
3.2
|
55.0
|
1.0
|
CB
|
P:CYS165
|
3.3
|
50.6
|
1.0
|
ND1
|
P:HIS183
|
4.1
|
53.6
|
1.0
|
CG
|
P:HIS183
|
4.1
|
53.6
|
1.0
|
N6
|
6:A28
|
4.4
|
48.2
|
1.0
|
CB
|
P:TRP168
|
4.4
|
53.7
|
1.0
|
CA
|
P:CYS173
|
4.6
|
55.0
|
1.0
|
CA
|
P:CYS179
|
4.6
|
55.8
|
1.0
|
N
|
P:TRP168
|
4.7
|
53.7
|
1.0
|
CA
|
P:CYS165
|
4.7
|
50.6
|
1.0
|
CD
|
P:ARG175
|
4.8
|
53.6
|
1.0
|
CB
|
P:ARG175
|
5.0
|
53.6
|
1.0
|
|
Zinc binding site 2 out
of 7 in 6zym
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Zinc Binding Sites List in 6zym
Zinc binding site 2 out
of 7 in the Human C Complex Spliceosome - High-Resolution Core
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Human C Complex Spliceosome - High-Resolution Core within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
P:Zn302
b:95.4
occ:1.00
|
SG
|
P:CYS84
|
2.1
|
46.9
|
1.0
|
SG
|
P:CYS81
|
2.3
|
42.8
|
1.0
|
SG
|
P:CYS24
|
2.3
|
41.5
|
1.0
|
SG
|
P:CYS27
|
2.3
|
45.0
|
1.0
|
CB
|
P:CYS84
|
3.1
|
46.9
|
1.0
|
CB
|
P:CYS24
|
3.3
|
41.5
|
1.0
|
CB
|
P:CYS81
|
3.3
|
42.8
|
1.0
|
CB
|
P:CYS27
|
3.3
|
45.0
|
1.0
|
N
|
P:CYS84
|
3.8
|
46.9
|
1.0
|
N
|
P:CYS24
|
4.0
|
41.5
|
1.0
|
CA
|
P:CYS84
|
4.0
|
46.9
|
1.0
|
CA
|
P:CYS24
|
4.2
|
41.5
|
1.0
|
N
|
P:CYS27
|
4.3
|
45.0
|
1.0
|
CA
|
P:CYS27
|
4.4
|
45.0
|
1.0
|
CG2
|
P:THR83
|
4.6
|
40.5
|
1.0
|
C
|
P:CYS24
|
4.8
|
41.5
|
1.0
|
CA
|
P:CYS81
|
4.8
|
42.8
|
1.0
|
C
|
P:CYS84
|
4.9
|
46.9
|
1.0
|
NH2
|
P:ARG159
|
4.9
|
52.4
|
1.0
|
N
|
P:LEU85
|
5.0
|
44.3
|
1.0
|
|
Zinc binding site 3 out
of 7 in 6zym
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Zinc Binding Sites List in 6zym
Zinc binding site 3 out
of 7 in the Human C Complex Spliceosome - High-Resolution Core
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of Human C Complex Spliceosome - High-Resolution Core within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
P:Zn303
b:0.9
occ:1.00
|
SG
|
P:CYS48
|
2.1
|
51.9
|
1.0
|
SG
|
P:CYS45
|
2.2
|
47.1
|
1.0
|
SG
|
P:CYS74
|
2.2
|
45.7
|
1.0
|
SG
|
P:CYS71
|
2.3
|
42.5
|
1.0
|
CB
|
P:CYS74
|
3.2
|
45.7
|
1.0
|
CB
|
P:CYS48
|
3.2
|
51.9
|
1.0
|
CB
|
P:CYS45
|
3.2
|
47.1
|
1.0
|
CB
|
P:CYS71
|
3.3
|
42.5
|
1.0
|
N
|
P:CYS71
|
3.9
|
42.5
|
1.0
|
CA
|
P:CYS71
|
4.2
|
42.5
|
1.0
|
N
|
P:CYS48
|
4.2
|
51.9
|
1.0
|
CA
|
P:CYS48
|
4.2
|
51.9
|
1.0
|
CA
|
P:CYS74
|
4.3
|
45.7
|
1.0
|
N
|
P:CYS74
|
4.3
|
45.7
|
1.0
|
CG1
|
P:ILE47
|
4.3
|
49.6
|
1.0
|
CA
|
P:CYS45
|
4.7
|
47.1
|
1.0
|
C
|
P:CYS71
|
4.8
|
42.5
|
1.0
|
OG1
|
P:THR73
|
4.8
|
42.6
|
1.0
|
CD1
|
P:ILE47
|
4.8
|
49.6
|
1.0
|
O
|
P:CYS71
|
4.9
|
42.5
|
1.0
|
C
|
P:CYS48
|
4.9
|
51.9
|
1.0
|
CG1
|
P:VAL70
|
4.9
|
38.5
|
1.0
|
|
Zinc binding site 4 out
of 7 in 6zym
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Zinc Binding Sites List in 6zym
Zinc binding site 4 out
of 7 in the Human C Complex Spliceosome - High-Resolution Core
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of Human C Complex Spliceosome - High-Resolution Core within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:Zn201
b:47.9
occ:1.00
|
SG
|
Q:CYS101
|
2.0
|
36.4
|
1.0
|
SG
|
Q:CYS102
|
2.3
|
32.3
|
1.0
|
SG
|
Q:CYS137
|
2.4
|
36.5
|
1.0
|
SG
|
Q:CYS105
|
2.4
|
35.4
|
1.0
|
CB
|
Q:CYS101
|
3.0
|
36.4
|
1.0
|
CB
|
Q:CYS137
|
3.2
|
36.5
|
1.0
|
CB
|
Q:CYS102
|
3.3
|
32.3
|
1.0
|
CB
|
Q:CYS105
|
3.6
|
35.4
|
1.0
|
N
|
Q:CYS102
|
3.7
|
32.3
|
1.0
|
ZN
|
Q:ZN202
|
3.8
|
51.7
|
1.0
|
CA
|
Q:CYS101
|
4.0
|
36.4
|
1.0
|
C
|
Q:CYS101
|
4.0
|
36.4
|
1.0
|
ZN
|
Q:ZN203
|
4.0
|
67.2
|
1.0
|
CA
|
Q:CYS102
|
4.1
|
32.3
|
1.0
|
N
|
Q:CYS105
|
4.3
|
35.4
|
1.0
|
C
|
Q:CYS102
|
4.4
|
32.3
|
1.0
|
CA
|
Q:CYS137
|
4.4
|
36.5
|
1.0
|
N
|
Q:CYS137
|
4.5
|
36.5
|
1.0
|
SG
|
Q:CYS139
|
4.5
|
43.5
|
1.0
|
O
|
Q:CYS102
|
4.5
|
32.3
|
1.0
|
CA
|
Q:CYS105
|
4.5
|
35.4
|
1.0
|
SG
|
Q:CYS119
|
4.6
|
41.9
|
1.0
|
CB
|
Q:HIS136
|
4.7
|
32.5
|
1.0
|
N
|
Q:CYS101
|
4.8
|
36.4
|
1.0
|
O
|
Q:CYS101
|
4.9
|
36.4
|
1.0
|
SG
|
Q:CYS134
|
4.9
|
38.4
|
1.0
|
|
Zinc binding site 5 out
of 7 in 6zym
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Zinc Binding Sites List in 6zym
Zinc binding site 5 out
of 7 in the Human C Complex Spliceosome - High-Resolution Core
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of Human C Complex Spliceosome - High-Resolution Core within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:Zn202
b:51.7
occ:1.00
|
SG
|
Q:CYS119
|
1.9
|
41.9
|
1.0
|
SG
|
Q:CYS139
|
2.3
|
43.5
|
1.0
|
SG
|
Q:CYS101
|
2.7
|
36.4
|
1.0
|
SG
|
Q:CYS142
|
2.7
|
43.1
|
1.0
|
CB
|
Q:CYS119
|
3.0
|
41.9
|
1.0
|
CB
|
Q:CYS101
|
3.1
|
36.4
|
1.0
|
CB
|
Q:CYS139
|
3.3
|
43.5
|
1.0
|
ZN
|
Q:ZN203
|
3.4
|
67.2
|
1.0
|
CB
|
Q:CYS142
|
3.6
|
43.1
|
1.0
|
ZN
|
Q:ZN201
|
3.8
|
47.9
|
1.0
|
N
|
Q:CYS101
|
4.1
|
36.4
|
1.0
|
CA
|
Q:CYS101
|
4.2
|
36.4
|
1.0
|
SG
|
Q:CYS134
|
4.3
|
38.4
|
1.0
|
CA
|
Q:CYS119
|
4.4
|
41.9
|
1.0
|
SG
|
Q:CYS105
|
4.4
|
35.4
|
1.0
|
SG
|
Q:CYS137
|
4.5
|
36.5
|
1.0
|
C
|
Q:CYS119
|
4.5
|
41.9
|
1.0
|
CA
|
Q:CYS139
|
4.6
|
43.5
|
1.0
|
O
|
Q:CYS119
|
4.7
|
41.9
|
1.0
|
CA
|
Q:CYS142
|
4.8
|
43.1
|
1.0
|
CB
|
Q:CYS105
|
4.8
|
35.4
|
1.0
|
N
|
Q:CYS142
|
4.8
|
43.1
|
1.0
|
N
|
Q:CYS139
|
4.8
|
43.5
|
1.0
|
C
|
Q:CYS139
|
4.9
|
43.5
|
1.0
|
|
Zinc binding site 6 out
of 7 in 6zym
Go back to
Zinc Binding Sites List in 6zym
Zinc binding site 6 out
of 7 in the Human C Complex Spliceosome - High-Resolution Core
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of Human C Complex Spliceosome - High-Resolution Core within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:Zn203
b:67.2
occ:1.00
|
SG
|
Q:CYS134
|
2.3
|
38.4
|
1.0
|
SG
|
Q:CYS117
|
2.3
|
39.3
|
1.0
|
SG
|
Q:CYS119
|
2.3
|
41.9
|
1.0
|
SG
|
Q:CYS105
|
2.6
|
35.4
|
1.0
|
CB
|
Q:CYS105
|
3.1
|
35.4
|
1.0
|
CB
|
Q:CYS119
|
3.2
|
41.9
|
1.0
|
CB
|
Q:CYS134
|
3.2
|
38.4
|
1.0
|
CB
|
Q:CYS117
|
3.3
|
39.3
|
1.0
|
ZN
|
Q:ZN202
|
3.4
|
51.7
|
1.0
|
N
|
Q:CYS119
|
4.0
|
41.9
|
1.0
|
ZN
|
Q:ZN201
|
4.0
|
47.9
|
1.0
|
SG
|
Q:CYS139
|
4.1
|
43.5
|
1.0
|
CA
|
Q:CYS119
|
4.1
|
41.9
|
1.0
|
SG
|
Q:CYS101
|
4.5
|
36.4
|
1.0
|
CA
|
Q:CYS134
|
4.6
|
38.4
|
1.0
|
CA
|
Q:CYS117
|
4.6
|
39.3
|
1.0
|
CA
|
Q:CYS105
|
4.6
|
35.4
|
1.0
|
ND1
|
Q:HIS136
|
4.6
|
32.5
|
1.0
|
C
|
Q:CYS119
|
4.9
|
41.9
|
1.0
|
SG
|
Q:CYS137
|
4.9
|
36.5
|
1.0
|
N
|
Q:ARG120
|
4.9
|
40.4
|
1.0
|
C
|
Q:CYS134
|
4.9
|
38.4
|
1.0
|
N
|
Q:ILE118
|
5.0
|
40.1
|
1.0
|
|
Zinc binding site 7 out
of 7 in 6zym
Go back to
Zinc Binding Sites List in 6zym
Zinc binding site 7 out
of 7 in the Human C Complex Spliceosome - High-Resolution Core
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 7 of Human C Complex Spliceosome - High-Resolution Core within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
u:Zn1001
b:0.7
occ:1.00
|
SG
|
u:CYS83
|
1.5
|
68.5
|
1.0
|
SG
|
u:CYS80
|
2.0
|
64.7
|
1.0
|
SG
|
u:CYS43
|
2.3
|
60.1
|
1.0
|
SG
|
u:CYS46
|
2.3
|
66.0
|
1.0
|
CB
|
u:CYS83
|
2.8
|
68.5
|
1.0
|
CB
|
u:CYS80
|
3.2
|
64.7
|
1.0
|
CB
|
u:CYS43
|
3.3
|
60.1
|
1.0
|
CB
|
u:CYS46
|
3.5
|
66.0
|
1.0
|
CA
|
u:CYS83
|
3.8
|
68.5
|
1.0
|
N
|
u:CYS83
|
3.9
|
68.5
|
1.0
|
O
|
u:CYS83
|
4.0
|
68.5
|
1.0
|
OE2
|
u:GLU48
|
4.2
|
67.7
|
1.0
|
C
|
u:CYS83
|
4.2
|
68.5
|
1.0
|
CG
|
u:GLU48
|
4.2
|
67.7
|
1.0
|
N
|
u:CYS46
|
4.2
|
66.0
|
1.0
|
CA
|
u:CYS46
|
4.4
|
66.0
|
1.0
|
CA
|
u:CYS80
|
4.7
|
64.7
|
1.0
|
CD
|
u:GLU48
|
4.7
|
67.7
|
1.0
|
CA
|
u:CYS43
|
4.7
|
60.1
|
1.0
|
CG2
|
u:THR45
|
4.8
|
56.0
|
1.0
|
C
|
u:CYS46
|
4.9
|
66.0
|
1.0
|
C
|
u:ARG82
|
4.9
|
69.6
|
1.0
|
CB
|
u:ARG82
|
5.0
|
69.6
|
1.0
|
|
Reference:
K.Bertram,
L.El Ayoubi,
O.Dybkov,
D.E.Agafonov,
C.L.Will,
K.Hartmuth,
H.Urlaub,
B.Kastner,
H.Stark,
R.Luhrmann.
Structural Insights Into the Roles of Metazoan-Specific Splicing Factors in the Human Step 1 Spliceosome. Mol.Cell V. 80 127 2020.
ISSN: ISSN 1097-2765
PubMed: 33007253
DOI: 10.1016/J.MOLCEL.2020.09.012
Page generated: Tue Oct 29 16:09:23 2024
|