Zinc in PDB 8tvp: Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State)
Enzymatic activity of Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State)
All present enzymatic activity of Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State):
2.7.7.6;
Other elements in 8tvp:
The structure of Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State) also contains other interesting chemical elements:
Zinc Binding Sites:
The binding sites of Zinc atom in the Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State)
(pdb code 8tvp). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the
Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State), PDB code: 8tvp:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Zinc binding site 1 out
of 8 in 8tvp
Go back to
Zinc Binding Sites List in 8tvp
Zinc binding site 1 out
of 8 in the Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1801
b:206.5
occ:1.00
|
H
|
A:CYS110
|
2.1
|
176.9
|
1.0
|
|
HB2
|
A:CYS110
|
2.1
|
176.9
|
1.0
|
|
N
|
A:CYS110
|
2.1
|
176.9
|
1.0
|
|
O
|
A:CYS107
|
2.1
|
177.7
|
1.0
|
|
SG
|
A:CYS167
|
2.3
|
193.4
|
1.0
|
|
HB3
|
A:CYS110
|
2.4
|
176.9
|
1.0
|
|
O
|
A:MET108
|
2.4
|
165.9
|
1.0
|
|
CB
|
A:CYS110
|
2.5
|
176.9
|
1.0
|
|
C
|
A:HIS109
|
2.6
|
162.3
|
1.0
|
|
HB2
|
A:CYS167
|
2.6
|
193.4
|
1.0
|
|
C
|
A:MET108
|
2.7
|
165.9
|
1.0
|
|
CA
|
A:CYS110
|
2.8
|
176.9
|
1.0
|
|
CB
|
A:CYS167
|
3.0
|
193.4
|
1.0
|
|
N
|
A:HIS109
|
3.0
|
162.3
|
1.0
|
|
C
|
A:CYS107
|
3.0
|
177.7
|
1.0
|
|
CA
|
A:HIS109
|
3.2
|
162.3
|
1.0
|
|
HA
|
A:CYS110
|
3.2
|
176.9
|
1.0
|
|
HB2
|
A:HIS109
|
3.2
|
162.3
|
1.0
|
|
O
|
A:HIS109
|
3.3
|
162.3
|
1.0
|
|
HB3
|
A:CYS107
|
3.4
|
177.7
|
1.0
|
|
HB3
|
A:CYS167
|
3.5
|
193.4
|
1.0
|
|
N
|
A:MET108
|
3.6
|
165.9
|
1.0
|
|
H
|
A:HIS109
|
3.6
|
162.3
|
1.0
|
|
CA
|
A:MET108
|
3.7
|
165.9
|
1.0
|
|
CB
|
A:HIS109
|
3.7
|
162.3
|
1.0
|
|
H
|
A:CYS167
|
3.8
|
193.4
|
1.0
|
|
HB3
|
A:MET108
|
3.9
|
165.9
|
1.0
|
|
HB2
|
A:CYS107
|
4.0
|
177.7
|
1.0
|
|
CB
|
A:CYS107
|
4.0
|
177.7
|
1.0
|
|
H
|
A:GLY111
|
4.1
|
164.2
|
1.0
|
|
HA
|
A:HIS109
|
4.1
|
162.3
|
1.0
|
|
C
|
A:CYS110
|
4.1
|
176.9
|
1.0
|
|
CA
|
A:CYS107
|
4.1
|
177.7
|
1.0
|
|
SG
|
A:CYS110
|
4.2
|
176.9
|
1.0
|
|
CA
|
A:CYS167
|
4.3
|
193.4
|
1.0
|
|
H
|
A:MET108
|
4.3
|
165.9
|
1.0
|
|
SG
|
A:CYS148
|
4.3
|
188.9
|
1.0
|
|
CB
|
A:MET108
|
4.4
|
165.9
|
1.0
|
|
N
|
A:CYS167
|
4.4
|
193.4
|
1.0
|
|
HB3
|
A:HIS109
|
4.4
|
162.3
|
1.0
|
|
HA
|
A:MET108
|
4.4
|
165.9
|
1.0
|
|
N
|
A:GLY111
|
4.5
|
164.2
|
1.0
|
|
HG
|
A:CYS110
|
4.6
|
176.9
|
1.0
|
|
HA
|
A:CYS167
|
4.6
|
193.4
|
1.0
|
|
HA
|
A:CYS107
|
4.7
|
177.7
|
1.0
|
|
OD1
|
A:ASN169
|
4.7
|
184.8
|
1.0
|
|
CG
|
A:HIS109
|
4.7
|
162.3
|
1.0
|
|
HG
|
A:CYS148
|
4.9
|
188.9
|
1.0
|
|
HD21
|
A:ASN169
|
4.9
|
184.8
|
1.0
|
|
HD2
|
A:HIS109
|
4.9
|
162.3
|
1.0
|
|
HB2
|
A:MET108
|
5.0
|
165.9
|
1.0
|
|
Zinc binding site 2 out
of 8 in 8tvp
Go back to
Zinc Binding Sites List in 8tvp
Zinc binding site 2 out
of 8 in the Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1802
b:189.4
occ:1.00
|
NE2
|
A:HIS80
|
2.1
|
102.8
|
1.0
|
|
SG
|
A:CYS77
|
2.3
|
112.7
|
1.0
|
|
SG
|
A:CYS67
|
2.3
|
126.9
|
1.0
|
|
SG
|
A:CYS70
|
2.3
|
132.3
|
1.0
|
|
HE1
|
A:HIS80
|
2.4
|
102.8
|
1.0
|
|
CE1
|
A:HIS80
|
2.5
|
102.8
|
1.0
|
|
HB2
|
A:CYS70
|
2.6
|
132.3
|
1.0
|
|
CB
|
A:CYS70
|
2.8
|
132.3
|
1.0
|
|
HB3
|
A:CYS70
|
2.8
|
132.3
|
1.0
|
|
O
|
A:CYS67
|
3.0
|
126.9
|
1.0
|
|
O
|
A:PRO78
|
3.2
|
91.2
|
1.0
|
|
CD2
|
A:HIS80
|
3.4
|
102.8
|
1.0
|
|
HB3
|
A:CYS67
|
3.6
|
126.9
|
1.0
|
|
CB
|
A:CYS67
|
3.6
|
126.9
|
1.0
|
|
ND1
|
A:HIS80
|
3.8
|
102.8
|
1.0
|
|
CB
|
A:CYS77
|
3.8
|
112.7
|
1.0
|
|
HB3
|
A:CYS77
|
3.8
|
112.7
|
1.0
|
|
HD2
|
A:HIS80
|
3.9
|
102.8
|
1.0
|
|
C
|
A:CYS67
|
4.1
|
126.9
|
1.0
|
|
CG
|
A:HIS80
|
4.2
|
102.8
|
1.0
|
|
CA
|
A:CYS70
|
4.3
|
132.3
|
1.0
|
|
HB3
|
A:GLN68
|
4.3
|
128.8
|
1.0
|
|
HB2
|
A:CYS67
|
4.3
|
126.9
|
1.0
|
|
HB2
|
A:CYS77
|
4.4
|
112.7
|
1.0
|
|
HD1
|
A:HIS80
|
4.4
|
102.8
|
1.0
|
|
C
|
A:PRO78
|
4.4
|
91.2
|
1.0
|
|
H
|
A:CYS70
|
4.5
|
132.3
|
1.0
|
|
CA
|
A:CYS67
|
4.5
|
126.9
|
1.0
|
|
HD2
|
A:PRO78
|
4.5
|
91.2
|
1.0
|
|
C
|
A:CYS77
|
4.6
|
112.7
|
1.0
|
|
HA2
|
A:GLY79
|
4.6
|
102.4
|
1.0
|
|
HA
|
A:CYS70
|
4.7
|
132.3
|
1.0
|
|
CA
|
A:CYS77
|
4.7
|
112.7
|
1.0
|
|
O
|
A:CYS77
|
4.7
|
112.7
|
1.0
|
|
N
|
A:CYS70
|
4.8
|
132.3
|
1.0
|
|
N
|
A:PRO78
|
4.8
|
91.2
|
1.0
|
|
HA
|
A:CYS77
|
4.8
|
112.7
|
1.0
|
|
HA
|
A:CYS67
|
4.9
|
126.9
|
1.0
|
|
Zinc binding site 3 out
of 8 in 8tvp
Go back to
Zinc Binding Sites List in 8tvp
Zinc binding site 3 out
of 8 in the Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn1301
b:162.1
occ:1.00
|
SG
|
B:CYS1166
|
2.3
|
93.0
|
1.0
|
|
SG
|
B:CYS1182
|
2.3
|
116.6
|
1.0
|
|
SG
|
B:CYS1185
|
2.3
|
115.7
|
1.0
|
|
SG
|
B:CYS1163
|
2.3
|
96.5
|
1.0
|
|
HB2
|
B:CYS1185
|
2.7
|
115.7
|
1.0
|
|
HB3
|
B:CYS1163
|
2.9
|
96.5
|
1.0
|
|
CB
|
B:CYS1185
|
3.0
|
115.7
|
1.0
|
|
H
|
B:CYS1166
|
3.1
|
93.0
|
1.0
|
|
CB
|
B:CYS1163
|
3.1
|
96.5
|
1.0
|
|
HB
|
B:ILE1165
|
3.3
|
100.5
|
1.0
|
|
HB2
|
B:CYS1163
|
3.3
|
96.5
|
1.0
|
|
HB3
|
B:CYS1182
|
3.4
|
116.6
|
1.0
|
|
CB
|
B:CYS1182
|
3.5
|
116.6
|
1.0
|
|
HB3
|
B:CYS1185
|
3.5
|
115.7
|
1.0
|
|
CB
|
B:CYS1166
|
3.6
|
93.0
|
1.0
|
|
HB3
|
B:CYS1166
|
3.6
|
93.0
|
1.0
|
|
N
|
B:CYS1166
|
3.7
|
93.0
|
1.0
|
|
HB2
|
B:CYS1182
|
3.7
|
116.6
|
1.0
|
|
O
|
B:CYS1166
|
4.0
|
93.0
|
1.0
|
|
H
|
B:CYS1185
|
4.1
|
115.7
|
1.0
|
|
CA
|
B:CYS1166
|
4.1
|
93.0
|
1.0
|
|
CB
|
B:ILE1165
|
4.2
|
100.5
|
1.0
|
|
HG1
|
B:THR1170
|
4.2
|
100.0
|
1.0
|
|
CA
|
B:CYS1185
|
4.3
|
115.7
|
1.0
|
|
HB2
|
B:CYS1166
|
4.4
|
93.0
|
1.0
|
|
N
|
B:CYS1185
|
4.5
|
115.7
|
1.0
|
|
C
|
B:CYS1166
|
4.5
|
93.0
|
1.0
|
|
CA
|
B:CYS1163
|
4.6
|
96.5
|
1.0
|
|
C
|
B:ILE1165
|
4.6
|
100.5
|
1.0
|
|
H
|
B:ILE1165
|
4.6
|
100.5
|
1.0
|
|
O
|
B:CYS1182
|
4.7
|
116.6
|
1.0
|
|
OG1
|
B:THR1170
|
4.7
|
100.0
|
1.0
|
|
HG12
|
B:ILE1165
|
4.7
|
100.5
|
1.0
|
|
HA
|
B:CYS1185
|
4.8
|
115.7
|
1.0
|
|
HG22
|
B:ILE1165
|
4.8
|
100.5
|
1.0
|
|
CA
|
B:CYS1182
|
4.8
|
116.6
|
1.0
|
|
CA
|
B:ILE1165
|
4.8
|
100.5
|
1.0
|
|
HB3
|
B:ASN1187
|
4.9
|
113.1
|
1.0
|
|
C
|
B:CYS1163
|
5.0
|
96.5
|
1.0
|
|
CG1
|
B:ILE1165
|
5.0
|
100.5
|
1.0
|
|
O
|
B:CYS1163
|
5.0
|
96.5
|
1.0
|
|
CG2
|
B:ILE1165
|
5.0
|
100.5
|
1.0
|
|
HA
|
B:CYS1163
|
5.0
|
96.5
|
1.0
|
|
N
|
B:ILE1165
|
5.0
|
100.5
|
1.0
|
|
Zinc binding site 4 out
of 8 in 8tvp
Go back to
Zinc Binding Sites List in 8tvp
Zinc binding site 4 out
of 8 in the Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn401
b:160.7
occ:1.00
|
SG
|
C:CYS88
|
2.3
|
110.7
|
1.0
|
|
SG
|
C:CYS86
|
2.3
|
104.3
|
1.0
|
|
SG
|
C:CYS92
|
2.3
|
100.1
|
1.0
|
|
SG
|
C:CYS95
|
2.3
|
96.7
|
1.0
|
|
HB3
|
C:CYS88
|
2.8
|
110.7
|
1.0
|
|
HB3
|
C:CYS92
|
3.0
|
100.1
|
1.0
|
|
HB3
|
C:CYS86
|
3.0
|
104.3
|
1.0
|
|
CB
|
C:CYS92
|
3.1
|
100.1
|
1.0
|
|
CB
|
C:CYS88
|
3.2
|
110.7
|
1.0
|
|
CB
|
C:CYS86
|
3.2
|
104.3
|
1.0
|
|
H
|
C:CYS92
|
3.2
|
100.1
|
1.0
|
|
HB3
|
C:CYS95
|
3.2
|
96.7
|
1.0
|
|
CB
|
C:CYS95
|
3.4
|
96.7
|
1.0
|
|
N
|
C:CYS92
|
3.4
|
100.1
|
1.0
|
|
HB2
|
C:CYS86
|
3.5
|
104.3
|
1.0
|
|
H
|
C:CYS88
|
3.6
|
110.7
|
1.0
|
|
HB2
|
C:LYS94
|
3.6
|
99.8
|
1.0
|
|
H
|
C:CYS95
|
3.6
|
96.7
|
1.0
|
|
HB2
|
C:CYS88
|
3.7
|
110.7
|
1.0
|
|
CA
|
C:CYS92
|
3.7
|
100.1
|
1.0
|
|
HA
|
C:HIS91
|
3.9
|
96.9
|
1.0
|
|
N
|
C:CYS95
|
3.9
|
96.7
|
1.0
|
|
HB2
|
C:CYS92
|
4.0
|
100.1
|
1.0
|
|
H
|
C:LYS94
|
4.0
|
99.8
|
1.0
|
|
C
|
C:HIS91
|
4.1
|
96.9
|
1.0
|
|
HB2
|
C:CYS95
|
4.1
|
96.7
|
1.0
|
|
C
|
C:CYS92
|
4.2
|
100.1
|
1.0
|
|
CA
|
C:CYS95
|
4.3
|
96.7
|
1.0
|
|
N
|
C:CYS88
|
4.3
|
110.7
|
1.0
|
|
CA
|
C:CYS88
|
4.3
|
110.7
|
1.0
|
|
O
|
C:CYS92
|
4.4
|
100.1
|
1.0
|
|
HA
|
C:SER83
|
4.5
|
90.1
|
1.0
|
|
CA
|
C:HIS91
|
4.5
|
96.9
|
1.0
|
|
CB
|
C:LYS94
|
4.5
|
99.8
|
1.0
|
|
C
|
C:LYS94
|
4.5
|
99.8
|
1.0
|
|
CA
|
C:CYS86
|
4.6
|
104.3
|
1.0
|
|
N
|
C:LYS94
|
4.6
|
99.8
|
1.0
|
|
HA
|
C:CYS92
|
4.6
|
100.1
|
1.0
|
|
O
|
C:HIS91
|
4.8
|
96.9
|
1.0
|
|
CA
|
C:LYS94
|
4.8
|
99.8
|
1.0
|
|
C
|
C:CYS86
|
4.9
|
104.3
|
1.0
|
|
O
|
C:CYS88
|
4.9
|
110.7
|
1.0
|
|
HD2
|
C:LYS94
|
4.9
|
99.8
|
1.0
|
|
HA
|
C:CYS86
|
4.9
|
104.3
|
1.0
|
|
C
|
C:CYS88
|
4.9
|
110.7
|
1.0
|
|
C
|
C:CYS95
|
5.0
|
96.7
|
1.0
|
|
Zinc binding site 5 out
of 8 in 8tvp
Go back to
Zinc Binding Sites List in 8tvp
Zinc binding site 5 out
of 8 in the Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Zn201
b:313.7
occ:1.00
|
O
|
I:THR31
|
2.0
|
269.2
|
1.0
|
|
HA
|
I:CYS32
|
2.2
|
283.1
|
1.0
|
|
SG
|
I:CYS7
|
2.3
|
277.5
|
1.0
|
|
SG
|
I:CYS10
|
2.3
|
274.1
|
1.0
|
|
HB2
|
I:CYS10
|
2.8
|
274.1
|
1.0
|
|
C
|
I:THR31
|
2.8
|
269.2
|
1.0
|
|
OD1
|
I:ASP9
|
2.9
|
277.8
|
1.0
|
|
CA
|
I:CYS32
|
3.0
|
283.1
|
1.0
|
|
HB2
|
I:CYS32
|
3.0
|
283.1
|
1.0
|
|
CB
|
I:CYS10
|
3.1
|
274.1
|
1.0
|
|
N
|
I:CYS32
|
3.2
|
283.1
|
1.0
|
|
CB
|
I:CYS32
|
3.4
|
283.1
|
1.0
|
|
CB
|
I:CYS7
|
3.7
|
277.5
|
1.0
|
|
HB2
|
I:CYS7
|
3.7
|
277.5
|
1.0
|
|
HB3
|
I:CYS10
|
3.8
|
274.1
|
1.0
|
|
HB
|
I:THR31
|
3.8
|
269.2
|
1.0
|
|
HB3
|
I:CYS7
|
3.9
|
277.5
|
1.0
|
|
HG
|
I:CYS32
|
3.9
|
283.1
|
1.0
|
|
OG1
|
I:THR31
|
3.9
|
269.2
|
1.0
|
|
CG
|
I:ASP9
|
4.0
|
277.8
|
1.0
|
|
H
|
I:CYS32
|
4.0
|
283.1
|
1.0
|
|
H
|
I:CYS10
|
4.0
|
274.1
|
1.0
|
|
N
|
I:CYS10
|
4.1
|
274.1
|
1.0
|
|
CA
|
I:THR31
|
4.1
|
269.2
|
1.0
|
|
H
|
I:SER33
|
4.1
|
279.4
|
1.0
|
|
CB
|
I:THR31
|
4.1
|
269.2
|
1.0
|
|
CA
|
I:CYS10
|
4.2
|
274.1
|
1.0
|
|
C
|
I:CYS32
|
4.3
|
283.1
|
1.0
|
|
HB3
|
I:CYS32
|
4.3
|
283.1
|
1.0
|
|
SG
|
I:CYS32
|
4.3
|
283.1
|
1.0
|
|
H
|
I:ASP9
|
4.4
|
277.8
|
1.0
|
|
OD2
|
I:ASP9
|
4.4
|
277.8
|
1.0
|
|
HG1
|
I:THR31
|
4.5
|
269.2
|
1.0
|
|
N
|
I:SER33
|
4.5
|
279.4
|
1.0
|
|
C
|
I:ASP9
|
4.5
|
277.8
|
1.0
|
|
HA
|
I:THR31
|
4.6
|
269.2
|
1.0
|
|
HB3
|
I:CYS29
|
4.6
|
277.3
|
1.0
|
|
HD22
|
I:ASN12
|
4.7
|
268.3
|
1.0
|
|
HA
|
I:CYS10
|
4.8
|
274.1
|
1.0
|
|
HB2
|
I:ASN12
|
4.8
|
268.3
|
1.0
|
|
CA
|
I:CYS7
|
5.0
|
277.5
|
1.0
|
|
O
|
I:ASP9
|
5.0
|
277.8
|
1.0
|
|
Zinc binding site 6 out
of 8 in 8tvp
Go back to
Zinc Binding Sites List in 8tvp
Zinc binding site 6 out
of 8 in the Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Zn202
b:321.9
occ:1.00
|
HB2
|
I:CYS78
|
1.7
|
278.6
|
1.0
|
|
CB
|
I:CYS78
|
2.2
|
278.6
|
1.0
|
|
HG
|
I:CYS75
|
2.2
|
278.5
|
1.0
|
|
SG
|
I:CYS106
|
2.3
|
263.8
|
1.0
|
|
SG
|
I:CYS78
|
2.3
|
278.6
|
1.0
|
|
SG
|
I:CYS103
|
2.3
|
257.0
|
1.0
|
|
HB3
|
I:CYS78
|
2.5
|
278.6
|
1.0
|
|
HB3
|
I:CYS103
|
2.7
|
257.0
|
1.0
|
|
HG
|
I:SER105
|
2.8
|
258.3
|
1.0
|
|
OG
|
I:SER105
|
2.9
|
258.3
|
1.0
|
|
HB2
|
I:CYS75
|
2.9
|
278.5
|
1.0
|
|
CB
|
I:CYS103
|
3.0
|
257.0
|
1.0
|
|
HB3
|
I:CYS75
|
3.1
|
278.5
|
1.0
|
|
SG
|
I:CYS75
|
3.1
|
278.5
|
1.0
|
|
CB
|
I:CYS75
|
3.2
|
278.5
|
1.0
|
|
HB2
|
I:CYS103
|
3.3
|
257.0
|
1.0
|
|
H
|
I:CYS106
|
3.5
|
263.8
|
1.0
|
|
H
|
I:CYS78
|
3.5
|
278.6
|
1.0
|
|
CA
|
I:CYS78
|
3.6
|
278.6
|
1.0
|
|
HB3
|
I:CYS106
|
3.6
|
263.8
|
1.0
|
|
CB
|
I:CYS106
|
3.6
|
263.8
|
1.0
|
|
HB3
|
I:SER80
|
3.7
|
268.0
|
1.0
|
|
N
|
I:CYS106
|
3.9
|
263.8
|
1.0
|
|
N
|
I:CYS78
|
4.0
|
278.6
|
1.0
|
|
HB3
|
I:HIS108
|
4.0
|
260.4
|
1.0
|
|
HZ2
|
I:LYS77
|
4.1
|
274.0
|
1.0
|
|
H
|
I:SER80
|
4.2
|
268.0
|
1.0
|
|
HA
|
I:CYS78
|
4.2
|
278.6
|
1.0
|
|
HZ3
|
I:LYS77
|
4.3
|
274.0
|
1.0
|
|
CB
|
I:SER105
|
4.3
|
258.3
|
1.0
|
|
HB2
|
I:HIS108
|
4.3
|
260.4
|
1.0
|
|
C
|
I:CYS78
|
4.3
|
278.6
|
1.0
|
|
CA
|
I:CYS106
|
4.3
|
263.8
|
1.0
|
|
HB2
|
I:CYS106
|
4.4
|
263.8
|
1.0
|
|
CA
|
I:CYS103
|
4.4
|
257.0
|
1.0
|
|
H
|
I:HIS108
|
4.5
|
260.4
|
1.0
|
|
O
|
I:CYS103
|
4.5
|
257.0
|
1.0
|
|
NZ
|
I:LYS77
|
4.6
|
274.0
|
1.0
|
|
H
|
I:SER105
|
4.6
|
258.3
|
1.0
|
|
CB
|
I:SER80
|
4.6
|
268.0
|
1.0
|
|
HB2
|
I:SER80
|
4.6
|
268.0
|
1.0
|
|
HG3
|
I:LYS77
|
4.6
|
274.0
|
1.0
|
|
CB
|
I:HIS108
|
4.6
|
260.4
|
1.0
|
|
HB2
|
I:SER105
|
4.7
|
258.3
|
1.0
|
|
C
|
I:SER105
|
4.7
|
258.3
|
1.0
|
|
C
|
I:CYS103
|
4.7
|
257.0
|
1.0
|
|
H
|
I:HIS79
|
4.7
|
272.1
|
1.0
|
|
CA
|
I:CYS75
|
4.7
|
278.5
|
1.0
|
|
HZ1
|
I:LYS77
|
4.7
|
274.0
|
1.0
|
|
N
|
I:HIS79
|
4.8
|
272.1
|
1.0
|
|
HB3
|
I:SER105
|
4.8
|
258.3
|
1.0
|
|
HA
|
I:CYS103
|
4.9
|
257.0
|
1.0
|
|
CA
|
I:SER105
|
4.9
|
258.3
|
1.0
|
|
O
|
I:CYS78
|
5.0
|
278.6
|
1.0
|
|
N
|
I:SER105
|
5.0
|
258.3
|
1.0
|
|
N
|
I:SER80
|
5.0
|
268.0
|
1.0
|
|
HG2
|
I:LYS77
|
5.0
|
274.0
|
1.0
|
|
H
|
I:CYS75
|
5.0
|
278.5
|
1.0
|
|
Zinc binding site 7 out
of 8 in 8tvp
Go back to
Zinc Binding Sites List in 8tvp
Zinc binding site 7 out
of 8 in the Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 7 of Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
J:Zn101
b:83.7
occ:1.00
|
HB2
|
J:CYS10
|
2.2
|
65.8
|
1.0
|
|
SG
|
J:CYS45
|
2.3
|
59.0
|
1.0
|
|
SG
|
J:CYS46
|
2.3
|
59.9
|
1.0
|
|
SG
|
J:CYS10
|
2.3
|
65.8
|
1.0
|
|
SG
|
J:CYS7
|
2.3
|
59.7
|
1.0
|
|
CB
|
J:CYS10
|
2.7
|
65.8
|
1.0
|
|
H
|
J:CYS46
|
3.1
|
59.9
|
1.0
|
|
N
|
J:CYS46
|
3.2
|
59.9
|
1.0
|
|
HE
|
J:ARG43
|
3.3
|
62.6
|
1.0
|
|
CB
|
J:CYS7
|
3.4
|
59.7
|
1.0
|
|
HB3
|
J:CYS7
|
3.4
|
59.7
|
1.0
|
|
HB3
|
J:CYS10
|
3.4
|
65.8
|
1.0
|
|
HB2
|
J:CYS45
|
3.4
|
59.0
|
1.0
|
|
HB2
|
J:CYS7
|
3.5
|
59.7
|
1.0
|
|
CB
|
J:CYS45
|
3.5
|
59.0
|
1.0
|
|
HA
|
J:CYS46
|
3.5
|
59.9
|
1.0
|
|
CB
|
J:CYS46
|
3.6
|
59.9
|
1.0
|
|
CA
|
J:CYS46
|
3.6
|
59.9
|
1.0
|
|
C
|
J:CYS45
|
3.7
|
59.0
|
1.0
|
|
HG
|
J:SER9
|
3.7
|
65.0
|
1.0
|
|
H
|
J:CYS10
|
3.8
|
65.8
|
1.0
|
|
N
|
J:CYS10
|
3.8
|
65.8
|
1.0
|
|
CA
|
J:CYS10
|
3.9
|
65.8
|
1.0
|
|
HB2
|
J:ARG43
|
3.9
|
62.6
|
1.0
|
|
NE
|
J:ARG43
|
4.1
|
62.6
|
1.0
|
|
HB2
|
J:CYS46
|
4.1
|
59.9
|
1.0
|
|
HH21
|
J:ARG43
|
4.2
|
62.6
|
1.0
|
|
CA
|
J:CYS45
|
4.2
|
59.0
|
1.0
|
|
HB3
|
J:CYS46
|
4.2
|
59.9
|
1.0
|
|
HB3
|
J:LYS12
|
4.2
|
62.3
|
1.0
|
|
HB3
|
J:CYS45
|
4.3
|
59.0
|
1.0
|
|
HA
|
J:CYS10
|
4.3
|
65.8
|
1.0
|
|
O
|
J:CYS45
|
4.3
|
59.0
|
1.0
|
|
C
|
J:SER9
|
4.4
|
65.0
|
1.0
|
|
OG
|
J:SER9
|
4.4
|
65.0
|
1.0
|
|
HD2
|
J:ARG43
|
4.4
|
62.6
|
1.0
|
|
HB3
|
J:ARG43
|
4.5
|
62.6
|
1.0
|
|
H
|
J:SER9
|
4.6
|
65.0
|
1.0
|
|
CB
|
J:ARG43
|
4.6
|
62.6
|
1.0
|
|
H
|
J:LYS12
|
4.7
|
62.3
|
1.0
|
|
H
|
J:CYS45
|
4.7
|
59.0
|
1.0
|
|
O
|
J:SER9
|
4.7
|
65.0
|
1.0
|
|
CA
|
J:CYS7
|
4.8
|
59.7
|
1.0
|
|
CD
|
J:ARG43
|
4.8
|
62.6
|
1.0
|
|
HD3
|
J:LYS12
|
4.8
|
62.3
|
1.0
|
|
N
|
J:CYS45
|
4.8
|
59.0
|
1.0
|
|
NH2
|
J:ARG43
|
4.9
|
62.6
|
1.0
|
|
CZ
|
J:ARG43
|
5.0
|
62.6
|
1.0
|
|
HA
|
J:CYS45
|
5.0
|
59.0
|
1.0
|
|
Zinc binding site 8 out
of 8 in 8tvp
Go back to
Zinc Binding Sites List in 8tvp
Zinc binding site 8 out
of 8 in the Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State)
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 8 of Cryo-Em Structure of Cpd-Stalled Pol II in Complex with RAD26 (Open State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Zn101
b:192.3
occ:1.00
|
HB3
|
L:CYS34
|
1.8
|
144.8
|
1.0
|
|
HB2
|
L:CYS34
|
2.1
|
144.8
|
1.0
|
|
O
|
L:ALA32
|
2.2
|
130.1
|
1.0
|
|
CB
|
L:CYS34
|
2.3
|
144.8
|
1.0
|
|
SG
|
L:CYS51
|
2.3
|
145.9
|
1.0
|
|
SG
|
L:CYS31
|
2.3
|
145.4
|
1.0
|
|
N
|
L:CYS34
|
2.6
|
144.8
|
1.0
|
|
O
|
L:CYS31
|
2.7
|
145.4
|
1.0
|
|
H
|
L:CYS34
|
2.8
|
144.8
|
1.0
|
|
CA
|
L:CYS34
|
2.9
|
144.8
|
1.0
|
|
C
|
L:ALA32
|
2.9
|
130.1
|
1.0
|
|
C
|
L:GLU33
|
3.0
|
135.2
|
1.0
|
|
C
|
L:CYS31
|
3.0
|
145.4
|
1.0
|
|
HB3
|
L:CYS31
|
3.2
|
145.4
|
1.0
|
|
CB
|
L:CYS31
|
3.3
|
145.4
|
1.0
|
|
O
|
L:GLU33
|
3.4
|
135.2
|
1.0
|
|
N
|
L:ALA32
|
3.6
|
130.1
|
1.0
|
|
N
|
L:GLU33
|
3.7
|
135.2
|
1.0
|
|
CB
|
L:CYS51
|
3.7
|
145.9
|
1.0
|
|
HA
|
L:CYS34
|
3.7
|
144.8
|
1.0
|
|
HB2
|
L:GLU33
|
3.7
|
135.2
|
1.0
|
|
CA
|
L:CYS31
|
3.7
|
145.4
|
1.0
|
|
CA
|
L:GLU33
|
3.8
|
135.2
|
1.0
|
|
HB2
|
L:CYS51
|
3.8
|
145.9
|
1.0
|
|
C
|
L:CYS34
|
3.8
|
144.8
|
1.0
|
|
CA
|
L:ALA32
|
3.8
|
130.1
|
1.0
|
|
HB3
|
L:CYS51
|
3.9
|
145.9
|
1.0
|
|
SG
|
L:CYS34
|
3.9
|
144.8
|
1.0
|
|
O
|
L:CYS34
|
4.0
|
144.8
|
1.0
|
|
HG
|
L:CYS34
|
4.1
|
144.8
|
1.0
|
|
HB2
|
L:CYS31
|
4.1
|
145.4
|
1.0
|
|
H
|
L:ALA32
|
4.1
|
130.1
|
1.0
|
|
HA
|
L:CYS31
|
4.2
|
145.4
|
1.0
|
|
CB
|
L:GLU33
|
4.2
|
135.2
|
1.0
|
|
HA
|
L:ALA32
|
4.3
|
130.1
|
1.0
|
|
H
|
L:GLU33
|
4.4
|
135.2
|
1.0
|
|
HB3
|
L:CYS48
|
4.5
|
145.4
|
1.0
|
|
HB3
|
L:GLU33
|
4.6
|
135.2
|
1.0
|
|
HA
|
L:GLU33
|
4.6
|
135.2
|
1.0
|
|
H
|
L:SER36
|
4.7
|
146.3
|
1.0
|
|
OG
|
L:SER36
|
4.7
|
146.3
|
1.0
|
|
N
|
L:SER35
|
4.8
|
151.4
|
1.0
|
|
HG
|
L:SER36
|
4.9
|
146.3
|
1.0
|
|
HB2
|
L:ASP50
|
4.9
|
151.4
|
1.0
|
|
N
|
L:CYS31
|
4.9
|
145.4
|
1.0
|
|
HB3
|
L:ALA32
|
4.9
|
130.1
|
1.0
|
|
SG
|
L:CYS48
|
5.0
|
145.4
|
1.0
|
|
Reference:
R.D.Sarsam,
J.Xu,
I.Lahiri,
W.Gong,
Q.Li,
J.Oh,
Z.Zhou,
P.Hou,
J.Chong,
N.Hao,
S.Li,
D.Wang,
A.E.Leschziner.
ELF1 Promotes RAD26'S Interaction with Lesion-Arrested Pol II For Transcription-Coupled Repair. Proc.Natl.Acad.Sci.Usa V. 121 45121 2024.
ISSN: ESSN 1091-6490
PubMed: 38194460
DOI: 10.1073/PNAS.2314245121
Page generated: Thu Oct 31 11:48:31 2024
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