Zinc in PDB 8tvy: Cryo-Em Structure of Cpd Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State)
Enzymatic activity of Cryo-Em Structure of Cpd Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State)
All present enzymatic activity of Cryo-Em Structure of Cpd Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State):
2.7.7.6;
Other elements in 8tvy:
The structure of Cryo-Em Structure of Cpd Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State) also contains other interesting chemical elements:
Zinc Binding Sites:
The binding sites of Zinc atom in the Cryo-Em Structure of Cpd Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State)
(pdb code 8tvy). 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 Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State), PDB code: 8tvy:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Zinc binding site 1 out
of 8 in 8tvy
Go back to
Zinc Binding Sites List in 8tvy
Zinc binding site 1 out
of 8 in the Cryo-Em Structure of Cpd Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed 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 Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1801
b:129.5
occ:1.00
|
HB2
|
A:CYS110
|
1.3
|
98.5
|
1.0
|
|
CB
|
A:CYS110
|
2.0
|
98.5
|
1.0
|
|
SG
|
A:CYS107
|
2.3
|
100.4
|
1.0
|
|
SG
|
A:CYS110
|
2.3
|
98.5
|
1.0
|
|
HB3
|
A:CYS107
|
2.4
|
100.4
|
1.0
|
|
HA
|
A:CYS167
|
2.5
|
116.6
|
1.0
|
|
HB3
|
A:CYS110
|
2.7
|
98.5
|
1.0
|
|
CB
|
A:CYS107
|
2.7
|
100.4
|
1.0
|
|
H
|
A:CYS110
|
2.8
|
98.5
|
1.0
|
|
HB2
|
A:CYS107
|
2.9
|
100.4
|
1.0
|
|
CA
|
A:CYS110
|
3.1
|
98.5
|
1.0
|
|
N
|
A:CYS110
|
3.1
|
98.5
|
1.0
|
|
SG
|
A:CYS167
|
3.1
|
116.6
|
1.0
|
|
CA
|
A:CYS167
|
3.3
|
116.6
|
1.0
|
|
CB
|
A:CYS167
|
3.5
|
116.6
|
1.0
|
|
HB3
|
A:CYS167
|
3.5
|
116.6
|
1.0
|
|
HA
|
A:CYS110
|
3.8
|
98.5
|
1.0
|
|
N
|
A:CYS167
|
3.8
|
116.6
|
1.0
|
|
C
|
A:CYS110
|
3.9
|
98.5
|
1.0
|
|
HB3
|
A:HIS109
|
3.9
|
100.7
|
1.0
|
|
H
|
A:LYS112
|
3.9
|
89.6
|
1.0
|
|
H
|
A:GLY111
|
4.0
|
86.0
|
1.0
|
|
HB2
|
A:LYS112
|
4.0
|
89.6
|
1.0
|
|
H
|
A:CYS167
|
4.0
|
116.6
|
1.0
|
|
C
|
A:HIS109
|
4.0
|
100.7
|
1.0
|
|
H
|
A:HIS109
|
4.1
|
100.7
|
1.0
|
|
N
|
A:GLY111
|
4.2
|
86.0
|
1.0
|
|
CA
|
A:CYS107
|
4.2
|
100.4
|
1.0
|
|
HA
|
A:CYS107
|
4.4
|
100.4
|
1.0
|
|
HB2
|
A:CYS167
|
4.4
|
116.6
|
1.0
|
|
C
|
A:GLY166
|
4.5
|
124.8
|
1.0
|
|
HD2
|
A:LYS112
|
4.5
|
89.6
|
1.0
|
|
C
|
A:CYS167
|
4.6
|
116.6
|
1.0
|
|
N
|
A:LYS112
|
4.6
|
89.6
|
1.0
|
|
HG3
|
A:LYS112
|
4.7
|
89.6
|
1.0
|
|
CB
|
A:HIS109
|
4.7
|
100.7
|
1.0
|
|
O
|
A:GLY166
|
4.7
|
124.8
|
1.0
|
|
CA
|
A:HIS109
|
4.7
|
100.7
|
1.0
|
|
O
|
A:CYS110
|
4.8
|
98.5
|
1.0
|
|
O
|
A:CYS167
|
4.8
|
116.6
|
1.0
|
|
N
|
A:HIS109
|
4.8
|
100.7
|
1.0
|
|
H
|
A:CYS107
|
4.8
|
100.4
|
1.0
|
|
O
|
A:HIS109
|
4.8
|
100.7
|
1.0
|
|
CB
|
A:LYS112
|
4.8
|
89.6
|
1.0
|
|
C
|
A:CYS107
|
5.0
|
100.4
|
1.0
|
|
Zinc binding site 2 out
of 8 in 8tvy
Go back to
Zinc Binding Sites List in 8tvy
Zinc binding site 2 out
of 8 in the Cryo-Em Structure of Cpd Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed 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 Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn1802
b:140.1
occ:1.00
|
HE2
|
A:HIS80
|
1.6
|
56.5
|
1.0
|
|
SG
|
A:CYS67
|
2.3
|
76.2
|
1.0
|
|
NE2
|
A:HIS80
|
2.3
|
56.5
|
1.0
|
|
SG
|
A:CYS77
|
2.3
|
60.7
|
1.0
|
|
CE1
|
A:HIS80
|
3.1
|
56.5
|
1.0
|
|
HE1
|
A:HIS80
|
3.2
|
56.5
|
1.0
|
|
CD2
|
A:HIS80
|
3.3
|
56.5
|
1.0
|
|
HD2
|
A:PRO78
|
3.4
|
56.4
|
1.0
|
|
O
|
A:PRO78
|
3.4
|
56.4
|
1.0
|
|
HA
|
A:CYS77
|
3.4
|
60.7
|
1.0
|
|
HD2
|
A:HIS80
|
3.5
|
56.5
|
1.0
|
|
CB
|
A:CYS77
|
3.7
|
60.7
|
1.0
|
|
CA
|
A:CYS77
|
3.9
|
60.7
|
1.0
|
|
CB
|
A:CYS67
|
4.0
|
76.2
|
1.0
|
|
HB2
|
A:CYS77
|
4.0
|
60.7
|
1.0
|
|
C
|
A:CYS77
|
4.1
|
60.7
|
1.0
|
|
CD
|
A:PRO78
|
4.1
|
56.4
|
1.0
|
|
HA
|
A:CYS67
|
4.2
|
76.2
|
1.0
|
|
N
|
A:PRO78
|
4.2
|
56.4
|
1.0
|
|
ND1
|
A:HIS80
|
4.2
|
56.5
|
1.0
|
|
CG
|
A:HIS80
|
4.3
|
56.5
|
1.0
|
|
HA
|
B:ILE1172
|
4.3
|
58.0
|
1.0
|
|
HB2
|
A:CYS67
|
4.3
|
76.2
|
1.0
|
|
O
|
A:CYS67
|
4.4
|
76.2
|
1.0
|
|
HB3
|
A:CYS77
|
4.4
|
60.7
|
1.0
|
|
C
|
A:PRO78
|
4.5
|
56.4
|
1.0
|
|
CA
|
A:CYS67
|
4.5
|
76.2
|
1.0
|
|
HB3
|
A:CYS67
|
4.6
|
76.2
|
1.0
|
|
C
|
A:CYS67
|
4.6
|
76.2
|
1.0
|
|
HG23
|
B:ILE1172
|
4.6
|
58.0
|
1.0
|
|
HD3
|
A:PRO78
|
4.6
|
56.4
|
1.0
|
|
HB2
|
A:GLU72
|
4.6
|
69.4
|
1.0
|
|
O
|
A:CYS77
|
4.7
|
60.7
|
1.0
|
|
H
|
B:ALA1173
|
4.8
|
56.4
|
1.0
|
|
CA
|
A:PRO78
|
4.9
|
56.4
|
1.0
|
|
HB2
|
A:GLN68
|
5.0
|
71.3
|
1.0
|
|
HG12
|
B:ILE1172
|
5.0
|
58.0
|
1.0
|
|
Zinc binding site 3 out
of 8 in 8tvy
Go back to
Zinc Binding Sites List in 8tvy
Zinc binding site 3 out
of 8 in the Cryo-Em Structure of Cpd Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed 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 Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn2701
b:74.3
occ:1.00
|
SG
|
B:CYS1185
|
2.3
|
65.3
|
1.0
|
|
SG
|
B:CYS1166
|
2.3
|
56.3
|
1.0
|
|
SG
|
B:CYS1182
|
2.3
|
57.3
|
1.0
|
|
SG
|
B:CYS1163
|
2.3
|
47.0
|
1.0
|
|
HB2
|
B:CYS1166
|
2.5
|
56.3
|
1.0
|
|
H
|
B:CYS1166
|
2.7
|
56.3
|
1.0
|
|
CB
|
B:CYS1166
|
2.9
|
56.3
|
1.0
|
|
HB2
|
B:CYS1185
|
3.0
|
65.3
|
1.0
|
|
HB2
|
B:CYS1163
|
3.3
|
47.0
|
1.0
|
|
CB
|
B:CYS1185
|
3.3
|
65.3
|
1.0
|
|
CB
|
B:CYS1163
|
3.3
|
47.0
|
1.0
|
|
N
|
B:CYS1166
|
3.4
|
56.3
|
1.0
|
|
HB3
|
B:CYS1163
|
3.5
|
47.0
|
1.0
|
|
HB3
|
B:CYS1182
|
3.5
|
57.3
|
1.0
|
|
CB
|
B:CYS1182
|
3.6
|
57.3
|
1.0
|
|
HB3
|
B:CYS1166
|
3.7
|
56.3
|
1.0
|
|
CA
|
B:CYS1166
|
3.7
|
56.3
|
1.0
|
|
HB
|
B:ILE1165
|
3.7
|
57.4
|
1.0
|
|
HB2
|
B:CYS1182
|
3.9
|
57.3
|
1.0
|
|
HB3
|
B:CYS1185
|
3.9
|
65.3
|
1.0
|
|
HG1
|
B:THR1170
|
3.9
|
49.6
|
1.0
|
|
HA
|
B:CYS1166
|
4.1
|
56.3
|
1.0
|
|
H
|
B:ILE1165
|
4.2
|
57.4
|
1.0
|
|
H
|
B:CYS1185
|
4.2
|
65.3
|
1.0
|
|
HD22
|
B:ASN1187
|
4.4
|
58.9
|
1.0
|
|
OG1
|
B:THR1170
|
4.4
|
49.6
|
1.0
|
|
N
|
B:CYS1185
|
4.5
|
65.3
|
1.0
|
|
CA
|
B:CYS1185
|
4.5
|
65.3
|
1.0
|
|
HB3
|
B:ASN1187
|
4.5
|
58.9
|
1.0
|
|
C
|
B:ILE1165
|
4.5
|
57.4
|
1.0
|
|
CB
|
B:ILE1165
|
4.6
|
57.4
|
1.0
|
|
HG22
|
B:ILE1165
|
4.6
|
57.4
|
1.0
|
|
O
|
B:CYS1182
|
4.7
|
57.3
|
1.0
|
|
CA
|
B:CYS1163
|
4.8
|
47.0
|
1.0
|
|
H
|
B:GLY1167
|
4.8
|
48.9
|
1.0
|
|
HA
|
B:CYS1185
|
4.9
|
65.3
|
1.0
|
|
CA
|
B:CYS1182
|
4.9
|
57.3
|
1.0
|
|
N
|
B:ILE1165
|
4.9
|
57.4
|
1.0
|
|
HD13
|
B:ILE1165
|
4.9
|
57.4
|
1.0
|
|
CA
|
B:ILE1165
|
4.9
|
57.4
|
1.0
|
|
C
|
B:CYS1166
|
5.0
|
56.3
|
1.0
|
|
Zinc binding site 4 out
of 8 in 8tvy
Go back to
Zinc Binding Sites List in 8tvy
Zinc binding site 4 out
of 8 in the Cryo-Em Structure of Cpd Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed 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 Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn3001
b:95.5
occ:1.00
|
SG
|
C:CYS88
|
2.3
|
77.8
|
1.0
|
|
SG
|
C:CYS92
|
2.3
|
55.8
|
1.0
|
|
SG
|
C:CYS86
|
2.3
|
66.5
|
1.0
|
|
SG
|
C:CYS95
|
2.3
|
53.1
|
1.0
|
|
HB3
|
C:CYS88
|
2.8
|
77.8
|
1.0
|
|
HB3
|
C:CYS86
|
2.8
|
66.5
|
1.0
|
|
HB3
|
C:CYS95
|
3.0
|
53.1
|
1.0
|
|
CB
|
C:CYS86
|
3.1
|
66.5
|
1.0
|
|
CB
|
C:CYS88
|
3.1
|
77.8
|
1.0
|
|
CB
|
C:CYS95
|
3.3
|
53.1
|
1.0
|
|
HB2
|
C:CYS86
|
3.3
|
66.5
|
1.0
|
|
HB3
|
C:CYS92
|
3.4
|
55.8
|
1.0
|
|
CB
|
C:CYS92
|
3.4
|
55.8
|
1.0
|
|
H
|
C:CYS92
|
3.5
|
55.8
|
1.0
|
|
H
|
C:CYS88
|
3.5
|
77.8
|
1.0
|
|
N
|
C:CYS92
|
3.7
|
55.8
|
1.0
|
|
HG3
|
C:LYS94
|
3.7
|
53.1
|
1.0
|
|
HB2
|
C:CYS88
|
3.7
|
77.8
|
1.0
|
|
HA
|
C:HIS91
|
3.9
|
58.9
|
1.0
|
|
HB2
|
C:CYS95
|
4.0
|
53.1
|
1.0
|
|
H
|
C:CYS95
|
4.0
|
53.1
|
1.0
|
|
CA
|
C:CYS92
|
4.1
|
55.8
|
1.0
|
|
C
|
C:HIS91
|
4.1
|
58.9
|
1.0
|
|
N
|
C:CYS95
|
4.2
|
53.1
|
1.0
|
|
N
|
C:CYS88
|
4.2
|
77.8
|
1.0
|
|
HB2
|
C:CYS92
|
4.3
|
55.8
|
1.0
|
|
HG2
|
C:LYS94
|
4.3
|
53.1
|
1.0
|
|
CA
|
C:CYS88
|
4.3
|
77.8
|
1.0
|
|
CA
|
C:CYS95
|
4.3
|
53.1
|
1.0
|
|
CG
|
C:LYS94
|
4.4
|
53.1
|
1.0
|
|
CA
|
C:CYS86
|
4.5
|
66.5
|
1.0
|
|
CA
|
C:HIS91
|
4.5
|
58.9
|
1.0
|
|
C
|
C:CYS92
|
4.6
|
55.8
|
1.0
|
|
HA
|
C:SER83
|
4.7
|
54.0
|
1.0
|
|
H
|
C:LYS94
|
4.7
|
53.1
|
1.0
|
|
O
|
C:HIS91
|
4.7
|
58.9
|
1.0
|
|
HD2
|
C:LYS94
|
4.7
|
53.1
|
1.0
|
|
H
|
C:PHE87
|
4.8
|
79.2
|
1.0
|
|
HA
|
C:CYS86
|
4.8
|
66.5
|
1.0
|
|
O
|
C:CYS92
|
4.9
|
55.8
|
1.0
|
|
C
|
C:CYS86
|
4.9
|
66.5
|
1.0
|
|
HZ2
|
C:LYS94
|
4.9
|
53.1
|
1.0
|
|
HA
|
C:CYS92
|
4.9
|
55.8
|
1.0
|
|
C
|
C:LYS94
|
4.9
|
53.1
|
1.0
|
|
HA
|
C:CYS88
|
4.9
|
77.8
|
1.0
|
|
C
|
C:CYS95
|
5.0
|
53.1
|
1.0
|
|
N
|
C:PHE87
|
5.0
|
79.2
|
1.0
|
|
HG
|
C:SER83
|
5.0
|
54.0
|
1.0
|
|
Zinc binding site 5 out
of 8 in 8tvy
Go back to
Zinc Binding Sites List in 8tvy
Zinc binding site 5 out
of 8 in the Cryo-Em Structure of Cpd Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed 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 Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Zn3901
b:188.0
occ:1.00
|
HB2
|
I:CYS10
|
2.0
|
143.1
|
1.0
|
|
HB2
|
I:CYS32
|
2.3
|
157.2
|
1.0
|
|
SG
|
I:CYS32
|
2.3
|
157.2
|
1.0
|
|
SG
|
I:CYS10
|
2.3
|
143.1
|
1.0
|
|
SG
|
I:CYS29
|
2.3
|
155.3
|
1.0
|
|
HB2
|
I:CYS29
|
2.4
|
155.3
|
1.0
|
|
HB3
|
I:CYS29
|
2.5
|
155.3
|
1.0
|
|
CB
|
I:CYS10
|
2.5
|
143.1
|
1.0
|
|
CB
|
I:CYS29
|
2.5
|
155.3
|
1.0
|
|
CB
|
I:CYS32
|
2.7
|
157.2
|
1.0
|
|
SG
|
I:CYS7
|
2.9
|
145.6
|
1.0
|
|
HB3
|
I:CYS10
|
2.9
|
143.1
|
1.0
|
|
HB3
|
I:CYS7
|
3.1
|
145.6
|
1.0
|
|
HB2
|
I:CYS7
|
3.2
|
145.6
|
1.0
|
|
HB3
|
I:CYS32
|
3.2
|
157.2
|
1.0
|
|
CB
|
I:CYS7
|
3.3
|
145.6
|
1.0
|
|
HB2
|
I:ASN12
|
3.5
|
135.1
|
1.0
|
|
HD22
|
I:ASN12
|
3.6
|
135.1
|
1.0
|
|
CA
|
I:CYS10
|
3.8
|
143.1
|
1.0
|
|
H
|
I:CYS10
|
4.0
|
143.1
|
1.0
|
|
CA
|
I:CYS32
|
4.0
|
157.2
|
1.0
|
|
CA
|
I:CYS29
|
4.0
|
155.3
|
1.0
|
|
H
|
I:CYS32
|
4.1
|
157.2
|
1.0
|
|
H
|
I:ASN12
|
4.1
|
135.1
|
1.0
|
|
N
|
I:CYS10
|
4.1
|
143.1
|
1.0
|
|
N
|
I:CYS32
|
4.2
|
157.2
|
1.0
|
|
HB3
|
I:TYR34
|
4.2
|
155.7
|
1.0
|
|
ND2
|
I:ASN12
|
4.4
|
135.1
|
1.0
|
|
HA
|
I:CYS29
|
4.4
|
155.3
|
1.0
|
|
HA
|
I:CYS10
|
4.5
|
143.1
|
1.0
|
|
H
|
I:CYS29
|
4.5
|
155.3
|
1.0
|
|
CB
|
I:ASN12
|
4.5
|
135.1
|
1.0
|
|
C
|
I:CYS10
|
4.6
|
143.1
|
1.0
|
|
H
|
I:TYR34
|
4.6
|
155.7
|
1.0
|
|
HA
|
I:CYS32
|
4.7
|
157.2
|
1.0
|
|
C
|
I:CYS29
|
4.8
|
155.3
|
1.0
|
|
N
|
I:CYS29
|
4.8
|
155.3
|
1.0
|
|
C
|
I:CYS32
|
4.8
|
157.2
|
1.0
|
|
CA
|
I:CYS7
|
4.8
|
145.6
|
1.0
|
|
N
|
I:ASN12
|
4.9
|
135.1
|
1.0
|
|
HB3
|
I:ASN12
|
4.9
|
135.1
|
1.0
|
|
C
|
I:THR31
|
5.0
|
150.2
|
1.0
|
|
HD21
|
I:ASN12
|
5.0
|
135.1
|
1.0
|
|
H
|
I:THR31
|
5.0
|
150.2
|
1.0
|
|
CG
|
I:ASN12
|
5.0
|
135.1
|
1.0
|
|
H
|
I:ASN11
|
5.0
|
133.6
|
1.0
|
|
Zinc binding site 6 out
of 8 in 8tvy
Go back to
Zinc Binding Sites List in 8tvy
Zinc binding site 6 out
of 8 in the Cryo-Em Structure of Cpd Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed 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 Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Zn3902
b:159.3
occ:1.00
|
HB2
|
I:CYS78
|
1.4
|
99.1
|
1.0
|
|
CB
|
I:CYS78
|
2.0
|
99.1
|
1.0
|
|
HB3
|
I:CYS78
|
2.3
|
99.1
|
1.0
|
|
SG
|
I:CYS78
|
2.3
|
99.1
|
1.0
|
|
SG
|
I:CYS106
|
2.3
|
90.1
|
1.0
|
|
SG
|
I:CYS103
|
2.3
|
84.6
|
1.0
|
|
SG
|
I:CYS75
|
2.3
|
92.7
|
1.0
|
|
HB3
|
I:CYS75
|
2.6
|
92.7
|
1.0
|
|
CB
|
I:CYS75
|
2.8
|
92.7
|
1.0
|
|
HB2
|
I:CYS75
|
2.9
|
92.7
|
1.0
|
|
HB2
|
I:CYS106
|
3.1
|
90.1
|
1.0
|
|
HB3
|
I:SER80
|
3.1
|
93.2
|
1.0
|
|
CB
|
I:CYS106
|
3.3
|
90.1
|
1.0
|
|
CA
|
I:CYS78
|
3.3
|
99.1
|
1.0
|
|
HB2
|
I:CYS103
|
3.5
|
84.6
|
1.0
|
|
H
|
I:SER80
|
3.5
|
93.2
|
1.0
|
|
CB
|
I:CYS103
|
3.5
|
84.6
|
1.0
|
|
HB3
|
I:CYS103
|
3.7
|
84.6
|
1.0
|
|
HB3
|
I:CYS106
|
3.7
|
90.1
|
1.0
|
|
H
|
I:CYS78
|
3.7
|
99.1
|
1.0
|
|
HB2
|
I:SER80
|
3.8
|
93.2
|
1.0
|
|
N
|
I:CYS78
|
3.8
|
99.1
|
1.0
|
|
CB
|
I:SER80
|
3.9
|
93.2
|
1.0
|
|
C
|
I:CYS78
|
4.0
|
99.1
|
1.0
|
|
HA
|
I:CYS78
|
4.0
|
99.1
|
1.0
|
|
HG
|
I:SER105
|
4.1
|
85.7
|
1.0
|
|
OG
|
I:SER105
|
4.2
|
85.7
|
1.0
|
|
N
|
I:SER80
|
4.3
|
93.2
|
1.0
|
|
CA
|
I:CYS75
|
4.3
|
92.7
|
1.0
|
|
H
|
I:HIS79
|
4.4
|
94.8
|
1.0
|
|
HB3
|
I:HIS108
|
4.4
|
85.1
|
1.0
|
|
N
|
I:HIS79
|
4.4
|
94.8
|
1.0
|
|
HG3
|
I:LYS77
|
4.5
|
93.2
|
1.0
|
|
O
|
I:CYS78
|
4.6
|
99.1
|
1.0
|
|
CA
|
I:CYS106
|
4.6
|
90.1
|
1.0
|
|
N
|
I:CYS106
|
4.7
|
90.1
|
1.0
|
|
H
|
I:CYS106
|
4.7
|
90.1
|
1.0
|
|
CA
|
I:SER80
|
4.7
|
93.2
|
1.0
|
|
C
|
I:LYS77
|
4.7
|
93.2
|
1.0
|
|
HA
|
I:CYS75
|
4.8
|
92.7
|
1.0
|
|
HG
|
I:SER80
|
4.8
|
93.2
|
1.0
|
|
HD1
|
I:HIS108
|
4.8
|
85.1
|
1.0
|
|
H
|
I:CYS75
|
4.8
|
92.7
|
1.0
|
|
C
|
I:CYS75
|
4.9
|
92.7
|
1.0
|
|
CA
|
I:CYS103
|
4.9
|
84.6
|
1.0
|
|
H
|
I:SER105
|
4.9
|
85.7
|
1.0
|
|
OG
|
I:SER80
|
4.9
|
93.2
|
1.0
|
|
O
|
I:CYS75
|
5.0
|
92.7
|
1.0
|
|
Zinc binding site 7 out
of 8 in 8tvy
Go back to
Zinc Binding Sites List in 8tvy
Zinc binding site 7 out
of 8 in the Cryo-Em Structure of Cpd Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed 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 Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
J:Zn4001
b:54.9
occ:1.00
|
HB2
|
J:CYS10
|
2.3
|
34.8
|
1.0
|
|
SG
|
J:CYS45
|
2.3
|
30.4
|
1.0
|
|
SG
|
J:CYS46
|
2.3
|
31.9
|
1.0
|
|
SG
|
J:CYS7
|
2.3
|
31.8
|
1.0
|
|
HB3
|
J:CYS7
|
2.8
|
31.8
|
1.0
|
|
CB
|
J:CYS7
|
3.1
|
31.8
|
1.0
|
|
CB
|
J:CYS10
|
3.2
|
34.8
|
1.0
|
|
H
|
J:CYS10
|
3.3
|
34.8
|
1.0
|
|
HB2
|
J:CYS7
|
3.4
|
31.8
|
1.0
|
|
HA
|
J:CYS46
|
3.6
|
31.9
|
1.0
|
|
CB
|
J:CYS46
|
3.6
|
31.9
|
1.0
|
|
N
|
J:CYS46
|
3.6
|
31.9
|
1.0
|
|
CB
|
J:CYS45
|
3.7
|
30.4
|
1.0
|
|
HB2
|
J:CYS45
|
3.7
|
30.4
|
1.0
|
|
H
|
J:LYS12
|
3.7
|
34.8
|
1.0
|
|
HB3
|
J:LYS12
|
3.7
|
34.8
|
1.0
|
|
SG
|
J:CYS10
|
3.7
|
34.8
|
1.0
|
|
C
|
J:CYS45
|
3.8
|
30.4
|
1.0
|
|
HB3
|
J:CYS10
|
3.8
|
34.8
|
1.0
|
|
H
|
J:GLY11
|
3.8
|
33.6
|
1.0
|
|
HE
|
J:ARG43
|
3.8
|
34.1
|
1.0
|
|
HH21
|
J:ARG43
|
3.8
|
34.1
|
1.0
|
|
CA
|
J:CYS46
|
3.8
|
31.9
|
1.0
|
|
H
|
J:CYS46
|
3.8
|
31.9
|
1.0
|
|
N
|
J:CYS10
|
4.0
|
34.8
|
1.0
|
|
HB3
|
J:CYS46
|
4.0
|
31.9
|
1.0
|
|
O
|
J:CYS45
|
4.0
|
30.4
|
1.0
|
|
CA
|
J:CYS10
|
4.1
|
34.8
|
1.0
|
|
HB2
|
J:LYS12
|
4.2
|
34.8
|
1.0
|
|
OG
|
J:SER9
|
4.3
|
30.9
|
1.0
|
|
HB2
|
J:CYS46
|
4.4
|
31.9
|
1.0
|
|
CA
|
J:CYS45
|
4.4
|
30.4
|
1.0
|
|
NH2
|
J:ARG43
|
4.4
|
34.1
|
1.0
|
|
N
|
J:GLY11
|
4.4
|
33.6
|
1.0
|
|
HB3
|
J:CYS45
|
4.4
|
30.4
|
1.0
|
|
CB
|
J:LYS12
|
4.4
|
34.8
|
1.0
|
|
HG3
|
J:ARG43
|
4.4
|
34.1
|
1.0
|
|
NE
|
J:ARG43
|
4.4
|
34.1
|
1.0
|
|
CA
|
J:CYS7
|
4.5
|
31.8
|
1.0
|
|
N
|
J:LYS12
|
4.5
|
34.8
|
1.0
|
|
HG
|
J:SER9
|
4.6
|
30.9
|
1.0
|
|
C
|
J:CYS7
|
4.7
|
31.8
|
1.0
|
|
C
|
J:CYS10
|
4.7
|
34.8
|
1.0
|
|
HG3
|
J:MET49
|
4.7
|
31.7
|
1.0
|
|
CZ
|
J:ARG43
|
4.8
|
34.1
|
1.0
|
|
O
|
J:CYS7
|
4.8
|
31.8
|
1.0
|
|
H
|
J:SER9
|
4.9
|
30.9
|
1.0
|
|
HH22
|
J:ARG43
|
4.9
|
34.1
|
1.0
|
|
HD3
|
J:LYS12
|
4.9
|
34.8
|
1.0
|
|
HA
|
J:CYS10
|
5.0
|
34.8
|
1.0
|
|
HA
|
J:CYS7
|
5.0
|
31.8
|
1.0
|
|
Zinc binding site 8 out
of 8 in 8tvy
Go back to
Zinc Binding Sites List in 8tvy
Zinc binding site 8 out
of 8 in the Cryo-Em Structure of Cpd Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed 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 Lesion Containing Rna Polymerase II Elongation Complex with RAD26 and ELF1 (Closed State) within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Zn4101
b:238.3
occ:1.00
|
HB3
|
L:CYS34
|
1.3
|
76.2
|
1.0
|
|
CB
|
L:CYS34
|
2.0
|
76.2
|
1.0
|
|
SG
|
L:CYS34
|
2.3
|
76.2
|
1.0
|
|
SG
|
L:CYS51
|
2.3
|
75.0
|
1.0
|
|
HB2
|
L:CYS34
|
2.7
|
76.2
|
1.0
|
|
HA
|
L:CYS34
|
2.9
|
76.2
|
1.0
|
|
H
|
L:SER35
|
3.0
|
81.2
|
1.0
|
|
CA
|
L:CYS34
|
3.0
|
76.2
|
1.0
|
|
N
|
L:SER35
|
3.6
|
81.2
|
1.0
|
|
H
|
L:SER36
|
3.7
|
75.6
|
1.0
|
|
C
|
L:CYS34
|
3.9
|
76.2
|
1.0
|
|
CB
|
L:CYS51
|
4.0
|
75.0
|
1.0
|
|
OG
|
L:SER36
|
4.0
|
75.6
|
1.0
|
|
HG
|
L:SER36
|
4.1
|
75.6
|
1.0
|
|
N
|
L:CYS34
|
4.2
|
76.2
|
1.0
|
|
HB3
|
L:CYS51
|
4.2
|
75.0
|
1.0
|
|
O
|
L:GLU33
|
4.3
|
70.0
|
1.0
|
|
N
|
L:SER36
|
4.5
|
75.6
|
1.0
|
|
HB2
|
L:CYS51
|
4.6
|
75.0
|
1.0
|
|
OD1
|
L:ASP50
|
4.6
|
76.7
|
1.0
|
|
HA
|
L:CYS51
|
4.6
|
75.0
|
1.0
|
|
C
|
L:GLU33
|
4.6
|
70.0
|
1.0
|
|
HB3
|
L:CYS31
|
4.7
|
68.2
|
1.0
|
|
O
|
L:ASP50
|
4.7
|
76.7
|
1.0
|
|
H
|
L:CYS34
|
4.8
|
76.2
|
1.0
|
|
HB2
|
L:SER36
|
4.8
|
75.6
|
1.0
|
|
SG
|
L:CYS31
|
4.8
|
68.2
|
1.0
|
|
CA
|
L:CYS51
|
4.9
|
75.0
|
1.0
|
|
CA
|
L:SER35
|
4.9
|
81.2
|
1.0
|
|
CB
|
L:SER36
|
4.9
|
75.6
|
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 11:55:53 2024
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