Fluorine in PDB 7o73: Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna
Enzymatic activity of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna
All present enzymatic activity of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna:
2.7.7.6;
3.6.4.12;
Other elements in 7o73:
The structure of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna also contains other interesting chemical elements:
Fluorine Binding Sites:
The binding sites of Fluorine atom in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna
(pdb code 7o73). This binding sites where shown within
5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the
Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna, PDB code: 7o73:
Jump to Fluorine binding site number:
1;
2;
3;
Fluorine binding site 1 out
of 3 in 7o73
Go back to
Fluorine Binding Sites List in 7o73
Fluorine binding site 1 out
of 3 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 1 of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
7:F901
b:199.2
occ:1.00
|
F1
|
7:BEF901
|
0.0
|
199.2
|
1.0
|
BE
|
7:BEF901
|
1.5
|
199.2
|
1.0
|
MG
|
7:MG902
|
2.0
|
154.7
|
1.0
|
OE2
|
7:GLU489
|
2.3
|
200.2
|
1.0
|
F3
|
7:BEF901
|
2.6
|
199.2
|
1.0
|
F2
|
7:BEF901
|
2.6
|
199.2
|
1.0
|
O1B
|
7:ADP903
|
2.7
|
199.4
|
1.0
|
O3B
|
7:ADP903
|
2.9
|
199.4
|
1.0
|
PB
|
7:ADP903
|
3.3
|
199.4
|
1.0
|
CD
|
7:GLU489
|
3.4
|
200.2
|
1.0
|
OE1
|
7:GLU489
|
4.0
|
200.2
|
1.0
|
OG1
|
7:THR660
|
4.2
|
202.6
|
1.0
|
CA
|
7:SER661
|
4.2
|
202.4
|
1.0
|
O2B
|
7:ADP903
|
4.2
|
199.4
|
1.0
|
CE
|
7:LYS392
|
4.3
|
197.2
|
1.0
|
N
|
7:SER661
|
4.4
|
202.4
|
1.0
|
NZ
|
7:LYS392
|
4.4
|
197.2
|
1.0
|
O3A
|
7:ADP903
|
4.6
|
199.4
|
1.0
|
CG
|
7:GLU489
|
4.6
|
200.2
|
1.0
|
CB
|
7:SER661
|
4.6
|
202.4
|
1.0
|
NH2
|
7:ARG692
|
4.8
|
197.4
|
1.0
|
O1A
|
7:ADP903
|
4.8
|
199.4
|
1.0
|
OG
|
7:SER661
|
4.9
|
202.4
|
1.0
|
OE1
|
7:GLN685
|
4.9
|
202.7
|
1.0
|
NH2
|
7:ARG689
|
5.0
|
200.2
|
1.0
|
|
Fluorine binding site 2 out
of 3 in 7o73
Go back to
Fluorine Binding Sites List in 7o73
Fluorine binding site 2 out
of 3 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 2 of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
7:F901
b:199.2
occ:1.00
|
F2
|
7:BEF901
|
0.0
|
199.2
|
1.0
|
BE
|
7:BEF901
|
1.6
|
199.2
|
1.0
|
F3
|
7:BEF901
|
2.6
|
199.2
|
1.0
|
F1
|
7:BEF901
|
2.6
|
199.2
|
1.0
|
O1B
|
7:ADP903
|
2.7
|
199.4
|
1.0
|
NZ
|
7:LYS392
|
2.8
|
197.2
|
1.0
|
SG
|
7:CYS388
|
3.3
|
198.1
|
1.0
|
CE
|
7:LYS392
|
3.4
|
197.2
|
1.0
|
CA
|
7:CYS388
|
3.4
|
198.1
|
1.0
|
PB
|
7:ADP903
|
3.6
|
199.4
|
1.0
|
CB
|
7:CYS388
|
3.6
|
198.1
|
1.0
|
O2B
|
7:ADP903
|
3.7
|
199.4
|
1.0
|
N
|
7:GLY389
|
3.9
|
194.4
|
1.0
|
OE2
|
7:GLU489
|
4.0
|
200.2
|
1.0
|
O3B
|
7:ADP903
|
4.1
|
199.4
|
1.0
|
CB
|
7:ALA515
|
4.1
|
197.9
|
1.0
|
C
|
7:CYS388
|
4.2
|
198.1
|
1.0
|
OE1
|
7:GLN685
|
4.3
|
202.7
|
1.0
|
NH2
|
7:ARG692
|
4.3
|
197.4
|
1.0
|
MG
|
7:MG902
|
4.3
|
154.7
|
1.0
|
N
|
7:CYS388
|
4.4
|
198.1
|
1.0
|
NE2
|
7:GLN685
|
4.5
|
202.7
|
1.0
|
OE1
|
7:GLU489
|
4.6
|
200.2
|
1.0
|
OG1
|
7:THR660
|
4.7
|
202.6
|
1.0
|
CD
|
7:GLU489
|
4.7
|
200.2
|
1.0
|
CD
|
7:GLN685
|
4.8
|
202.7
|
1.0
|
CD
|
7:LYS392
|
4.8
|
197.2
|
1.0
|
NH2
|
7:ARG689
|
4.8
|
200.2
|
1.0
|
N
|
7:ALA515
|
4.9
|
197.9
|
1.0
|
O
|
7:PRO387
|
4.9
|
196.0
|
1.0
|
|
Fluorine binding site 3 out
of 3 in 7o73
Go back to
Fluorine Binding Sites List in 7o73
Fluorine binding site 3 out
of 3 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 3 of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Closed Distorted Promoter Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
7:F901
b:199.2
occ:1.00
|
F3
|
7:BEF901
|
0.0
|
199.2
|
1.0
|
BE
|
7:BEF901
|
1.5
|
199.2
|
1.0
|
NH2
|
7:ARG689
|
2.5
|
200.2
|
1.0
|
F2
|
7:BEF901
|
2.6
|
199.2
|
1.0
|
O1B
|
7:ADP903
|
2.6
|
199.4
|
1.0
|
F1
|
7:BEF901
|
2.6
|
199.2
|
1.0
|
NH2
|
7:ARG692
|
2.6
|
197.4
|
1.0
|
CZ
|
7:ARG692
|
3.6
|
197.4
|
1.0
|
CZ
|
7:ARG689
|
3.7
|
200.2
|
1.0
|
OG1
|
7:THR660
|
3.8
|
202.6
|
1.0
|
NH1
|
7:ARG692
|
3.9
|
197.4
|
1.0
|
N
|
7:SER661
|
3.9
|
202.4
|
1.0
|
PB
|
7:ADP903
|
4.0
|
199.4
|
1.0
|
N
|
7:GLY389
|
4.2
|
194.4
|
1.0
|
NH1
|
7:ARG689
|
4.2
|
200.2
|
1.0
|
MG
|
7:MG902
|
4.2
|
154.7
|
1.0
|
OE2
|
7:GLU489
|
4.3
|
200.2
|
1.0
|
CB
|
7:CYS388
|
4.3
|
198.1
|
1.0
|
CA
|
7:SER661
|
4.4
|
202.4
|
1.0
|
OE1
|
7:GLN685
|
4.4
|
202.7
|
1.0
|
SG
|
7:CYS388
|
4.5
|
198.1
|
1.0
|
O3B
|
7:ADP903
|
4.5
|
199.4
|
1.0
|
CA
|
7:CYS388
|
4.6
|
198.1
|
1.0
|
C
|
7:CYS388
|
4.8
|
198.1
|
1.0
|
NE
|
7:ARG689
|
4.8
|
200.2
|
1.0
|
NE
|
7:ARG692
|
4.8
|
197.4
|
1.0
|
O2B
|
7:ADP903
|
4.9
|
199.4
|
1.0
|
O3A
|
7:ADP903
|
4.9
|
199.4
|
1.0
|
C
|
7:THR660
|
4.9
|
202.6
|
1.0
|
CB
|
7:THR660
|
4.9
|
202.6
|
1.0
|
CA
|
7:THR660
|
5.0
|
202.6
|
1.0
|
CA
|
7:GLY389
|
5.0
|
194.4
|
1.0
|
|
Reference:
S.Schilbach,
S.Aibara,
C.Dienemann,
F.Grabbe,
P.Cramer.
Structure of Rna Polymerase II Pre-Initiation Complex at 2.9 Angstrom Defines Initial Dna Opening Cell(Cambridge,Mass.) 2021.
ISSN: ISSN 0092-8674
DOI: 10.1016/J.CELL.2021.05.012
Page generated: Fri Aug 2 10:41:24 2024
|