Zinc in PDB 8uhg: Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Poised Post-Translocated
Enzymatic activity of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Poised Post-Translocated
All present enzymatic activity of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Poised Post-Translocated:
2.7.7.6;
Other elements in 8uhg:
The structure of Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Poised Post-Translocated 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 - Poised Post-Translocated
(pdb code 8uhg). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the
Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Poised Post-Translocated, PDB code: 8uhg:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Zinc binding site 1 out
of 8 in 8uhg
Go back to
Zinc Binding Sites List in 8uhg
Zinc binding site 1 out
of 8 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Poised Post-Translocated
 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 - Poised Post-Translocated within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn2001
b:201.8
occ:1.00
|
HE2
|
A:HIS84
|
1.2
|
176.7
|
1.0
|
|
H
|
A:CYS74
|
1.9
|
181.6
|
1.0
|
|
NE2
|
A:HIS84
|
2.0
|
176.7
|
1.0
|
|
HB2
|
A:CYS74
|
2.2
|
181.6
|
1.0
|
|
SG
|
A:CYS71
|
2.3
|
180.5
|
1.0
|
|
N
|
A:CYS74
|
2.4
|
181.6
|
1.0
|
|
SG
|
A:CYS74
|
2.4
|
181.6
|
1.0
|
|
CB
|
A:CYS74
|
2.5
|
181.6
|
1.0
|
|
HB
|
A:THR73
|
2.6
|
181.7
|
1.0
|
|
HG
|
A:CYS81
|
2.7
|
178.8
|
1.0
|
|
CD2
|
A:HIS84
|
2.8
|
176.7
|
1.0
|
|
HD2
|
A:HIS84
|
2.9
|
176.7
|
1.0
|
|
CA
|
A:CYS74
|
2.9
|
181.6
|
1.0
|
|
HB3
|
A:CYS71
|
3.0
|
180.5
|
1.0
|
|
CE1
|
A:HIS84
|
3.1
|
176.7
|
1.0
|
|
CB
|
A:CYS71
|
3.2
|
180.5
|
1.0
|
|
C
|
A:THR73
|
3.3
|
181.7
|
1.0
|
|
HE1
|
A:HIS84
|
3.4
|
176.7
|
1.0
|
|
H
|
A:THR73
|
3.4
|
181.7
|
1.0
|
|
HA
|
A:CYS74
|
3.4
|
181.6
|
1.0
|
|
HB3
|
A:CYS74
|
3.4
|
181.6
|
1.0
|
|
CB
|
A:THR73
|
3.5
|
181.7
|
1.0
|
|
HB2
|
A:CYS71
|
3.5
|
180.5
|
1.0
|
|
CA
|
A:THR73
|
3.8
|
181.7
|
1.0
|
|
SG
|
A:CYS81
|
3.8
|
178.8
|
1.0
|
|
N
|
A:THR73
|
4.0
|
181.7
|
1.0
|
|
CG
|
A:HIS84
|
4.0
|
176.7
|
1.0
|
|
ND1
|
A:HIS84
|
4.1
|
176.7
|
1.0
|
|
H
|
A:ALA75
|
4.1
|
176.6
|
1.0
|
|
C
|
A:CYS74
|
4.2
|
181.6
|
1.0
|
|
HG1
|
A:THR73
|
4.2
|
181.7
|
1.0
|
|
O
|
A:THR73
|
4.2
|
181.7
|
1.0
|
|
OG1
|
A:THR73
|
4.3
|
181.7
|
1.0
|
|
HG22
|
A:THR73
|
4.3
|
181.7
|
1.0
|
|
HA2
|
A:GLY63
|
4.4
|
183.3
|
1.0
|
|
HD2
|
A:PRO82
|
4.4
|
173.7
|
1.0
|
|
CG2
|
A:THR73
|
4.4
|
181.7
|
1.0
|
|
N
|
A:ALA75
|
4.5
|
176.6
|
1.0
|
|
H
|
A:GLY76
|
4.5
|
178.4
|
1.0
|
|
HB2
|
A:CYS81
|
4.6
|
178.8
|
1.0
|
|
CA
|
A:CYS71
|
4.6
|
180.5
|
1.0
|
|
HA
|
A:CYS81
|
4.7
|
178.8
|
1.0
|
|
HG21
|
A:THR73
|
4.7
|
181.7
|
1.0
|
|
HA
|
A:THR73
|
4.7
|
181.7
|
1.0
|
|
CB
|
A:CYS81
|
4.8
|
178.8
|
1.0
|
|
H
|
A:GLY83
|
4.8
|
175.9
|
1.0
|
|
O
|
A:ARG61
|
4.8
|
185.9
|
1.0
|
|
C
|
A:CYS71
|
5.0
|
180.5
|
1.0
|
|
HB
|
B:ILE1127
|
5.0
|
185.8
|
1.0
|
|
Zinc binding site 2 out
of 8 in 8uhg
Go back to
Zinc Binding Sites List in 8uhg
Zinc binding site 2 out
of 8 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Poised Post-Translocated
 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 - Poised Post-Translocated within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn2002
b:238.6
occ:1.00
|
HG
|
A:CYS154
|
1.5
|
205.2
|
1.0
|
|
SG
|
A:CYS111
|
2.2
|
200.0
|
1.0
|
|
SG
|
A:CYS114
|
2.3
|
198.8
|
1.0
|
|
SG
|
A:CYS184
|
2.3
|
202.1
|
1.0
|
|
SG
|
A:CYS154
|
2.3
|
205.2
|
1.0
|
|
HB2
|
A:CYS154
|
2.4
|
205.2
|
1.0
|
|
HG
|
A:CYS184
|
2.5
|
202.1
|
1.0
|
|
HB2
|
A:CYS111
|
2.7
|
200.0
|
1.0
|
|
CB
|
A:CYS154
|
2.8
|
205.2
|
1.0
|
|
CB
|
A:CYS111
|
2.9
|
200.0
|
1.0
|
|
HB3
|
A:CYS111
|
3.0
|
200.0
|
1.0
|
|
HB3
|
A:CYS154
|
3.0
|
205.2
|
1.0
|
|
HB3
|
A:CYS114
|
3.4
|
198.8
|
1.0
|
|
H
|
A:CYS114
|
3.5
|
198.8
|
1.0
|
|
H
|
A:CYS184
|
3.5
|
202.1
|
1.0
|
|
CB
|
A:CYS114
|
3.6
|
198.8
|
1.0
|
|
HE22
|
A:GLN188
|
3.6
|
192.7
|
1.0
|
|
CB
|
A:CYS184
|
3.8
|
202.1
|
1.0
|
|
HB3
|
A:CYS184
|
3.8
|
202.1
|
1.0
|
|
N
|
A:CYS184
|
4.1
|
202.1
|
1.0
|
|
CA
|
A:CYS154
|
4.2
|
205.2
|
1.0
|
|
N
|
A:CYS114
|
4.2
|
198.8
|
1.0
|
|
HB2
|
A:LYS116
|
4.2
|
196.8
|
1.0
|
|
HB2
|
A:CYS114
|
4.3
|
198.8
|
1.0
|
|
HB2
|
A:ARG186
|
4.3
|
192.7
|
1.0
|
|
NE2
|
A:GLN188
|
4.3
|
192.7
|
1.0
|
|
HA
|
A:CYS154
|
4.3
|
205.2
|
1.0
|
|
CA
|
A:CYS111
|
4.3
|
200.0
|
1.0
|
|
H
|
A:ARG186
|
4.4
|
192.7
|
1.0
|
|
CA
|
A:CYS114
|
4.4
|
198.8
|
1.0
|
|
HB2
|
A:PHE113
|
4.4
|
190.8
|
1.0
|
|
HB2
|
A:CYS184
|
4.5
|
202.1
|
1.0
|
|
CA
|
A:CYS184
|
4.5
|
202.1
|
1.0
|
|
H
|
A:LYS116
|
4.5
|
196.8
|
1.0
|
|
HA2
|
A:GLY183
|
4.5
|
198.1
|
1.0
|
|
HA
|
A:CYS111
|
4.6
|
200.0
|
1.0
|
|
H
|
A:PHE113
|
4.7
|
190.8
|
1.0
|
|
H
|
A:GLY185
|
4.7
|
199.8
|
1.0
|
|
HE21
|
A:GLN188
|
4.7
|
192.7
|
1.0
|
|
HD3
|
A:LYS116
|
4.7
|
196.8
|
1.0
|
|
H
|
A:SER115
|
4.8
|
195.9
|
1.0
|
|
HD23
|
A:LEU118
|
4.9
|
206.1
|
1.0
|
|
HD2
|
A:ARG186
|
4.9
|
192.7
|
1.0
|
|
H
|
A:CYS154
|
4.9
|
205.2
|
1.0
|
|
C
|
A:CYS114
|
5.0
|
198.8
|
1.0
|
|
H
|
A:CYS111
|
5.0
|
200.0
|
1.0
|
|
N
|
A:CYS154
|
5.0
|
205.2
|
1.0
|
|
Zinc binding site 3 out
of 8 in 8uhg
Go back to
Zinc Binding Sites List in 8uhg
Zinc binding site 3 out
of 8 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Poised Post-Translocated
 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 - Poised Post-Translocated within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn1201
b:239.3
occ:1.00
|
HG
|
B:CYS1119
|
1.7
|
189.5
|
1.0
|
|
HB2
|
B:CYS1119
|
2.0
|
189.5
|
1.0
|
|
HB3
|
B:CYS1119
|
2.0
|
189.5
|
1.0
|
|
CB
|
B:CYS1119
|
2.0
|
189.5
|
1.0
|
|
SG
|
B:CYS1119
|
2.1
|
189.5
|
1.0
|
|
SG
|
B:CYS1122
|
2.3
|
187.7
|
1.0
|
|
SG
|
B:CYS1137
|
2.3
|
192.4
|
1.0
|
|
SG
|
B:CYS1140
|
2.4
|
191.5
|
1.0
|
|
H
|
B:CYS1122
|
3.2
|
187.7
|
1.0
|
|
CB
|
B:CYS1137
|
3.3
|
192.4
|
1.0
|
|
HB2
|
B:CYS1137
|
3.3
|
192.4
|
1.0
|
|
HB3
|
B:CYS1137
|
3.3
|
192.4
|
1.0
|
|
OD1
|
B:ASN1142
|
3.4
|
191.1
|
1.0
|
|
CA
|
B:CYS1119
|
3.6
|
189.5
|
1.0
|
|
CB
|
B:CYS1122
|
3.8
|
187.7
|
1.0
|
|
HD21
|
B:ASN1142
|
3.8
|
191.1
|
1.0
|
|
HA
|
B:CYS1119
|
3.9
|
189.5
|
1.0
|
|
HB3
|
B:CYS1122
|
3.9
|
187.7
|
1.0
|
|
N
|
B:CYS1122
|
4.0
|
187.7
|
1.0
|
|
HB2
|
B:LEU1121
|
4.1
|
187.5
|
1.0
|
|
H
|
B:CYS1119
|
4.1
|
189.5
|
1.0
|
|
CB
|
B:CYS1140
|
4.1
|
191.5
|
1.0
|
|
C
|
B:CYS1119
|
4.3
|
189.5
|
1.0
|
|
CG
|
B:ASN1142
|
4.3
|
191.1
|
1.0
|
|
H
|
B:LEU1121
|
4.3
|
187.5
|
1.0
|
|
HB2
|
B:ALA1126
|
4.3
|
187.5
|
1.0
|
|
N
|
B:CYS1119
|
4.3
|
189.5
|
1.0
|
|
HB3
|
B:CYS1140
|
4.3
|
191.5
|
1.0
|
|
CA
|
B:CYS1122
|
4.4
|
187.7
|
1.0
|
|
ND2
|
B:ASN1142
|
4.4
|
191.1
|
1.0
|
|
HB2
|
B:CYS1140
|
4.5
|
191.5
|
1.0
|
|
HB2
|
B:CYS1122
|
4.5
|
187.7
|
1.0
|
|
H
|
B:CYS1140
|
4.6
|
191.5
|
1.0
|
|
CA
|
B:CYS1137
|
4.7
|
192.4
|
1.0
|
|
H
|
B:ASN1120
|
4.8
|
182.8
|
1.0
|
|
N
|
B:ASN1120
|
4.8
|
182.8
|
1.0
|
|
C
|
B:CYS1122
|
4.8
|
187.7
|
1.0
|
|
N
|
B:LEU1121
|
4.8
|
187.5
|
1.0
|
|
H
|
B:ASN1142
|
4.8
|
191.1
|
1.0
|
|
O
|
B:CYS1119
|
4.8
|
189.5
|
1.0
|
|
O
|
B:CYS1122
|
4.9
|
187.7
|
1.0
|
|
CB
|
B:LEU1121
|
4.9
|
187.5
|
1.0
|
|
HA
|
B:CYS1137
|
5.0
|
192.4
|
1.0
|
|
Zinc binding site 4 out
of 8 in 8uhg
Go back to
Zinc Binding Sites List in 8uhg
Zinc binding site 4 out
of 8 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Poised Post-Translocated
 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 - Poised Post-Translocated within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn301
b:30.0
occ:1.00
|
HG
|
C:CYS94
|
1.4
|
116.6
|
1.0
|
|
HG
|
C:CYS90
|
1.6
|
126.2
|
1.0
|
|
HG
|
C:CYS88
|
2.2
|
120.7
|
1.0
|
|
SG
|
C:CYS88
|
2.2
|
120.7
|
1.0
|
|
SG
|
C:CYS90
|
2.3
|
126.2
|
1.0
|
|
HG
|
C:CYS97
|
2.3
|
115.0
|
1.0
|
|
SG
|
C:CYS97
|
2.5
|
115.0
|
1.0
|
|
SG
|
C:CYS94
|
2.5
|
116.6
|
1.0
|
|
H
|
C:CYS94
|
3.0
|
116.6
|
1.0
|
|
HB3
|
C:CYS88
|
3.0
|
120.7
|
1.0
|
|
HB3
|
C:CYS90
|
3.0
|
126.2
|
1.0
|
|
CB
|
C:CYS88
|
3.2
|
120.7
|
1.0
|
|
HB3
|
C:CYS94
|
3.3
|
116.6
|
1.0
|
|
CB
|
C:CYS90
|
3.3
|
126.2
|
1.0
|
|
HB3
|
C:CYS97
|
3.3
|
115.0
|
1.0
|
|
CB
|
C:CYS94
|
3.4
|
116.6
|
1.0
|
|
CB
|
C:CYS97
|
3.5
|
115.0
|
1.0
|
|
N
|
C:CYS94
|
3.6
|
116.6
|
1.0
|
|
HB2
|
C:CYS88
|
3.6
|
120.7
|
1.0
|
|
HB2
|
C:CYS90
|
3.7
|
126.2
|
1.0
|
|
CA
|
C:CYS94
|
4.0
|
116.6
|
1.0
|
|
H
|
C:CYS97
|
4.0
|
115.0
|
1.0
|
|
HB2
|
C:GLU96
|
4.2
|
118.3
|
1.0
|
|
HB2
|
C:CYS97
|
4.2
|
115.0
|
1.0
|
|
N
|
C:CYS97
|
4.2
|
115.0
|
1.0
|
|
O
|
C:CYS94
|
4.2
|
116.6
|
1.0
|
|
HB2
|
C:CYS94
|
4.3
|
116.6
|
1.0
|
|
C
|
C:CYS94
|
4.4
|
116.6
|
1.0
|
|
C
|
C:PHE93
|
4.5
|
116.3
|
1.0
|
|
H
|
C:GLU96
|
4.5
|
118.3
|
1.0
|
|
HA
|
C:GLU92
|
4.5
|
133.2
|
1.0
|
|
HA
|
C:PHE93
|
4.5
|
116.3
|
1.0
|
|
CA
|
C:CYS97
|
4.5
|
115.0
|
1.0
|
|
N
|
C:PHE93
|
4.5
|
116.3
|
1.0
|
|
CA
|
C:CYS88
|
4.5
|
120.7
|
1.0
|
|
H
|
C:THR89
|
4.6
|
124.8
|
1.0
|
|
CA
|
C:CYS90
|
4.6
|
126.2
|
1.0
|
|
C
|
C:GLU92
|
4.6
|
133.2
|
1.0
|
|
H
|
C:GLU92
|
4.6
|
133.2
|
1.0
|
|
N
|
C:CYS90
|
4.7
|
126.2
|
1.0
|
|
H
|
C:PHE93
|
4.7
|
116.3
|
1.0
|
|
N
|
C:THR89
|
4.7
|
124.8
|
1.0
|
|
C
|
C:CYS88
|
4.8
|
120.7
|
1.0
|
|
CA
|
C:PHE93
|
4.8
|
116.3
|
1.0
|
|
O
|
C:GLU92
|
4.8
|
133.2
|
1.0
|
|
HA
|
C:CYS94
|
4.9
|
116.6
|
1.0
|
|
C
|
C:GLU96
|
4.9
|
118.3
|
1.0
|
|
C
|
C:THR89
|
4.9
|
124.8
|
1.0
|
|
HA
|
C:SER85
|
4.9
|
120.7
|
1.0
|
|
HA
|
C:CYS88
|
4.9
|
120.7
|
1.0
|
|
H
|
C:CYS90
|
4.9
|
126.2
|
1.0
|
|
CA
|
C:GLU92
|
5.0
|
133.2
|
1.0
|
|
Zinc binding site 5 out
of 8 in 8uhg
Go back to
Zinc Binding Sites List in 8uhg
Zinc binding site 5 out
of 8 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Poised Post-Translocated
 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 - Poised Post-Translocated within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Zn201
b:224.9
occ:1.00
|
HB3
|
I:CYS42
|
2.1
|
160.1
|
1.0
|
|
HB2
|
I:CYS42
|
2.2
|
160.1
|
1.0
|
|
CB
|
I:CYS42
|
2.3
|
160.1
|
1.0
|
|
SG
|
I:CYS20
|
2.3
|
155.1
|
1.0
|
|
SG
|
I:CYS17
|
2.4
|
154.5
|
1.0
|
|
SG
|
I:CYS42
|
2.4
|
160.1
|
1.0
|
|
SG
|
I:CYS39
|
2.4
|
158.6
|
1.0
|
|
HG
|
I:CYS39
|
2.7
|
158.6
|
1.0
|
|
HB2
|
I:CYS17
|
3.1
|
154.5
|
1.0
|
|
HG
|
I:CYS42
|
3.1
|
160.1
|
1.0
|
|
CB
|
I:CYS17
|
3.2
|
154.5
|
1.0
|
|
HB3
|
I:CYS39
|
3.2
|
158.6
|
1.0
|
|
HB3
|
I:CYS17
|
3.3
|
154.5
|
1.0
|
|
H
|
I:CYS20
|
3.4
|
155.1
|
1.0
|
|
CB
|
I:CYS39
|
3.4
|
158.6
|
1.0
|
|
HB2
|
I:CYS39
|
3.6
|
158.6
|
1.0
|
|
HB3
|
I:TYR44
|
3.6
|
150.5
|
1.0
|
|
CA
|
I:CYS42
|
3.8
|
160.1
|
1.0
|
|
CB
|
I:CYS20
|
3.8
|
155.1
|
1.0
|
|
HB2
|
I:GLU19
|
4.0
|
154.6
|
1.0
|
|
HB3
|
I:CYS20
|
4.0
|
155.1
|
1.0
|
|
N
|
I:CYS20
|
4.0
|
155.1
|
1.0
|
|
H
|
I:GLU19
|
4.1
|
154.6
|
1.0
|
|
HB2
|
I:ASN22
|
4.2
|
149.5
|
1.0
|
|
HA
|
I:CYS42
|
4.2
|
160.1
|
1.0
|
|
H
|
I:ASN22
|
4.3
|
149.5
|
1.0
|
|
HB2
|
I:TYR44
|
4.3
|
150.5
|
1.0
|
|
HG2
|
I:GLU19
|
4.3
|
154.6
|
1.0
|
|
CB
|
I:TYR44
|
4.4
|
150.5
|
1.0
|
|
HD2
|
I:TYR44
|
4.4
|
150.5
|
1.0
|
|
N
|
I:CYS42
|
4.4
|
160.1
|
1.0
|
|
C
|
I:CYS42
|
4.5
|
160.1
|
1.0
|
|
CA
|
I:CYS20
|
4.5
|
155.1
|
1.0
|
|
HB2
|
I:CYS20
|
4.5
|
155.1
|
1.0
|
|
H
|
I:ASN21
|
4.5
|
146.1
|
1.0
|
|
O
|
I:CYS42
|
4.6
|
160.1
|
1.0
|
|
H
|
I:CYS42
|
4.6
|
160.1
|
1.0
|
|
CA
|
I:CYS17
|
4.6
|
154.5
|
1.0
|
|
H
|
I:TYR44
|
4.7
|
150.5
|
1.0
|
|
CB
|
I:GLU19
|
4.8
|
154.6
|
1.0
|
|
CA
|
I:CYS39
|
4.8
|
158.6
|
1.0
|
|
HA
|
I:CYS17
|
4.8
|
154.5
|
1.0
|
|
H
|
I:GLN18
|
4.9
|
151.7
|
1.0
|
|
O
|
I:ARG40
|
4.9
|
144.9
|
1.0
|
|
N
|
I:GLU19
|
4.9
|
154.6
|
1.0
|
|
N
|
I:ASN21
|
4.9
|
146.1
|
1.0
|
|
C
|
I:GLU19
|
5.0
|
154.6
|
1.0
|
|
CG
|
I:GLU19
|
5.0
|
154.6
|
1.0
|
|
Zinc binding site 6 out
of 8 in 8uhg
Go back to
Zinc Binding Sites List in 8uhg
Zinc binding site 6 out
of 8 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Poised Post-Translocated
 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 - Poised Post-Translocated within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Zn202
b:170.9
occ:1.00
|
SG
|
I:CYS86
|
2.3
|
132.4
|
1.0
|
|
SG
|
I:CYS119
|
2.3
|
128.8
|
1.0
|
|
SG
|
I:CYS114
|
2.3
|
124.4
|
1.0
|
|
SG
|
I:CYS89
|
2.3
|
126.4
|
1.0
|
|
HB2
|
I:CYS114
|
3.0
|
124.4
|
1.0
|
|
HB2
|
I:CYS86
|
3.0
|
132.4
|
1.0
|
|
HB3
|
I:CYS119
|
3.0
|
128.8
|
1.0
|
|
CB
|
I:CYS86
|
3.0
|
132.4
|
1.0
|
|
HB3
|
I:CYS86
|
3.0
|
132.4
|
1.0
|
|
CB
|
I:CYS114
|
3.0
|
124.4
|
1.0
|
|
HB3
|
I:CYS114
|
3.1
|
124.4
|
1.0
|
|
CB
|
I:CYS119
|
3.3
|
128.8
|
1.0
|
|
H
|
I:CYS89
|
3.4
|
126.4
|
1.0
|
|
HB3
|
I:ALA116
|
3.7
|
131.3
|
1.0
|
|
HB2
|
I:LYS88
|
3.7
|
120.1
|
1.0
|
|
CB
|
I:CYS89
|
3.7
|
126.4
|
1.0
|
|
HB2
|
I:CYS119
|
3.7
|
128.8
|
1.0
|
|
HB3
|
I:HIS121
|
3.7
|
118.0
|
1.0
|
|
HB3
|
I:CYS89
|
3.8
|
126.4
|
1.0
|
|
N
|
I:CYS89
|
3.9
|
126.4
|
1.0
|
|
O
|
I:CYS119
|
4.0
|
128.8
|
1.0
|
|
H
|
I:LYS88
|
4.0
|
120.1
|
1.0
|
|
HB3
|
I:HIS91
|
4.0
|
127.1
|
1.0
|
|
HB2
|
I:HIS121
|
4.1
|
118.0
|
1.0
|
|
H
|
I:HIS91
|
4.2
|
127.1
|
1.0
|
|
H
|
I:HIS121
|
4.3
|
118.0
|
1.0
|
|
HB2
|
I:ALA116
|
4.3
|
131.3
|
1.0
|
|
HB2
|
I:HIS91
|
4.3
|
127.1
|
1.0
|
|
CA
|
I:CYS89
|
4.4
|
126.4
|
1.0
|
|
CB
|
I:HIS121
|
4.4
|
118.0
|
1.0
|
|
CB
|
I:ALA116
|
4.4
|
131.3
|
1.0
|
|
HB2
|
I:CYS89
|
4.5
|
126.4
|
1.0
|
|
CA
|
I:CYS119
|
4.5
|
128.8
|
1.0
|
|
CA
|
I:CYS86
|
4.5
|
132.4
|
1.0
|
|
CA
|
I:CYS114
|
4.5
|
124.4
|
1.0
|
|
CB
|
I:LYS88
|
4.5
|
120.1
|
1.0
|
|
C
|
I:CYS119
|
4.5
|
128.8
|
1.0
|
|
H
|
I:ALA116
|
4.6
|
131.3
|
1.0
|
|
C
|
I:LYS88
|
4.6
|
120.1
|
1.0
|
|
CB
|
I:HIS91
|
4.7
|
127.1
|
1.0
|
|
HB3
|
I:LYS88
|
4.7
|
120.1
|
1.0
|
|
H
|
I:GLY90
|
4.7
|
125.7
|
1.0
|
|
N
|
I:LYS88
|
4.7
|
120.1
|
1.0
|
|
HA
|
I:CYS114
|
4.8
|
124.4
|
1.0
|
|
HA
|
I:CYS86
|
4.8
|
132.4
|
1.0
|
|
HZ3
|
I:TRP123
|
4.8
|
119.1
|
1.0
|
|
HD2
|
I:HIS121
|
4.9
|
118.0
|
1.0
|
|
CA
|
I:LYS88
|
4.9
|
120.1
|
1.0
|
|
HA
|
I:CYS119
|
4.9
|
128.8
|
1.0
|
|
C
|
I:CYS89
|
5.0
|
126.4
|
1.0
|
|
N
|
I:HIS91
|
5.0
|
127.1
|
1.0
|
|
Zinc binding site 7 out
of 8 in 8uhg
Go back to
Zinc Binding Sites List in 8uhg
Zinc binding site 7 out
of 8 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Poised Post-Translocated
 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 - Poised Post-Translocated within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
J:Zn101
b:148.8
occ:1.00
|
SG
|
J:CYS7
|
2.2
|
94.7
|
1.0
|
|
SG
|
J:CYS45
|
2.3
|
102.5
|
1.0
|
|
SG
|
J:CYS10
|
2.3
|
94.0
|
1.0
|
|
SG
|
J:CYS44
|
2.3
|
102.1
|
1.0
|
|
H
|
J:CYS45
|
2.9
|
102.5
|
1.0
|
|
N
|
J:CYS45
|
3.0
|
102.5
|
1.0
|
|
H
|
J:CYS10
|
3.1
|
94.0
|
1.0
|
|
HB3
|
J:CYS7
|
3.1
|
94.7
|
1.0
|
|
HA
|
J:CYS45
|
3.2
|
102.5
|
1.0
|
|
CB
|
J:CYS7
|
3.2
|
94.7
|
1.0
|
|
HB2
|
J:CYS7
|
3.3
|
94.7
|
1.0
|
|
HB3
|
J:CYS10
|
3.4
|
94.0
|
1.0
|
|
CA
|
J:CYS45
|
3.4
|
102.5
|
1.0
|
|
HB2
|
J:CYS44
|
3.4
|
102.1
|
1.0
|
|
CB
|
J:CYS45
|
3.4
|
102.5
|
1.0
|
|
CB
|
J:CYS44
|
3.4
|
102.1
|
1.0
|
|
CB
|
J:CYS10
|
3.5
|
94.0
|
1.0
|
|
C
|
J:CYS44
|
3.5
|
102.1
|
1.0
|
|
HH21
|
J:ARG42
|
3.6
|
97.1
|
1.0
|
|
HE
|
J:ARG42
|
3.7
|
97.1
|
1.0
|
|
HB
|
J:THR9
|
3.9
|
92.0
|
1.0
|
|
N
|
J:CYS10
|
3.9
|
94.0
|
1.0
|
|
HB2
|
J:CYS45
|
4.0
|
102.5
|
1.0
|
|
HB3
|
J:CYS45
|
4.0
|
102.5
|
1.0
|
|
CA
|
J:CYS44
|
4.1
|
102.1
|
1.0
|
|
H
|
J:LYS12
|
4.1
|
97.3
|
1.0
|
|
O
|
J:CYS44
|
4.1
|
102.1
|
1.0
|
|
HB3
|
J:LYS12
|
4.2
|
97.3
|
1.0
|
|
HB2
|
J:CYS10
|
4.2
|
94.0
|
1.0
|
|
HB2
|
J:ARG42
|
4.2
|
97.1
|
1.0
|
|
HB3
|
J:CYS44
|
4.2
|
102.1
|
1.0
|
|
CA
|
J:CYS10
|
4.2
|
94.0
|
1.0
|
|
HB2
|
J:LYS12
|
4.3
|
97.3
|
1.0
|
|
NH2
|
J:ARG42
|
4.4
|
97.1
|
1.0
|
|
NE
|
J:ARG42
|
4.4
|
97.1
|
1.0
|
|
H
|
J:GLY11
|
4.4
|
93.3
|
1.0
|
|
H
|
J:THR9
|
4.5
|
92.0
|
1.0
|
|
CA
|
J:CYS7
|
4.6
|
94.7
|
1.0
|
|
CB
|
J:LYS12
|
4.7
|
97.3
|
1.0
|
|
HH21
|
J:ARG47
|
4.7
|
95.8
|
1.0
|
|
HB3
|
J:ARG42
|
4.8
|
97.1
|
1.0
|
|
H
|
J:CYS44
|
4.8
|
102.1
|
1.0
|
|
CB
|
J:THR9
|
4.8
|
92.0
|
1.0
|
|
HG22
|
J:THR9
|
4.8
|
92.0
|
1.0
|
|
N
|
J:CYS44
|
4.8
|
102.1
|
1.0
|
|
N
|
J:GLY11
|
4.8
|
93.3
|
1.0
|
|
HA
|
J:CYS44
|
4.8
|
102.1
|
1.0
|
|
CZ
|
J:ARG42
|
4.9
|
97.1
|
1.0
|
|
C
|
J:CYS45
|
4.9
|
102.5
|
1.0
|
|
C
|
J:CYS10
|
4.9
|
94.0
|
1.0
|
|
N
|
J:LYS12
|
4.9
|
97.3
|
1.0
|
|
CB
|
J:ARG42
|
5.0
|
97.1
|
1.0
|
|
HA
|
J:CYS7
|
5.0
|
94.7
|
1.0
|
|
HH22
|
J:ARG42
|
5.0
|
97.1
|
1.0
|
|
Zinc binding site 8 out
of 8 in 8uhg
Go back to
Zinc Binding Sites List in 8uhg
Zinc binding site 8 out
of 8 in the Structure of Paused Transcription Complex Pol II-Dsif-Nelf - Poised Post-Translocated
 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 - Poised Post-Translocated within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Zn101
b:155.2
occ:1.00
|
SG
|
L:CYS39
|
2.2
|
119.7
|
1.0
|
|
SG
|
L:CYS19
|
2.2
|
117.0
|
1.0
|
|
SG
|
L:CYS36
|
2.3
|
119.7
|
1.0
|
|
SG
|
L:CYS22
|
2.3
|
122.5
|
1.0
|
|
HB3
|
L:CYS19
|
2.5
|
117.0
|
1.0
|
|
HG
|
L:CYS22
|
2.6
|
122.5
|
1.0
|
|
CB
|
L:CYS19
|
2.7
|
117.0
|
1.0
|
|
HB2
|
L:CYS19
|
2.7
|
117.0
|
1.0
|
|
H
|
L:CYS22
|
2.9
|
122.5
|
1.0
|
|
HB2
|
L:CYS36
|
3.0
|
119.7
|
1.0
|
|
CB
|
L:CYS36
|
3.2
|
119.7
|
1.0
|
|
HB3
|
L:CYS22
|
3.3
|
122.5
|
1.0
|
|
CB
|
L:CYS22
|
3.4
|
122.5
|
1.0
|
|
HB3
|
L:CYS36
|
3.6
|
119.7
|
1.0
|
|
CB
|
L:CYS39
|
3.7
|
119.7
|
1.0
|
|
H
|
L:THR24
|
3.7
|
121.4
|
1.0
|
|
HB
|
L:THR24
|
3.7
|
121.4
|
1.0
|
|
N
|
L:CYS22
|
3.7
|
122.5
|
1.0
|
|
HB3
|
L:CYS39
|
3.7
|
119.7
|
1.0
|
|
OG1
|
L:THR24
|
3.8
|
121.4
|
1.0
|
|
CA
|
L:CYS22
|
4.0
|
122.5
|
1.0
|
|
HB3
|
L:TYR41
|
4.0
|
113.9
|
1.0
|
|
HB3
|
L:GLU21
|
4.0
|
118.1
|
1.0
|
|
H
|
L:HIS23
|
4.0
|
118.8
|
1.0
|
|
HG2
|
L:GLU38
|
4.1
|
122.3
|
1.0
|
|
H
|
L:CYS39
|
4.1
|
119.7
|
1.0
|
|
CA
|
L:CYS19
|
4.2
|
117.0
|
1.0
|
|
HB2
|
L:CYS22
|
4.2
|
122.5
|
1.0
|
|
H
|
L:GLU21
|
4.2
|
118.1
|
1.0
|
|
CB
|
L:THR24
|
4.2
|
121.4
|
1.0
|
|
HB2
|
L:CYS39
|
4.3
|
119.7
|
1.0
|
|
C
|
L:CYS22
|
4.3
|
122.5
|
1.0
|
|
N
|
L:HIS23
|
4.3
|
118.8
|
1.0
|
|
HG3
|
L:GLU38
|
4.4
|
122.3
|
1.0
|
|
N
|
L:THR24
|
4.4
|
121.4
|
1.0
|
|
N
|
L:CYS39
|
4.5
|
119.7
|
1.0
|
|
H
|
L:TYR41
|
4.5
|
113.9
|
1.0
|
|
HB2
|
L:TYR41
|
4.5
|
113.9
|
1.0
|
|
HD21
|
L:ASN26
|
4.5
|
123.4
|
1.0
|
|
CA
|
L:CYS36
|
4.6
|
119.7
|
1.0
|
|
HG1
|
L:THR24
|
4.6
|
121.4
|
1.0
|
|
HA
|
L:CYS19
|
4.6
|
117.0
|
1.0
|
|
H
|
L:GLU38
|
4.6
|
122.3
|
1.0
|
|
HA
|
L:CYS36
|
4.6
|
119.7
|
1.0
|
|
CA
|
L:CYS39
|
4.6
|
119.7
|
1.0
|
|
H
|
L:CYS19
|
4.7
|
117.0
|
1.0
|
|
CG
|
L:GLU38
|
4.7
|
122.3
|
1.0
|
|
CB
|
L:TYR41
|
4.7
|
113.9
|
1.0
|
|
C
|
L:CYS19
|
4.7
|
117.0
|
1.0
|
|
C
|
L:GLU21
|
4.8
|
118.1
|
1.0
|
|
HA
|
L:CYS22
|
4.9
|
122.5
|
1.0
|
|
CB
|
L:GLU21
|
4.9
|
118.1
|
1.0
|
|
N
|
L:GLU21
|
4.9
|
118.1
|
1.0
|
|
HD2
|
L:TYR41
|
5.0
|
113.9
|
1.0
|
|
N
|
L:CYS19
|
5.0
|
117.0
|
1.0
|
|
CA
|
L:THR24
|
5.0
|
121.4
|
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 14:14:53 2025
|
