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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:

Iron (Fe) 4 atoms
Magnesium (Mg) 2 atoms
Zinc (Zn) 17 atoms

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: Tue Jul 15 22:30:41 2025

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