Fluorine in PDB 7o4k: Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex

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

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

Iron	(Fe)	4 atoms
Magnesium	(Mg)	1 atom
Zinc	(Zn)	10 atoms

The binding sites of Fluorine atom in the Yeast Tfiih in the Contracted State Within the Pre-Initiation Complex (pdb code 7o4k). 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 Contracted State Within the Pre-Initiation Complex, PDB code: 7o4k:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in the Yeast Tfiih in the Contracted 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 Contracted State Within the Pre-Initiation Complex within 5.0Å range: probe atom residue distance (Å) B Occ 7:F901 b:45.0 occ:1.00 F1 7:BEF901 0.0 45.0 1.0 BE 7:BEF901 1.5 45.0 1.0 MG 7:MG902 2.0 63.4 1.0 F3 7:BEF901 2.6 45.0 1.0 F2 7:BEF901 2.6 45.0 1.0 O1B 7:ADP903 2.7 37.9 1.0 O3B 7:ADP903 2.9 37.9 1.0 OE2 7:GLU489 3.1 43.1 1.0 PB 7:ADP903 3.3 37.9 1.0 CA 7:SER661 4.0 39.1 1.0 CD 7:GLU489 4.3 43.1 1.0 O2B 7:ADP903 4.3 37.9 1.0 N 7:SER661 4.3 39.1 1.0 NH1 7:ARG692 4.3 30.4 1.0 O3A 7:ADP903 4.6 37.9 1.0 NH2 7:ARG689 4.6 37.6 1.0 CE 7:LYS392 4.6 34.0 1.0 OE1 7:GLU489 4.7 43.1 1.0 NH1 7:ARG689 4.7 37.6 1.0 CB 7:SER661 4.7 39.1 1.0 OG 7:SER661 4.7 39.1 1.0 NZ 7:LYS392 4.9 34.0 1.0 OD2 7:ASP488 4.9 43.7 1.0 O1A 7:ADP903 4.9 37.9 1.0 NH2 7:ARG692 5.0 30.4 1.0 C 7:SER661 5.0 39.1 1.0

Fluorine binding site 2 out of 3 in the Yeast Tfiih in the Contracted 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 Contracted State Within the Pre-Initiation Complex within 5.0Å range: probe atom residue distance (Å) B Occ 7:F901 b:45.0 occ:1.00 F2 7:BEF901 0.0 45.0 1.0 BE 7:BEF901 1.6 45.0 1.0 F3 7:BEF901 2.6 45.0 1.0 F1 7:BEF901 2.6 45.0 1.0 O1B 7:ADP903 2.7 37.9 1.0 NZ 7:LYS392 3.0 34.0 1.0 CE 7:LYS392 3.2 34.0 1.0 SG 7:CYS388 3.4 36.6 1.0 CA 7:CYS388 3.4 36.6 1.0 PB 7:ADP903 3.5 37.9 1.0 O2B 7:ADP903 3.6 37.9 1.0 CB 7:CYS388 3.8 36.6 1.0 CB 7:ALA515 3.8 36.6 1.0 O3B 7:ADP903 3.9 37.9 1.0 N 7:GLY389 4.1 39.4 1.0 MG 7:MG902 4.2 63.4 1.0 C 7:CYS388 4.3 36.6 1.0 N 7:CYS388 4.3 36.6 1.0 OE2 7:GLU489 4.6 43.1 1.0 O 7:PRO387 4.6 35.1 1.0 N 7:ALA515 4.6 36.6 1.0 NH1 7:ARG692 4.6 30.4 1.0 NH2 7:ARG689 4.7 37.6 1.0 CD 7:LYS392 4.8 34.0 1.0 CA 7:ALA515 4.8 36.6 1.0 C 7:PRO387 4.8 35.1 1.0 OE1 7:GLU489 4.9 43.1 1.0 O3A 7:ADP903 5.0 37.9 1.0 OE1 7:GLN685 5.0 38.8 1.0

Fluorine binding site 3 out of 3 in the Yeast Tfiih in the Contracted 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 Contracted State Within the Pre-Initiation Complex within 5.0Å range: probe atom residue distance (Å) B Occ 7:F901 b:45.0 occ:1.00 F3 7:BEF901 0.0 45.0 1.0 BE 7:BEF901 1.5 45.0 1.0 F2 7:BEF901 2.6 45.0 1.0 NH1 7:ARG692 2.6 30.4 1.0 O1B 7:ADP903 2.6 37.9 1.0 F1 7:BEF901 2.6 45.0 1.0 NH2 7:ARG689 2.6 37.6 1.0 CZ 7:ARG689 3.4 37.6 1.0 NH1 7:ARG689 3.4 37.6 1.0 SG 7:CYS388 3.6 36.6 1.0 CB 7:CYS388 3.6 36.6 1.0 CZ 7:ARG692 3.8 30.4 1.0 CA 7:CYS388 4.0 36.6 1.0 PB 7:ADP903 4.0 37.9 1.0 N 7:GLY389 4.0 39.4 1.0 NH2 7:ARG692 4.3 30.4 1.0 MG 7:MG902 4.4 63.4 1.0 C 7:CYS388 4.4 36.6 1.0 O3B 7:ADP903 4.6 37.9 1.0 N 7:SER661 4.6 39.1 1.0 NE 7:ARG689 4.6 37.6 1.0 O 7:GLY688 4.8 40.6 1.0 O2B 7:ADP903 4.8 37.9 1.0 NE 7:ARG692 4.9 30.4 1.0 CA 7:SER661 4.9 39.1 1.0 CA 7:GLY688 4.9 40.6 1.0 C 7:GLY688 5.0 40.6 1.0 O3A 7:ADP903 5.0 37.9 1.0 OE1 7:GLN685 5.0 38.8 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