Magnesium in PDB 7o75: Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Open Promoter Dna

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

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

Iron	(Fe)	4 atoms
Fluorine	(F)	3 atoms
Zinc	(Zn)	17 atoms

The binding sites of Magnesium atom in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Open Promoter Dna (pdb code 7o75). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Open Promoter Dna, PDB code: 7o75:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Yeast Rna Polymerase II Transcription 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 Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Open Promoter Dna within 5.0Å range: probe atom residue distance (Å) B Occ 7:Mg902 b:100.9 occ:1.00 O3B 7:ADP903 2.0 108.2 1.0 F1 7:BEF901 2.0 104.6 1.0 PB 7:ADP903 3.2 108.2 1.0 BE 7:BEF901 3.2 104.6 1.0 O1B 7:ADP903 3.4 108.2 1.0 O1A 7:ADP903 3.7 108.2 1.0 OD1 7:ASP488 3.8 95.7 1.0 OG 7:SER661 4.0 102.1 1.0 NH2 7:ARG692 4.0 101.5 1.0 OG1 7:THR393 4.0 107.1 1.0 O3A 7:ADP903 4.1 108.2 1.0 F2 7:BEF901 4.2 104.6 1.0 PA 7:ADP903 4.3 108.2 1.0 OD2 7:ASP488 4.3 95.7 1.0 O2B 7:ADP903 4.3 108.2 1.0 F3 7:BEF901 4.4 104.6 1.0 CZ3 7:TRP420 4.4 105.6 1.0 CG 7:ASP488 4.4 95.7 1.0 CA 7:SER661 4.6 102.1 1.0 O2A 7:ADP903 4.6 108.2 1.0 CB 7:SER661 4.7 102.1 1.0 CE 7:LYS392 4.8 101.7 1.0 CZ 7:ARG692 5.0 101.5 1.0 CE3 7:TRP420 5.0 105.6 1.0

Magnesium binding site 2 out of 2 in the Yeast Rna Polymerase II Transcription 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 Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Open Promoter Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1803 b:43.2 occ:1.00 OD2 A:ASP483 2.0 17.6 1.0 OD1 A:ASP483 2.0 17.6 1.0 OD1 A:ASP481 2.2 17.3 1.0 CG A:ASP483 2.3 17.6 1.0 OD1 A:ASP485 2.5 19.3 1.0 OD2 A:ASP481 2.7 17.3 1.0 CG A:ASP481 2.8 17.3 1.0 CG A:ASP485 3.2 19.3 1.0 OD2 A:ASP485 3.2 19.3 1.0 CB A:ASP483 3.8 17.6 1.0 CB A:ASP481 4.2 17.3 1.0 N A:ASP483 4.5 17.6 1.0 CB A:ASP485 4.6 19.3 1.0 CA A:ASP483 4.6 17.6 1.0 N A:ASP481 4.8 17.3 1.0 O A:ASP481 4.9 17.3 1.0 C A:ASP481 4.9 17.3 1.0 CA A:ASP481 4.9 17.3 1.0 C A:ASP483 4.9 17.6 1.0 N A:ASP485 4.9 19.3 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