Fluorine in PDB 7nvx: Tfiih in A Post-Translocated State (with Adp-BEF3)

All present enzymatic activity of Tfiih in A Post-Translocated State (with Adp-BEF3):
3.6.4.12;

The structure of Tfiih in A Post-Translocated State (with Adp-BEF3) also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Iron	(Fe)	4 atoms
Zinc	(Zn)	7 atoms

The binding sites of Fluorine atom in the Tfiih in A Post-Translocated State (with Adp-BEF3) (pdb code 7nvx). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the Tfiih in A Post-Translocated State (with Adp-BEF3), PDB code: 7nvx:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in the Tfiih in A Post-Translocated State (with Adp-BEF3)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Tfiih in A Post-Translocated State (with Adp-BEF3) within 5.0Å range: probe atom residue distance (Å) B Occ 7:F903 b:40.3 occ:1.00 F1 7:BEF903 0.0 40.3 1.0 BE 7:BEF903 1.5 40.3 1.0 MG 7:MG902 2.2 32.4 1.0 F3 7:BEF903 2.6 40.3 1.0 F2 7:BEF903 2.7 40.3 1.0 O3B 7:ADP901 2.7 40.7 1.0 O2B 7:ADP901 2.9 40.7 1.0 PB 7:ADP901 3.3 40.7 1.0 OE2 7:GLU442 4.0 13.3 1.0 CA 7:SER614 4.0 27.0 1.0 CE 7:LYS346 4.0 28.5 1.0 NH2 7:ARG645 4.1 35.0 1.0 N 7:SER614 4.3 27.0 1.0 O1B 7:ADP901 4.4 40.7 1.0 OG 7:SER614 4.4 27.0 1.0 OD2 7:ASP441 4.5 18.1 1.0 OD1 7:ASP441 4.5 18.1 1.0 O2A 7:ADP901 4.5 40.7 1.0 O3A 7:ADP901 4.5 40.7 1.0 NZ 7:LYS346 4.7 28.5 1.0 CB 7:SER614 4.7 27.0 1.0 NH1 7:ARG642 4.9 28.0 1.0 CG 7:ASP441 4.9 18.1 1.0 CD 7:GLU442 4.9 13.3 1.0 C 7:SER614 5.0 27.0 1.0

Fluorine binding site 2 out of 3 in the Tfiih in A Post-Translocated State (with Adp-BEF3)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Tfiih in A Post-Translocated State (with Adp-BEF3) within 5.0Å range: probe atom residue distance (Å) B Occ 7:F903 b:40.3 occ:1.00 F2 7:BEF903 0.0 40.3 1.0 BE 7:BEF903 1.6 40.3 1.0 F3 7:BEF903 2.6 40.3 1.0 F1 7:BEF903 2.7 40.3 1.0 O3B 7:ADP901 2.7 40.7 1.0 NZ 7:LYS346 2.8 28.5 1.0 CE 7:LYS346 2.8 28.5 1.0 CA 7:CYS342 3.5 24.6 1.0 PB 7:ADP901 3.6 40.7 1.0 SG 7:CYS342 3.6 24.6 1.0 CB 7:ALA468 3.7 15.0 1.0 O1B 7:ADP901 3.8 40.7 1.0 CB 7:CYS342 3.8 24.6 1.0 O2B 7:ADP901 4.0 40.7 1.0 N 7:GLY343 4.2 33.8 1.0 N 7:CYS342 4.3 24.6 1.0 CD 7:LYS346 4.3 28.5 1.0 NH2 7:ARG642 4.4 28.0 1.0 C 7:CYS342 4.4 24.6 1.0 MG 7:MG902 4.4 32.4 1.0 OE1 7:GLN638 4.5 19.5 1.0 NH2 7:ARG645 4.5 35.0 1.0 N 7:ALA468 4.7 15.0 1.0 O 7:PRO341 4.7 23.0 1.0 C 7:PRO341 4.8 23.0 1.0 CA 7:ALA468 4.9 15.0 1.0

Fluorine binding site 3 out of 3 in the Tfiih in A Post-Translocated State (with Adp-BEF3)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Tfiih in A Post-Translocated State (with Adp-BEF3) within 5.0Å range: probe atom residue distance (Å) B Occ 7:F903 b:40.3 occ:1.00 F3 7:BEF903 0.0 40.3 1.0 BE 7:BEF903 1.5 40.3 1.0 NH2 7:ARG645 2.5 35.0 1.0 O3B 7:ADP901 2.6 40.7 1.0 F2 7:BEF903 2.6 40.3 1.0 F1 7:BEF903 2.6 40.3 1.0 NH1 7:ARG642 2.7 28.0 1.0 NH2 7:ARG642 2.9 28.0 1.0 CZ 7:ARG642 3.2 28.0 1.0 CZ 7:ARG645 3.3 35.0 1.0 NH1 7:ARG645 3.4 35.0 1.0 N 7:SER614 3.8 27.0 1.0 PB 7:ADP901 4.0 40.7 1.0 CA 7:SER614 4.1 27.0 1.0 CB 7:CYS342 4.2 24.6 1.0 SG 7:CYS342 4.4 24.6 1.0 MG 7:MG902 4.4 32.4 1.0 N 7:GLY343 4.4 33.8 1.0 CA 7:CYS342 4.5 24.6 1.0 NE 7:ARG645 4.5 35.0 1.0 NE 7:ARG642 4.5 28.0 1.0 OE1 7:GLN638 4.5 19.5 1.0 O2B 7:ADP901 4.6 40.7 1.0 C 7:SER614 4.6 27.0 1.0 N 7:PHE615 4.8 27.2 1.0 O3A 7:ADP901 4.9 40.7 1.0 O1B 7:ADP901 4.9 40.7 1.0 O 7:PHE615 4.9 27.2 1.0 C 7:CYS342 4.9 24.6 1.0 C 7:THR613 5.0 23.7 1.0

S.Aibara, S.Schilbach, P.Cramer. Structures of Mammalian Rna Polymerase II Pre-Initiation Complexes. Nature 2021.
ISSN: ESSN 1476-4687
PubMed: 33902107
DOI: 10.1038/S41586-021-03554-8