Zinc in PDB 8uha: Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted
Enzymatic activity of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted
All present enzymatic activity of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted:
2.7.7.6;
Other elements in 8uha:
The structure of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted also contains other interesting chemical elements:
Zinc Binding Sites:
The binding sites of Zinc atom in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted
(pdb code 8uha). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 9 binding sites of Zinc where determined in the
Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted, PDB code: 8uha:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
Zinc binding site 1 out
of 9 in 8uha
Go back to
Zinc Binding Sites List in 8uha
Zinc binding site 1 out
of 9 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Y:Zn201
b:145.0
occ:1.00
|
SG
|
Y:CYS16
|
2.3
|
140.6
|
1.0
|
|
SG
|
Y:CYS33
|
2.3
|
155.0
|
1.0
|
|
SG
|
Y:CYS19
|
2.3
|
120.4
|
1.0
|
|
H
|
Y:CYS19
|
3.0
|
120.4
|
1.0
|
|
HB3
|
Y:CYS16
|
3.0
|
140.6
|
1.0
|
|
CB
|
Y:CYS16
|
3.0
|
140.6
|
1.0
|
|
HB2
|
Y:CYS16
|
3.1
|
140.6
|
1.0
|
|
HB3
|
Y:LEU18
|
3.4
|
151.9
|
1.0
|
|
HB3
|
Y:LEU21
|
3.7
|
127.0
|
1.0
|
|
HB2
|
Y:CYS33
|
3.7
|
155.0
|
1.0
|
|
CB
|
Y:CYS33
|
3.7
|
155.0
|
1.0
|
|
N
|
Y:CYS19
|
3.8
|
120.4
|
1.0
|
|
CB
|
Y:CYS19
|
3.8
|
120.4
|
1.0
|
|
H
|
Y:LEU21
|
3.9
|
127.0
|
1.0
|
|
HD12
|
Y:LEU40
|
3.9
|
178.0
|
1.0
|
|
H
|
Y:LEU18
|
4.0
|
151.9
|
1.0
|
|
HB3
|
Y:CYS19
|
4.1
|
120.4
|
1.0
|
|
HB2
|
Y:LEU21
|
4.1
|
127.0
|
1.0
|
|
HD11
|
Y:LEU40
|
4.1
|
178.0
|
1.0
|
|
HB2
|
Y:ASN35
|
4.2
|
136.5
|
1.0
|
|
HB3
|
Y:CYS33
|
4.2
|
155.0
|
1.0
|
|
HD23
|
Y:LEU18
|
4.3
|
151.9
|
1.0
|
|
CA
|
Y:CYS19
|
4.3
|
120.4
|
1.0
|
|
CB
|
Y:LEU18
|
4.3
|
151.9
|
1.0
|
|
H
|
Y:CYS36
|
4.3
|
162.8
|
1.0
|
|
CB
|
Y:LEU21
|
4.4
|
127.0
|
1.0
|
|
HB2
|
Y:CYS36
|
4.4
|
162.8
|
1.0
|
|
CD1
|
Y:LEU40
|
4.4
|
178.0
|
1.0
|
|
HD23
|
Y:LEU21
|
4.5
|
127.0
|
1.0
|
|
H
|
Y:SER20
|
4.5
|
127.8
|
1.0
|
|
HB2
|
Y:CYS19
|
4.5
|
120.4
|
1.0
|
|
CA
|
Y:CYS16
|
4.5
|
140.6
|
1.0
|
|
HD13
|
Y:LEU40
|
4.6
|
178.0
|
1.0
|
|
HE1
|
Y:MET42
|
4.6
|
179.1
|
1.0
|
|
HD22
|
Y:ASN35
|
4.6
|
136.5
|
1.0
|
|
HA
|
Y:CYS33
|
4.7
|
155.0
|
1.0
|
|
N
|
Y:LEU21
|
4.7
|
127.0
|
1.0
|
|
HD22
|
Y:LEU21
|
4.7
|
127.0
|
1.0
|
|
HB2
|
Y:LEU18
|
4.7
|
151.9
|
1.0
|
|
N
|
Y:LEU18
|
4.7
|
151.9
|
1.0
|
|
H
|
Y:ASN35
|
4.8
|
136.5
|
1.0
|
|
HE1
|
Y:PHE28
|
4.8
|
149.6
|
1.0
|
|
C
|
Y:CYS19
|
4.8
|
120.4
|
1.0
|
|
C
|
Y:LEU18
|
4.8
|
151.9
|
1.0
|
|
N
|
Y:SER20
|
4.8
|
127.8
|
1.0
|
|
HA
|
Y:CYS16
|
4.8
|
140.6
|
1.0
|
|
HE3
|
Y:MET42
|
4.8
|
179.1
|
1.0
|
|
CA
|
Y:LEU18
|
4.9
|
151.9
|
1.0
|
|
CA
|
Y:CYS33
|
4.9
|
155.0
|
1.0
|
|
HG
|
Y:LEU18
|
5.0
|
151.9
|
1.0
|
|
Zinc binding site 2 out
of 9 in 8uha
Go back to
Zinc Binding Sites List in 8uha
Zinc binding site 2 out
of 9 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn2001
b:239.9
occ:1.00
|
OG1
|
A:THR73
|
2.0
|
216.9
|
1.0
|
|
NE2
|
A:HIS84
|
2.1
|
217.9
|
1.0
|
|
SG
|
A:CYS81
|
2.2
|
217.7
|
1.0
|
|
SG
|
A:CYS71
|
2.3
|
215.7
|
1.0
|
|
HD2
|
A:HIS84
|
2.5
|
217.9
|
1.0
|
|
CD2
|
A:HIS84
|
2.6
|
217.9
|
1.0
|
|
HB2
|
A:CYS71
|
2.6
|
215.7
|
1.0
|
|
CB
|
A:CYS71
|
2.9
|
215.7
|
1.0
|
|
HB3
|
A:CYS71
|
3.2
|
215.7
|
1.0
|
|
CE1
|
A:HIS84
|
3.3
|
217.9
|
1.0
|
|
HB2
|
A:CYS81
|
3.4
|
217.7
|
1.0
|
|
CB
|
A:THR73
|
3.4
|
216.9
|
1.0
|
|
H
|
A:CYS74
|
3.5
|
203.4
|
1.0
|
|
CB
|
A:CYS81
|
3.5
|
217.7
|
1.0
|
|
H
|
A:THR73
|
3.6
|
216.9
|
1.0
|
|
HE1
|
A:HIS84
|
3.7
|
217.9
|
1.0
|
|
O
|
A:ARG61
|
3.9
|
222.0
|
1.0
|
|
CG
|
A:HIS84
|
3.9
|
217.9
|
1.0
|
|
HB
|
A:THR73
|
3.9
|
216.9
|
1.0
|
|
SG
|
A:CYS74
|
4.0
|
203.4
|
1.0
|
|
N
|
A:CYS74
|
4.0
|
203.4
|
1.0
|
|
HG21
|
A:THR73
|
4.0
|
216.9
|
1.0
|
|
HA2
|
A:GLY63
|
4.0
|
221.0
|
1.0
|
|
HB2
|
A:CYS74
|
4.0
|
203.4
|
1.0
|
|
HB3
|
A:CYS81
|
4.1
|
217.7
|
1.0
|
|
N
|
A:THR73
|
4.1
|
216.9
|
1.0
|
|
HG
|
A:CYS74
|
4.1
|
203.4
|
1.0
|
|
ND1
|
A:HIS84
|
4.2
|
217.9
|
1.0
|
|
CG2
|
A:THR73
|
4.2
|
216.9
|
1.0
|
|
CA
|
A:THR73
|
4.2
|
216.9
|
1.0
|
|
HG23
|
A:THR73
|
4.3
|
216.9
|
1.0
|
|
HA
|
A:CYS81
|
4.3
|
217.7
|
1.0
|
|
CA
|
A:CYS71
|
4.3
|
215.7
|
1.0
|
|
H
|
A:GLY83
|
4.3
|
217.8
|
1.0
|
|
CB
|
A:CYS74
|
4.5
|
203.4
|
1.0
|
|
C
|
A:THR73
|
4.5
|
216.9
|
1.0
|
|
CA
|
A:CYS81
|
4.5
|
217.7
|
1.0
|
|
HD2
|
A:PRO82
|
4.6
|
211.6
|
1.0
|
|
C
|
A:CYS71
|
4.7
|
215.7
|
1.0
|
|
HA2
|
A:GLY83
|
4.8
|
217.8
|
1.0
|
|
H
|
A:GLY76
|
4.8
|
213.4
|
1.0
|
|
HA
|
A:CYS71
|
4.9
|
215.7
|
1.0
|
|
CA
|
A:CYS74
|
4.9
|
203.4
|
1.0
|
|
CA
|
A:GLY63
|
4.9
|
221.0
|
1.0
|
|
H
|
A:CYS71
|
4.9
|
215.7
|
1.0
|
|
N
|
A:GLY63
|
5.0
|
221.0
|
1.0
|
|
C
|
A:ARG61
|
5.0
|
222.0
|
1.0
|
|
HD1
|
A:HIS84
|
5.0
|
217.9
|
1.0
|
|
Zinc binding site 3 out
of 9 in 8uha
Go back to
Zinc Binding Sites List in 8uha
Zinc binding site 3 out
of 9 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn2002
b:292.1
occ:1.00
|
HG
|
A:CYS111
|
1.1
|
245.3
|
1.0
|
|
HG
|
A:CYS114
|
1.8
|
246.6
|
1.0
|
|
HG
|
A:CYS154
|
1.8
|
243.8
|
1.0
|
|
SG
|
A:CYS154
|
2.1
|
243.8
|
1.0
|
|
SG
|
A:CYS111
|
2.1
|
245.3
|
1.0
|
|
HB2
|
A:CYS111
|
2.6
|
245.3
|
1.0
|
|
SG
|
A:CYS114
|
2.8
|
246.6
|
1.0
|
|
CB
|
A:CYS111
|
2.8
|
245.3
|
1.0
|
|
H
|
A:CYS114
|
2.8
|
246.6
|
1.0
|
|
HG
|
A:CYS184
|
2.9
|
240.1
|
1.0
|
|
HB3
|
A:CYS111
|
3.1
|
245.3
|
1.0
|
|
HB2
|
A:PHE113
|
3.2
|
227.9
|
1.0
|
|
HE22
|
A:GLN188
|
3.3
|
237.2
|
1.0
|
|
H
|
A:PHE113
|
3.6
|
227.9
|
1.0
|
|
N
|
A:CYS114
|
3.7
|
246.6
|
1.0
|
|
CB
|
A:CYS154
|
3.7
|
243.8
|
1.0
|
|
OE1
|
A:GLN188
|
3.8
|
237.2
|
1.0
|
|
HD2
|
A:PHE113
|
3.9
|
227.9
|
1.0
|
|
HB3
|
A:CYS154
|
3.9
|
243.8
|
1.0
|
|
HB2
|
A:ARG186
|
3.9
|
224.3
|
1.0
|
|
CB
|
A:CYS114
|
3.9
|
246.6
|
1.0
|
|
HB3
|
A:CYS114
|
4.0
|
246.6
|
1.0
|
|
SG
|
A:CYS184
|
4.0
|
240.1
|
1.0
|
|
NE2
|
A:GLN188
|
4.1
|
237.2
|
1.0
|
|
CB
|
A:PHE113
|
4.2
|
227.9
|
1.0
|
|
CA
|
A:CYS111
|
4.2
|
245.3
|
1.0
|
|
HB2
|
A:CYS154
|
4.2
|
243.8
|
1.0
|
|
H
|
A:ARG186
|
4.3
|
224.3
|
1.0
|
|
N
|
A:PHE113
|
4.3
|
227.9
|
1.0
|
|
O
|
A:ARG186
|
4.3
|
224.3
|
1.0
|
|
CA
|
A:CYS114
|
4.3
|
246.6
|
1.0
|
|
HA
|
A:CYS111
|
4.4
|
245.3
|
1.0
|
|
CD
|
A:GLN188
|
4.4
|
237.2
|
1.0
|
|
O
|
A:TYR187
|
4.5
|
223.7
|
1.0
|
|
H
|
A:SER115
|
4.5
|
243.6
|
1.0
|
|
H
|
A:CYS184
|
4.5
|
240.1
|
1.0
|
|
H
|
A:PHE112
|
4.5
|
230.8
|
1.0
|
|
CA
|
A:PHE113
|
4.6
|
227.9
|
1.0
|
|
C
|
A:PHE113
|
4.6
|
227.9
|
1.0
|
|
CD2
|
A:PHE113
|
4.6
|
227.9
|
1.0
|
|
H
|
A:LYS116
|
4.6
|
237.6
|
1.0
|
|
C
|
A:CYS111
|
4.7
|
245.3
|
1.0
|
|
HA
|
A:CYS154
|
4.7
|
243.8
|
1.0
|
|
HB2
|
A:CYS114
|
4.8
|
246.6
|
1.0
|
|
HB3
|
A:PHE113
|
4.8
|
227.9
|
1.0
|
|
N
|
A:PHE112
|
4.8
|
230.8
|
1.0
|
|
H
|
A:CYS154
|
4.8
|
243.8
|
1.0
|
|
CA
|
A:CYS154
|
4.8
|
243.8
|
1.0
|
|
HE21
|
A:GLN188
|
4.8
|
237.2
|
1.0
|
|
CB
|
A:ARG186
|
4.8
|
224.3
|
1.0
|
|
CG
|
A:PHE113
|
4.8
|
227.9
|
1.0
|
|
C
|
A:ARG186
|
4.9
|
224.3
|
1.0
|
|
HB2
|
A:LYS116
|
4.9
|
237.6
|
1.0
|
|
N
|
A:SER115
|
5.0
|
243.6
|
1.0
|
|
HB3
|
A:ARG186
|
5.0
|
224.3
|
1.0
|
|
C
|
A:CYS114
|
5.0
|
246.6
|
1.0
|
|
N
|
A:ARG186
|
5.0
|
224.3
|
1.0
|
|
Zinc binding site 4 out
of 9 in 8uha
Go back to
Zinc Binding Sites List in 8uha
Zinc binding site 4 out
of 9 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn1201
b:307.8
occ:1.00
|
HB2
|
B:CYS1119
|
2.0
|
238.2
|
1.0
|
|
O
|
B:ARG1138
|
2.1
|
236.5
|
1.0
|
|
HG
|
B:CYS1137
|
2.2
|
234.5
|
1.0
|
|
CB
|
B:CYS1119
|
2.4
|
238.2
|
1.0
|
|
SG
|
B:CYS1137
|
2.4
|
234.5
|
1.0
|
|
SG
|
B:CYS1122
|
2.4
|
234.8
|
1.0
|
|
SG
|
B:CYS1119
|
2.5
|
238.2
|
1.0
|
|
HB3
|
B:CYS1119
|
2.5
|
238.2
|
1.0
|
|
HG
|
B:CYS1119
|
3.0
|
238.2
|
1.0
|
|
H
|
B:ARG1138
|
3.3
|
236.5
|
1.0
|
|
C
|
B:ARG1138
|
3.3
|
236.5
|
1.0
|
|
HA3
|
B:GLY1139
|
3.6
|
238.8
|
1.0
|
|
H
|
B:CYS1122
|
3.8
|
234.8
|
1.0
|
|
CA
|
B:CYS1119
|
3.9
|
238.2
|
1.0
|
|
N
|
B:ARG1138
|
3.9
|
236.5
|
1.0
|
|
HB
|
B:ILE1124
|
4.0
|
246.7
|
1.0
|
|
H
|
B:CYS1140
|
4.0
|
238.7
|
1.0
|
|
HA
|
B:CYS1119
|
4.1
|
238.2
|
1.0
|
|
HD21
|
B:ASN1142
|
4.2
|
232.9
|
1.0
|
|
CB
|
B:CYS1122
|
4.2
|
234.8
|
1.0
|
|
CB
|
B:CYS1137
|
4.2
|
234.5
|
1.0
|
|
H
|
B:CYS1119
|
4.2
|
238.2
|
1.0
|
|
N
|
B:GLY1139
|
4.3
|
238.8
|
1.0
|
|
CA
|
B:ARG1138
|
4.3
|
236.5
|
1.0
|
|
CA
|
B:GLY1139
|
4.4
|
238.8
|
1.0
|
|
N
|
B:CYS1122
|
4.4
|
234.8
|
1.0
|
|
H
|
B:LEU1121
|
4.5
|
226.4
|
1.0
|
|
HB2
|
B:LEU1121
|
4.5
|
226.4
|
1.0
|
|
HB2
|
B:CYS1137
|
4.5
|
234.5
|
1.0
|
|
N
|
B:CYS1119
|
4.5
|
238.2
|
1.0
|
|
H
|
B:ILE1124
|
4.6
|
246.7
|
1.0
|
|
HB3
|
B:CYS1122
|
4.6
|
234.8
|
1.0
|
|
HB3
|
B:CYS1137
|
4.7
|
234.5
|
1.0
|
|
HB2
|
B:CYS1122
|
4.7
|
234.8
|
1.0
|
|
O
|
B:CYS1122
|
4.7
|
234.8
|
1.0
|
|
N
|
B:CYS1140
|
4.7
|
238.7
|
1.0
|
|
CA
|
B:CYS1122
|
4.7
|
234.8
|
1.0
|
|
O
|
B:ILE1124
|
4.8
|
246.7
|
1.0
|
|
HB2
|
B:ARG1138
|
4.8
|
236.5
|
1.0
|
|
ND2
|
B:ASN1142
|
4.8
|
232.9
|
1.0
|
|
C
|
B:CYS1119
|
4.8
|
238.2
|
1.0
|
|
HG12
|
B:ILE1124
|
4.9
|
246.7
|
1.0
|
|
C
|
B:CYS1137
|
4.9
|
234.5
|
1.0
|
|
CB
|
B:ILE1124
|
4.9
|
246.7
|
1.0
|
|
C
|
B:CYS1122
|
5.0
|
234.8
|
1.0
|
|
HA
|
B:ARG1138
|
5.0
|
236.5
|
1.0
|
|
C
|
B:GLY1139
|
5.0
|
238.8
|
1.0
|
|
Zinc binding site 5 out
of 9 in 8uha
Go back to
Zinc Binding Sites List in 8uha
Zinc binding site 5 out
of 9 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn301
b:269.4
occ:1.00
|
HG
|
C:CYS94
|
1.6
|
182.4
|
1.0
|
|
HB3
|
C:CYS90
|
1.7
|
199.4
|
1.0
|
|
SG
|
C:CYS90
|
2.3
|
199.4
|
1.0
|
|
CB
|
C:CYS90
|
2.3
|
199.4
|
1.0
|
|
SG
|
C:CYS94
|
2.4
|
182.4
|
1.0
|
|
SG
|
C:CYS88
|
2.7
|
182.1
|
1.0
|
|
HG
|
C:CYS88
|
2.8
|
182.1
|
1.0
|
|
HB2
|
C:CYS90
|
3.0
|
199.4
|
1.0
|
|
HB3
|
C:CYS88
|
3.1
|
182.1
|
1.0
|
|
N
|
C:CYS90
|
3.3
|
199.4
|
1.0
|
|
CA
|
C:CYS90
|
3.4
|
199.4
|
1.0
|
|
HG
|
C:CYS97
|
3.4
|
178.3
|
1.0
|
|
C
|
C:THR89
|
3.4
|
187.8
|
1.0
|
|
O
|
C:THR89
|
3.5
|
187.8
|
1.0
|
|
CB
|
C:CYS88
|
3.5
|
182.1
|
1.0
|
|
SG
|
C:CYS97
|
3.6
|
178.3
|
1.0
|
|
H
|
C:CYS90
|
3.7
|
199.4
|
1.0
|
|
HB3
|
C:CYS94
|
3.7
|
182.4
|
1.0
|
|
CB
|
C:CYS94
|
3.8
|
182.4
|
1.0
|
|
HA
|
C:CYS90
|
3.8
|
199.4
|
1.0
|
|
N
|
C:THR89
|
3.9
|
187.8
|
1.0
|
|
HZ1
|
Z:LYS718
|
4.0
|
243.4
|
1.0
|
|
HB3
|
C:CYS97
|
4.0
|
178.3
|
1.0
|
|
HZ2
|
Z:LYS718
|
4.0
|
243.4
|
1.0
|
|
C
|
C:CYS88
|
4.0
|
182.1
|
1.0
|
|
H
|
C:THR89
|
4.0
|
187.8
|
1.0
|
|
HB2
|
C:CYS88
|
4.2
|
182.1
|
1.0
|
|
CA
|
C:THR89
|
4.3
|
187.8
|
1.0
|
|
O
|
C:CYS88
|
4.4
|
182.1
|
1.0
|
|
HB2
|
C:GLU96
|
4.4
|
184.4
|
1.0
|
|
H
|
C:CYS94
|
4.4
|
182.4
|
1.0
|
|
NZ
|
Z:LYS718
|
4.4
|
243.4
|
1.0
|
|
CA
|
C:CYS88
|
4.4
|
182.1
|
1.0
|
|
CB
|
C:CYS97
|
4.4
|
178.3
|
1.0
|
|
HB2
|
C:CYS94
|
4.4
|
182.4
|
1.0
|
|
N
|
C:CYS94
|
4.5
|
182.4
|
1.0
|
|
C
|
C:CYS90
|
4.6
|
199.4
|
1.0
|
|
HA
|
C:PHE93
|
4.6
|
173.6
|
1.0
|
|
CA
|
C:CYS94
|
4.7
|
182.4
|
1.0
|
|
HZ3
|
Z:LYS718
|
4.7
|
243.4
|
1.0
|
|
HA
|
C:THR89
|
4.8
|
187.8
|
1.0
|
|
C
|
C:PHE93
|
4.8
|
173.6
|
1.0
|
|
H
|
C:CYS97
|
4.9
|
178.3
|
1.0
|
|
HA
|
C:CYS88
|
4.9
|
182.1
|
1.0
|
|
Zinc binding site 6 out
of 9 in 8uha
Go back to
Zinc Binding Sites List in 8uha
Zinc binding site 6 out
of 9 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Zn201
b:278.3
occ:1.00
|
H
|
I:CYS20
|
1.3
|
220.5
|
1.0
|
|
HB3
|
I:CYS17
|
1.7
|
210.5
|
1.0
|
|
H
|
I:ASN21
|
1.9
|
201.0
|
1.0
|
|
N
|
I:CYS20
|
2.0
|
220.5
|
1.0
|
|
CB
|
I:CYS17
|
2.3
|
210.5
|
1.0
|
|
N
|
I:ASN21
|
2.3
|
201.0
|
1.0
|
|
HG
|
I:CYS17
|
2.3
|
210.5
|
1.0
|
|
SG
|
I:CYS17
|
2.4
|
210.5
|
1.0
|
|
SG
|
I:CYS20
|
2.4
|
220.5
|
1.0
|
|
CA
|
I:CYS20
|
2.5
|
220.5
|
1.0
|
|
C
|
I:CYS20
|
2.5
|
220.5
|
1.0
|
|
H
|
I:ASN22
|
2.7
|
208.5
|
1.0
|
|
H
|
I:GLU19
|
2.8
|
200.5
|
1.0
|
|
CB
|
I:CYS20
|
2.9
|
220.5
|
1.0
|
|
HB2
|
I:CYS17
|
3.0
|
210.5
|
1.0
|
|
C
|
I:GLU19
|
3.2
|
200.5
|
1.0
|
|
O
|
I:CYS17
|
3.3
|
210.5
|
1.0
|
|
C
|
I:CYS17
|
3.3
|
210.5
|
1.0
|
|
CA
|
I:CYS17
|
3.3
|
210.5
|
1.0
|
|
HB3
|
I:CYS20
|
3.4
|
220.5
|
1.0
|
|
HA
|
I:CYS20
|
3.4
|
220.5
|
1.0
|
|
N
|
I:GLU19
|
3.4
|
200.5
|
1.0
|
|
N
|
I:ASN22
|
3.5
|
208.5
|
1.0
|
|
HG
|
I:CYS39
|
3.5
|
186.1
|
1.0
|
|
CA
|
I:ASN21
|
3.5
|
201.0
|
1.0
|
|
O
|
I:CYS20
|
3.6
|
220.5
|
1.0
|
|
HB2
|
I:CYS20
|
3.7
|
220.5
|
1.0
|
|
HA
|
I:ASN21
|
3.7
|
201.0
|
1.0
|
|
HB2
|
I:GLU19
|
3.7
|
200.5
|
1.0
|
|
CA
|
I:GLU19
|
3.8
|
200.5
|
1.0
|
|
H
|
I:CYS17
|
3.9
|
210.5
|
1.0
|
|
C
|
I:ASN21
|
4.0
|
201.0
|
1.0
|
|
HA
|
I:CYS17
|
4.1
|
210.5
|
1.0
|
|
N
|
I:GLN18
|
4.1
|
193.2
|
1.0
|
|
N
|
I:CYS17
|
4.1
|
210.5
|
1.0
|
|
HB2
|
I:ASN22
|
4.2
|
208.5
|
1.0
|
|
O
|
I:GLU19
|
4.2
|
200.5
|
1.0
|
|
CB
|
I:GLU19
|
4.3
|
200.5
|
1.0
|
|
H
|
I:GLN18
|
4.5
|
193.2
|
1.0
|
|
C
|
I:GLN18
|
4.5
|
193.2
|
1.0
|
|
HG2
|
I:GLU19
|
4.5
|
200.5
|
1.0
|
|
CA
|
I:ASN22
|
4.6
|
208.5
|
1.0
|
|
SG
|
I:CYS39
|
4.6
|
186.1
|
1.0
|
|
O
|
I:ASN22
|
4.6
|
208.5
|
1.0
|
|
HA
|
I:GLU19
|
4.7
|
200.5
|
1.0
|
|
CB
|
I:ASN22
|
4.7
|
208.5
|
1.0
|
|
CB
|
I:ASN21
|
4.8
|
201.0
|
1.0
|
|
HB3
|
I:CYS42
|
4.8
|
175.8
|
1.0
|
|
HB2
|
I:CYS42
|
4.8
|
175.8
|
1.0
|
|
CA
|
I:GLN18
|
4.8
|
193.2
|
1.0
|
|
CG
|
I:ASN22
|
4.8
|
208.5
|
1.0
|
|
SG
|
I:CYS42
|
4.9
|
175.8
|
1.0
|
|
HB2
|
I:ASN21
|
4.9
|
201.0
|
1.0
|
|
OD1
|
I:ASN22
|
4.9
|
208.5
|
1.0
|
|
CG
|
I:GLU19
|
5.0
|
200.5
|
1.0
|
|
Zinc binding site 7 out
of 9 in 8uha
Go back to
Zinc Binding Sites List in 8uha
Zinc binding site 7 out
of 9 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 7 of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Zn202
b:208.0
occ:1.00
|
HG
|
I:CYS114
|
1.1
|
190.3
|
1.0
|
|
HG
|
I:CYS89
|
1.8
|
193.1
|
1.0
|
|
HG
|
I:CYS119
|
1.9
|
184.1
|
1.0
|
|
SG
|
I:CYS114
|
2.2
|
190.3
|
1.0
|
|
SG
|
I:CYS86
|
2.3
|
188.2
|
1.0
|
|
SG
|
I:CYS119
|
2.4
|
184.1
|
1.0
|
|
HB2
|
I:CYS86
|
2.8
|
188.2
|
1.0
|
|
SG
|
I:CYS89
|
2.8
|
193.1
|
1.0
|
|
CB
|
I:CYS86
|
2.9
|
188.2
|
1.0
|
|
HB2
|
I:CYS114
|
2.9
|
190.3
|
1.0
|
|
HB3
|
I:CYS86
|
3.0
|
188.2
|
1.0
|
|
CB
|
I:CYS114
|
3.0
|
190.3
|
1.0
|
|
HB3
|
I:CYS114
|
3.1
|
190.3
|
1.0
|
|
HB3
|
I:HIS121
|
3.3
|
181.8
|
1.0
|
|
HB3
|
I:CYS119
|
3.4
|
184.1
|
1.0
|
|
H
|
I:CYS89
|
3.5
|
193.1
|
1.0
|
|
HB2
|
I:LYS88
|
3.5
|
176.8
|
1.0
|
|
CB
|
I:CYS119
|
3.6
|
184.1
|
1.0
|
|
HB3
|
I:ALA116
|
3.7
|
195.5
|
1.0
|
|
O
|
I:CYS119
|
3.9
|
184.1
|
1.0
|
|
H
|
I:LYS88
|
3.9
|
176.8
|
1.0
|
|
H
|
I:HIS121
|
4.0
|
181.8
|
1.0
|
|
N
|
I:CYS89
|
4.1
|
193.1
|
1.0
|
|
HB3
|
I:HIS91
|
4.1
|
191.9
|
1.0
|
|
H
|
I:HIS91
|
4.1
|
191.9
|
1.0
|
|
HB2
|
I:CYS119
|
4.1
|
184.1
|
1.0
|
|
HB2
|
I:HIS121
|
4.1
|
181.8
|
1.0
|
|
CB
|
I:HIS121
|
4.2
|
181.8
|
1.0
|
|
CB
|
I:CYS89
|
4.3
|
193.1
|
1.0
|
|
HB2
|
I:HIS91
|
4.3
|
191.9
|
1.0
|
|
HB3
|
I:CYS89
|
4.4
|
193.1
|
1.0
|
|
CA
|
I:CYS86
|
4.4
|
188.2
|
1.0
|
|
CB
|
I:LYS88
|
4.4
|
176.8
|
1.0
|
|
HB2
|
I:ALA116
|
4.5
|
195.5
|
1.0
|
|
CA
|
I:CYS114
|
4.5
|
190.3
|
1.0
|
|
H
|
I:ALA116
|
4.5
|
195.5
|
1.0
|
|
C
|
I:CYS119
|
4.5
|
184.1
|
1.0
|
|
CB
|
I:ALA116
|
4.5
|
195.5
|
1.0
|
|
H
|
I:GLN87
|
4.6
|
182.4
|
1.0
|
|
HG2
|
I:LYS88
|
4.6
|
176.8
|
1.0
|
|
H
|
I:GLY90
|
4.6
|
189.3
|
1.0
|
|
CA
|
I:CYS119
|
4.6
|
184.1
|
1.0
|
|
CB
|
I:HIS91
|
4.7
|
191.9
|
1.0
|
|
N
|
I:LYS88
|
4.7
|
176.8
|
1.0
|
|
CA
|
I:CYS89
|
4.7
|
193.1
|
1.0
|
|
HA
|
I:CYS86
|
4.7
|
188.2
|
1.0
|
|
HD2
|
I:HIS121
|
4.7
|
181.8
|
1.0
|
|
HA
|
I:CYS114
|
4.7
|
190.3
|
1.0
|
|
N
|
I:HIS121
|
4.8
|
181.8
|
1.0
|
|
C
|
I:LYS88
|
4.8
|
176.8
|
1.0
|
|
CA
|
I:LYS88
|
4.9
|
176.8
|
1.0
|
|
N
|
I:HIS91
|
4.9
|
191.9
|
1.0
|
|
CG
|
I:LYS88
|
4.9
|
176.8
|
1.0
|
|
N
|
I:GLN87
|
5.0
|
182.4
|
1.0
|
|
N
|
I:GLY90
|
5.0
|
189.3
|
1.0
|
|
Zinc binding site 8 out
of 9 in 8uha
Go back to
Zinc Binding Sites List in 8uha
Zinc binding site 8 out
of 9 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 8 of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
J:Zn101
b:237.3
occ:1.00
|
N
|
J:CYS45
|
1.7
|
175.4
|
1.0
|
|
H
|
J:CYS45
|
1.9
|
175.4
|
1.0
|
|
C
|
J:CYS44
|
2.1
|
172.2
|
1.0
|
|
HA
|
J:CYS45
|
2.1
|
175.4
|
1.0
|
|
CA
|
J:CYS45
|
2.2
|
175.4
|
1.0
|
|
SG
|
J:CYS44
|
2.3
|
172.2
|
1.0
|
|
SG
|
J:CYS7
|
2.3
|
158.4
|
1.0
|
|
SG
|
J:CYS45
|
2.5
|
175.4
|
1.0
|
|
O
|
J:CYS44
|
2.7
|
172.2
|
1.0
|
|
CB
|
J:CYS45
|
2.7
|
175.4
|
1.0
|
|
HB2
|
J:CYS44
|
2.8
|
172.2
|
1.0
|
|
CB
|
J:CYS44
|
2.8
|
172.2
|
1.0
|
|
CA
|
J:CYS44
|
3.0
|
172.2
|
1.0
|
|
HB2
|
J:CYS7
|
3.0
|
158.4
|
1.0
|
|
CB
|
J:CYS7
|
3.2
|
158.4
|
1.0
|
|
HB2
|
J:CYS45
|
3.2
|
175.4
|
1.0
|
|
HG
|
J:CYS10
|
3.3
|
154.3
|
1.0
|
|
HB3
|
J:CYS7
|
3.4
|
158.4
|
1.0
|
|
HB3
|
J:CYS45
|
3.5
|
175.4
|
1.0
|
|
HG
|
J:CYS45
|
3.6
|
175.4
|
1.0
|
|
C
|
J:CYS45
|
3.6
|
175.4
|
1.0
|
|
HA
|
J:CYS44
|
3.7
|
172.2
|
1.0
|
|
HB3
|
J:CYS44
|
3.8
|
172.2
|
1.0
|
|
N
|
J:CYS44
|
3.8
|
172.2
|
1.0
|
|
SG
|
J:CYS10
|
3.9
|
154.3
|
1.0
|
|
HG2
|
J:MET48
|
3.9
|
157.8
|
1.0
|
|
HH21
|
J:ARG47
|
4.0
|
158.7
|
1.0
|
|
H
|
J:CYS44
|
4.1
|
172.2
|
1.0
|
|
H
|
J:ARG46
|
4.2
|
156.2
|
1.0
|
|
H
|
J:CYS10
|
4.2
|
154.3
|
1.0
|
|
O
|
J:ARG42
|
4.3
|
158.2
|
1.0
|
|
HB3
|
J:CYS10
|
4.3
|
154.3
|
1.0
|
|
N
|
J:ARG46
|
4.3
|
156.2
|
1.0
|
|
HB
|
J:THR9
|
4.4
|
156.1
|
1.0
|
|
O
|
J:CYS45
|
4.4
|
175.4
|
1.0
|
|
HG3
|
J:MET48
|
4.4
|
157.8
|
1.0
|
|
HB2
|
J:ARG42
|
4.5
|
158.2
|
1.0
|
|
CG
|
J:MET48
|
4.6
|
157.8
|
1.0
|
|
C
|
J:TYR43
|
4.6
|
151.8
|
1.0
|
|
CA
|
J:CYS7
|
4.6
|
158.4
|
1.0
|
|
CB
|
J:CYS10
|
4.7
|
154.3
|
1.0
|
|
HE
|
J:ARG47
|
4.7
|
158.7
|
1.0
|
|
HA
|
J:CYS7
|
4.8
|
158.4
|
1.0
|
|
NH2
|
J:ARG47
|
4.8
|
158.7
|
1.0
|
|
HB3
|
J:LYS12
|
4.9
|
161.7
|
1.0
|
|
O
|
J:TYR43
|
4.9
|
151.8
|
1.0
|
|
Zinc binding site 9 out
of 9 in 8uha
Go back to
Zinc Binding Sites List in 8uha
Zinc binding site 9 out
of 9 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 9 of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Tilted within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Zn101
b:315.4
occ:1.00
|
HG
|
L:CYS36
|
1.3
|
289.1
|
1.0
|
|
HB3
|
L:CYS39
|
1.5
|
288.2
|
1.0
|
|
HB2
|
L:CYS39
|
2.0
|
288.2
|
1.0
|
|
CB
|
L:CYS39
|
2.1
|
288.2
|
1.0
|
|
SG
|
L:CYS36
|
2.3
|
289.1
|
1.0
|
|
SG
|
L:CYS19
|
2.4
|
284.3
|
1.0
|
|
SG
|
L:CYS22
|
2.4
|
284.9
|
1.0
|
|
HB2
|
L:CYS36
|
2.8
|
289.1
|
1.0
|
|
HB3
|
L:CYS36
|
2.8
|
289.1
|
1.0
|
|
CB
|
L:CYS36
|
2.9
|
289.1
|
1.0
|
|
SG
|
L:CYS39
|
3.1
|
288.2
|
1.0
|
|
HB2
|
L:TYR41
|
3.2
|
285.6
|
1.0
|
|
HB3
|
L:TYR41
|
3.2
|
285.6
|
1.0
|
|
H
|
L:TYR41
|
3.3
|
285.6
|
1.0
|
|
H
|
L:CYS22
|
3.4
|
284.9
|
1.0
|
|
H
|
L:CYS39
|
3.4
|
288.2
|
1.0
|
|
CA
|
L:CYS39
|
3.4
|
288.2
|
1.0
|
|
HB3
|
L:GLU21
|
3.6
|
282.1
|
1.0
|
|
HG1
|
L:THR24
|
3.6
|
285.3
|
1.0
|
|
CB
|
L:TYR41
|
3.7
|
285.6
|
1.0
|
|
N
|
L:CYS39
|
3.7
|
288.2
|
1.0
|
|
HG
|
L:CYS39
|
3.7
|
288.2
|
1.0
|
|
CB
|
L:CYS19
|
3.7
|
284.3
|
1.0
|
|
HB2
|
L:CYS19
|
3.8
|
284.3
|
1.0
|
|
HB3
|
L:CYS19
|
3.9
|
284.3
|
1.0
|
|
CB
|
L:CYS22
|
3.9
|
284.9
|
1.0
|
|
HB3
|
L:CYS22
|
4.0
|
284.9
|
1.0
|
|
HA
|
L:CYS39
|
4.1
|
288.2
|
1.0
|
|
C
|
L:CYS39
|
4.1
|
288.2
|
1.0
|
|
N
|
L:CYS22
|
4.1
|
284.9
|
1.0
|
|
N
|
L:TYR41
|
4.2
|
285.6
|
1.0
|
|
OG1
|
L:THR24
|
4.2
|
285.3
|
1.0
|
|
H
|
L:GLU21
|
4.3
|
282.1
|
1.0
|
|
H
|
L:GLY40
|
4.3
|
285.6
|
1.0
|
|
CA
|
L:CYS36
|
4.4
|
289.1
|
1.0
|
|
N
|
L:GLY40
|
4.4
|
285.6
|
1.0
|
|
HG3
|
L:GLU38
|
4.4
|
293.2
|
1.0
|
|
HD2
|
L:TYR41
|
4.5
|
285.6
|
1.0
|
|
HG2
|
L:GLU38
|
4.5
|
293.2
|
1.0
|
|
HB
|
L:THR24
|
4.5
|
285.3
|
1.0
|
|
CB
|
L:GLU21
|
4.5
|
282.1
|
1.0
|
|
CA
|
L:TYR41
|
4.6
|
285.6
|
1.0
|
|
H
|
L:GLU38
|
4.6
|
293.2
|
1.0
|
|
CA
|
L:CYS22
|
4.6
|
284.9
|
1.0
|
|
HB2
|
L:CYS22
|
4.6
|
284.9
|
1.0
|
|
H
|
L:THR24
|
4.7
|
285.3
|
1.0
|
|
HA
|
L:CYS36
|
4.7
|
289.1
|
1.0
|
|
CG
|
L:TYR41
|
4.7
|
285.6
|
1.0
|
|
C
|
L:GLU38
|
4.8
|
293.2
|
1.0
|
|
HG2
|
L:GLU21
|
4.8
|
282.1
|
1.0
|
|
O
|
L:CYS39
|
4.8
|
288.2
|
1.0
|
|
CD2
|
L:TYR41
|
4.9
|
285.6
|
1.0
|
|
CG
|
L:GLU38
|
5.0
|
293.2
|
1.0
|
|
OE1
|
L:GLU21
|
5.0
|
282.1
|
1.0
|
|
CB
|
L:THR24
|
5.0
|
285.3
|
1.0
|
|
H
|
L:CYS36
|
5.0
|
289.1
|
1.0
|
|
Reference:
B.G.Su,
S.M.Vos.
Distinct Negative Elongation Factor Conformations Regulate Rna Polymerase II Promoter-Proximal Pausing. Mol.Cell 2024.
ISSN: ISSN 1097-2765
PubMed: 38401543
DOI: 10.1016/J.MOLCEL.2024.01.023
Page generated: Fri Aug 22 14:14:52 2025
|
