Magnesium in PDB 7o4i: Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Initial Transcription Bubble

All present enzymatic activity of Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Initial Transcription Bubble:
2.7.7.6; 3.6.4.12;

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

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

The binding sites of Magnesium atom in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Initial Transcription Bubble (pdb code 7o4i). 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 Initial Transcription Bubble, PDB code: 7o4i:
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 Initial Transcription Bubble


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 Initial Transcription Bubble within 5.0Å range: probe atom residue distance (Å) B Occ 7:Mg902 b:172.6 occ:1.00 F1 7:BEF901 2.0 201.8 1.0 O3B 7:ADP903 2.0 201.2 1.0 PB 7:ADP903 3.2 201.2 1.0 BE 7:BEF901 3.3 201.8 1.0 O1B 7:ADP903 3.5 201.2 1.0 OD2 7:ASP488 3.9 206.3 1.0 F2 7:BEF901 4.1 201.8 1.0 NE1 7:TRP420 4.1 203.0 1.0 OG1 7:THR393 4.1 202.2 1.0 OD1 7:ASP488 4.1 206.3 1.0 O2B 7:ADP903 4.2 201.2 1.0 O1A 7:ADP903 4.2 201.2 1.0 OG 7:SER661 4.3 203.7 1.0 O3A 7:ADP903 4.3 201.2 1.0 CG 7:ASP488 4.4 206.3 1.0 F3 7:BEF901 4.4 201.8 1.0 CA 7:SER661 4.6 203.7 1.0 CZ2 7:TRP420 4.6 203.0 1.0 CE 7:LYS392 4.6 201.8 1.0 CE2 7:TRP420 4.6 203.0 1.0 PA 7:ADP903 4.7 201.2 1.0 CB 7:SER661 4.8 203.7 1.0 O2A 7:ADP903 4.8 201.2 1.0 OE2 7:GLU489 4.9 205.8 1.0 CB 7:LYS392 5.0 201.8 1.0

Magnesium binding site 2 out of 2 in the Yeast Rna Polymerase II Transcription Pre-Initiation Complex with Initial Transcription Bubble


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 Initial Transcription Bubble within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1803 b:37.1 occ:1.00 OD2 A:ASP483 2.0 31.5 1.0 OD1 A:ASP483 2.2 31.5 1.0 CG A:ASP483 2.4 31.5 1.0 OD1 A:ASP481 2.4 32.1 1.0 OD1 A:ASP485 2.5 29.0 1.0 OD2 A:ASP481 3.1 32.1 1.0 CG A:ASP481 3.1 32.1 1.0 CG A:ASP485 3.2 29.0 1.0 OD2 A:ASP485 3.3 29.0 1.0 CB A:ASP483 3.9 31.5 1.0 CB A:ASP481 4.5 32.1 1.0 N A:ASP483 4.6 31.5 1.0 CB A:ASP485 4.6 29.0 1.0 CA A:ASP483 4.7 31.5 1.0 N A:ASP485 4.9 29.0 1.0 C A:ASP483 4.9 31.5 1.0 N A:ASP481 4.9 32.1 1.0 O A:ASP481 5.0 32.1 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