Magnesium in PDB 8s5n: Rna Polymerase II Core Initially Transcribing Complex with An Ordered Rna of 12 Nt

All present enzymatic activity of Rna Polymerase II Core Initially Transcribing Complex with An Ordered Rna of 12 Nt:
2.3.1.48; 2.7.7.6; 3.6.4.12;

The structure of Rna Polymerase II Core Initially Transcribing Complex with An Ordered Rna of 12 Nt also contains other interesting chemical elements:

Zinc

(Zn)

10 atoms

The binding sites of Magnesium atom in the Rna Polymerase II Core Initially Transcribing Complex with An Ordered Rna of 12 Nt (pdb code 8s5n). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Rna Polymerase II Core Initially Transcribing Complex with An Ordered Rna of 12 Nt, PDB code: 8s5n:

Magnesium binding site 1 out of 1 in the Rna Polymerase II Core Initially Transcribing Complex with An Ordered Rna of 12 Nt


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 Core Initially Transcribing Complex with An Ordered Rna of 12 Nt within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2003 b:20.8 occ:1.00 OD1 A:ASP497 1.9 21.1 1.0 OD1 A:ASP495 1.9 20.5 1.0 OD1 A:ASP499 1.9 19.0 1.0 O3' P:G11 2.1 30.3 1.0 OP1 P:C12 2.5 35.6 1.0 P P:C12 2.8 35.6 1.0 CG A:ASP497 2.8 21.1 1.0 CG A:ASP499 2.9 19.0 1.0 CG A:ASP495 3.0 20.5 1.0 OD2 A:ASP497 3.2 21.1 1.0 OD2 A:ASP499 3.4 19.0 1.0 C3' P:G11 3.4 30.3 1.0 OD2 A:ASP495 3.5 20.5 1.0 C5' P:C12 3.7 35.6 1.0 O2' P:G11 3.7 30.3 1.0 O5' P:C12 3.7 35.6 1.0 C4' P:G11 3.8 30.3 1.0 OP2 P:C12 4.0 35.6 1.0 CB A:ASP497 4.1 21.1 1.0 C2' P:G11 4.1 30.3 1.0 O A:ASP495 4.2 20.5 1.0 N A:ASP497 4.2 21.1 1.0 CB A:ASP499 4.3 19.0 1.0 N A:ASP499 4.3 19.0 1.0 CB A:ASP495 4.3 20.5 1.0 C A:ASP495 4.3 20.5 1.0 N A:ASP495 4.3 20.5 1.0 C5' P:G11 4.4 30.3 1.0 CA A:ASP497 4.5 21.1 1.0 CA A:ASP495 4.5 20.5 1.0 CA A:ASP499 4.6 19.0 1.0 C A:ASP497 4.7 21.1 1.0 N A:GLY498 4.9 17.0 1.0 N A:PHE496 4.9 19.6 1.0

Y.Zhan, F.Grabbe, E.Oberbeckmann, C.Dienemann, P.Cramer. Three-Step Mechanism of Promoter Escape By Rna Polymerase II To Be Published.