Fluorine in PDB 7o4l: Yeast Tfiih in the Expanded State Within the Pre-Initiation Complex

All present enzymatic activity of Yeast Tfiih in the Expanded State Within the Pre-Initiation Complex:
2.7.7.6; 3.6.4.12;

The structure of Yeast Tfiih in the Expanded State Within the Pre-Initiation Complex also contains other interesting chemical elements:

Iron	(Fe)	4 atoms
Magnesium	(Mg)	1 atom
Zinc	(Zn)	11 atoms

The binding sites of Fluorine atom in the Yeast Tfiih in the Expanded State Within the Pre-Initiation Complex (pdb code 7o4l). 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 Tfiih in the Expanded State Within the Pre-Initiation Complex, PDB code: 7o4l:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in the Yeast Tfiih in the Expanded State Within the Pre-Initiation Complex


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Yeast Tfiih in the Expanded State Within the Pre-Initiation Complex within 5.0Å range: probe atom residue distance (Å) B Occ 7:F901 b:58.4 occ:1.00 F1 7:BEF901 0.0 58.4 1.0 BE 7:BEF901 1.5 58.4 1.0 MG 7:MG902 2.0 42.0 1.0 F3 7:BEF901 2.6 58.4 1.0 F2 7:BEF901 2.6 58.4 1.0 O3B 7:ADP903 2.7 61.3 1.0 O1B 7:ADP903 2.9 61.3 1.0 OE2 7:GLU489 3.3 49.3 1.0 PB 7:ADP903 3.3 61.3 1.0 CA 7:SER661 4.2 55.7 1.0 NZ 7:LYS392 4.2 50.3 1.0 O2B 7:ADP903 4.3 61.3 1.0 NH2 7:ARG689 4.3 49.5 1.0 CD 7:GLU489 4.5 49.3 1.0 N 7:SER661 4.6 55.7 1.0 O3A 7:ADP903 4.6 61.3 1.0 CE 7:LYS392 4.6 50.3 1.0 NH1 7:ARG692 4.8 54.6 1.0 CB 7:SER661 4.9 55.7 1.0 NH2 7:ARG692 4.9 54.6 1.0 OG 7:SER661 5.0 55.7 1.0

Fluorine binding site 2 out of 3 in the Yeast Tfiih in the Expanded State Within the Pre-Initiation Complex


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Yeast Tfiih in the Expanded State Within the Pre-Initiation Complex within 5.0Å range: probe atom residue distance (Å) B Occ 7:F901 b:58.4 occ:1.00 F2 7:BEF901 0.0 58.4 1.0 BE 7:BEF901 1.6 58.4 1.0 F3 7:BEF901 2.6 58.4 1.0 F1 7:BEF901 2.6 58.4 1.0 O3B 7:ADP903 2.7 61.3 1.0 NZ 7:LYS392 2.9 50.3 1.0 CB 7:ALA515 3.2 45.1 1.0 CA 7:CYS388 3.3 48.7 1.0 SG 7:CYS388 3.4 48.7 1.0 CB 7:CYS388 3.4 48.7 1.0 PB 7:ADP903 3.6 61.3 1.0 O2B 7:ADP903 3.8 61.3 1.0 CE 7:LYS392 3.9 50.3 1.0 N 7:CYS388 4.1 48.7 1.0 O1B 7:ADP903 4.1 61.3 1.0 MG 7:MG902 4.3 42.0 1.0 NH2 7:ARG689 4.3 49.5 1.0 N 7:GLY389 4.4 50.5 1.0 C 7:CYS388 4.5 48.7 1.0 CA 7:ALA515 4.5 45.1 1.0 N 7:ALA515 4.5 45.1 1.0 OE2 7:GLU489 4.5 49.3 1.0 NH1 7:ARG692 4.8 54.6 1.0 C 7:PRO387 4.8 48.3 1.0 O 7:PRO387 4.9 48.3 1.0 OE1 7:GLN685 5.0 46.0 1.0

Fluorine binding site 3 out of 3 in the Yeast Tfiih in the Expanded State Within the Pre-Initiation Complex


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Yeast Tfiih in the Expanded State Within the Pre-Initiation Complex within 5.0Å range: probe atom residue distance (Å) B Occ 7:F901 b:58.4 occ:1.00 F3 7:BEF901 0.0 58.4 1.0 BE 7:BEF901 1.5 58.4 1.0 NH2 7:ARG689 2.5 49.5 1.0 F2 7:BEF901 2.6 58.4 1.0 O3B 7:ADP903 2.6 61.3 1.0 NH1 7:ARG692 2.6 54.6 1.0 F1 7:BEF901 2.6 58.4 1.0 CB 7:CYS388 3.6 48.7 1.0 CZ 7:ARG692 3.6 54.6 1.0 CZ 7:ARG689 3.7 49.5 1.0 NH2 7:ARG692 3.8 54.6 1.0 PB 7:ADP903 4.0 61.3 1.0 CA 7:CYS388 4.1 48.7 1.0 NE 7:ARG689 4.1 49.5 1.0 SG 7:CYS388 4.1 48.7 1.0 N 7:GLY389 4.4 50.5 1.0 MG 7:MG902 4.4 42.0 1.0 O1B 7:ADP903 4.5 61.3 1.0 O 7:ILE662 4.6 56.9 1.0 C 7:CYS388 4.7 48.7 1.0 O 7:GLY688 4.7 44.1 1.0 NE 7:ARG692 4.8 54.6 1.0 NH1 7:ARG689 4.8 49.5 1.0 N 7:SER661 4.9 55.7 1.0 O3A 7:ADP903 4.9 61.3 1.0 O2B 7:ADP903 4.9 61.3 1.0 CA 7:SER661 5.0 55.7 1.0

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