Magnesium in PDB 7nw0: Rna Polymerase II Pre-Initiation Complex with Open Promoter Dna

All present enzymatic activity of Rna Polymerase II Pre-Initiation Complex with Open Promoter Dna:
2.3.1.48; 2.7.7.6; 3.6.4.12;

The structure of Rna Polymerase II Pre-Initiation Complex with Open Promoter Dna also contains other interesting chemical elements:

Fluorine	(F)	3 atoms
Zinc	(Zn)	15 atoms
Iron	(Fe)	4 atoms

The binding sites of Magnesium atom in the Rna Polymerase II Pre-Initiation Complex with Open Promoter Dna (pdb code 7nw0). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Rna Polymerase II Pre-Initiation Complex with Open Promoter Dna, PDB code: 7nw0:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Rna Polymerase II Pre-Initiation Complex with Open Promoter Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rna Polymerase II Pre-Initiation Complex with Open Promoter Dna within 5.0Å range: probe atom residue distance (Å) B Occ 7:Mg902 b:55.0 occ:1.00 O1B 7:ADP901 2.0 53.0 1.0 F1 7:BEF903 2.2 56.2 1.0 PB 7:ADP901 3.2 53.0 1.0 O3B 7:ADP901 3.3 53.0 1.0 BE 7:BEF903 3.3 56.2 1.0 O2A 7:ADP901 3.5 53.0 1.0 OG 7:SER347 3.8 68.5 1.0 OD1 7:ASP441 3.8 67.7 1.0 OD2 7:ASP441 3.9 67.7 1.0 O3A 7:ADP901 4.0 53.0 1.0 PA 7:ADP901 4.1 53.0 1.0 CG 7:ASP441 4.3 67.7 1.0 F3 7:BEF903 4.3 56.2 1.0 O2B 7:ADP901 4.4 53.0 1.0 O1A 7:ADP901 4.4 53.0 1.0 F2 7:BEF903 4.4 56.2 1.0 CB 7:LYS346 4.7 54.7 1.0 N 7:SER347 4.7 68.5 1.0 CE 7:LYS346 4.8 54.7 1.0 CA 7:SER614 4.8 51.8 1.0 OG 7:SER614 4.9 51.8 1.0 NH2 7:ARG645 5.0 53.1 1.0

Magnesium binding site 2 out of 2 in the Rna Polymerase II Pre-Initiation Complex with Open Promoter Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Rna Polymerase II Pre-Initiation Complex with Open Promoter Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2003 b:43.2 occ:1.00 OD1 A:ASP497 2.0 35.1 1.0 OD2 A:ASP495 2.3 25.9 1.0 OD1 A:ASP499 2.4 19.9 1.0 OD1 A:ASP495 2.6 25.9 1.0 CG A:ASP497 2.7 35.1 1.0 OD2 A:ASP497 2.8 35.1 1.0 CG A:ASP495 2.8 25.9 1.0 CG A:ASP499 3.4 19.9 1.0 OD2 A:ASP499 3.7 19.9 1.0 CB A:ASP497 4.2 35.1 1.0 CB A:ASP495 4.3 25.9 1.0 C A:ASP497 4.6 35.1 1.0 O A:ASP497 4.6 35.1 1.0 N A:ASP499 4.6 19.9 1.0 N A:ASP497 4.7 35.1 1.0 CA A:ASP497 4.7 35.1 1.0 CB A:ASP499 4.7 19.9 1.0 NH2 A:ARG460 4.8 18.6 1.0 NZ B:LYS942 4.9 24.6 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