Magnesium in PDB 3gto: Backtracked Rna Polymerase II Complex with 15MER Rna

All present enzymatic activity of Backtracked Rna Polymerase II Complex with 15MER Rna:
2.7.7.6;

The structure of Backtracked Rna Polymerase II Complex with 15MER Rna, PDB code: 3gto was solved by D.Wang, D.A.Bushnell, X.Huang, K.D.Westover, M.Levitt, R.D.Kornberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 4.00
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	170.851, 222.804, 194.977, 90.00, 101.98, 90.00
R / Rfree (%)	26.9 / 29

The structure of Backtracked Rna Polymerase II Complex with 15MER Rna also contains other interesting chemical elements:

Zinc

(Zn)

8 atoms

The binding sites of Magnesium atom in the Backtracked Rna Polymerase II Complex with 15MER Rna (pdb code 3gto). 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 Backtracked Rna Polymerase II Complex with 15MER Rna, PDB code: 3gto:

Magnesium binding site 1 out of 1 in the Backtracked Rna Polymerase II Complex with 15MER Rna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Backtracked Rna Polymerase II Complex with 15MER Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1736 b:92.1 occ:1.00 OD2 A:ASP483 2.2 88.2 1.0 OD2 A:ASP485 2.2 90.6 1.0 O3' R:A10 2.2 0.5 1.0 CG A:ASP485 2.5 89.2 1.0 OD1 A:ASP481 2.8 89.9 1.0 O2' R:A10 2.9 99.6 1.0 CG A:ASP483 3.0 84.9 1.0 OD1 A:ASP483 3.1 85.2 1.0 OD1 A:ASP485 3.1 92.2 1.0 CB A:ASP485 3.2 86.8 1.0 OP1 R:U11 3.2 0.9 1.0 P R:U11 3.2 0.6 1.0 C3' R:A10 3.3 0.4 1.0 C4' R:A10 3.4 1.0 1.0 C2' R:A10 3.7 0.9 1.0 CG A:ASP481 3.8 88.9 1.0 N A:ASP485 3.8 85.2 1.0 CA A:ASP485 3.9 86.6 1.0 O5' R:U11 4.1 0.6 1.0 N A:ASP481 4.2 87.2 1.0 OD2 A:ASP481 4.2 91.0 1.0 OP2 R:U11 4.3 0.8 1.0 O4' R:A10 4.3 0.9 1.0 C5' R:A10 4.4 0.9 1.0 N A:GLY484 4.4 83.5 1.0 CB A:ASP483 4.4 84.2 1.0 C A:GLY484 4.5 84.3 1.0 C1' R:A10 4.6 99.9 1.0 N A:ASP483 4.7 83.4 1.0 O A:ASP481 4.7 86.4 1.0 C A:ASP481 4.8 86.1 1.0 CA A:ASP481 4.9 86.9 1.0 CB A:ASP481 4.9 87.3 1.0 CA A:ASP483 4.9 83.6 1.0 CA A:ALA480 5.0 87.5 1.0

D.Wang, D.A.Bushnell, X.Huang, K.D.Westover, M.Levitt, R.D.Kornberg. Structural Basis of Transcription: Backtracked Rna Polymerase II at 3.4 Angstrom Resolution. Science V. 324 1203 2009.
ISSN: ISSN 0036-8075
PubMed: 19478184
DOI: 10.1126/SCIENCE.1168729