Magnesium in PDB 3i4m: 8-Oxoguanine Containing Rna Polymerase II Elongation Complex D

All present enzymatic activity of 8-Oxoguanine Containing Rna Polymerase II Elongation Complex D:
2.7.7.6;

The structure of 8-Oxoguanine Containing Rna Polymerase II Elongation Complex D, PDB code: 3i4m was solved by G.E.Damsma, P.Cramer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 3.70
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	220.646, 392.003, 281.455, 90.00, 90.00, 90.00
R / Rfree (%)	22.5 / 25.8

The structure of 8-Oxoguanine Containing Rna Polymerase II Elongation Complex D also contains other interesting chemical elements:

Bromine	(Br)	1 atom
Zinc	(Zn)	8 atoms

The binding sites of Magnesium atom in the 8-Oxoguanine Containing Rna Polymerase II Elongation Complex D (pdb code 3i4m). 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 8-Oxoguanine Containing Rna Polymerase II Elongation Complex D, PDB code: 3i4m:

Magnesium binding site 1 out of 1 in the 8-Oxoguanine Containing Rna Polymerase II Elongation Complex D


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of 8-Oxoguanine Containing Rna Polymerase II Elongation Complex D within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2458 b:69.3 occ:1.00 OD2 A:ASP483 2.3 96.7 1.0 OD2 A:ASP485 2.4 80.6 1.0 OD1 A:ASP481 2.4 91.4 1.0 O3' P:C10 2.4 0.8 1.0 OP2 P:U11 2.5 0.7 1.0 P P:U11 2.8 0.1 1.0 OD1 A:ASP485 2.8 83.9 1.0 C5' P:U11 2.9 1.0 1.0 CG A:ASP485 2.9 79.4 1.0 CG A:ASP483 2.9 94.8 1.0 O5' P:U11 3.0 0.9 1.0 OD1 A:ASP483 3.2 95.7 1.0 CG A:ASP481 3.5 91.3 1.0 C3' P:C10 3.7 0.1 1.0 O A:ASP483 4.0 86.3 1.0 OD2 A:ASP481 4.1 90.3 1.0 C4' P:U11 4.1 0.5 1.0 C4' P:C10 4.1 0.2 1.0 CB A:ASP483 4.2 91.5 1.0 C A:ASP483 4.2 85.8 1.0 OP1 P:U11 4.2 0.1 1.0 CB A:ASP485 4.3 75.0 1.0 C5' P:C10 4.4 0.2 1.0 CA A:ASP483 4.5 87.8 1.0 O4' P:U11 4.5 0.9 1.0 CB A:ASP481 4.6 91.3 1.0 N A:ASP485 4.6 73.1 1.0 N A:ASP483 4.6 88.6 1.0 O2' P:C10 4.6 0.8 1.0 C2' P:C10 4.7 0.6 1.0 N A:GLY484 4.8 83.0 1.0 CA A:ASP485 4.8 70.5 1.0 C A:GLY484 4.8 76.3 1.0

G.E.Damsma, P.Cramer. Molecular Basis of Transcriptional Mutagenesis at 8-Oxoguanine J.Biol.Chem. V. 284 31658 2009.
ISSN: ISSN 0021-9258
PubMed: 19758983
DOI: 10.1074/JBC.M109.022764