Magnesium in PDB 3hoy: Complete Rna Polymerase II Elongation Complex VI

All present enzymatic activity of Complete Rna Polymerase II Elongation Complex VI:
2.7.7.6;

The structure of Complete Rna Polymerase II Elongation Complex VI, PDB code: 3hoy was solved by J.F.Sydow, F.Brueckner, A.C.M.Cheung, G.E.Damsma, S.Dengl, E.Lehmann, D.Vassylyev, P.Cramer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 3.40
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	222.144, 392.690, 282.377, 90.00, 90.00, 90.00
R / Rfree (%)	21.6 / 25.4

The structure of Complete Rna Polymerase II Elongation Complex VI also contains other interesting chemical elements:

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

The binding sites of Magnesium atom in the Complete Rna Polymerase II Elongation Complex VI (pdb code 3hoy). 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 Complete Rna Polymerase II Elongation Complex VI, PDB code: 3hoy:

Magnesium binding site 1 out of 1 in the Complete Rna Polymerase II Elongation Complex VI


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Complete Rna Polymerase II Elongation Complex VI within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2458 b:0.4 occ:1.00 OD1 A:ASP481 2.3 70.8 1.0 O3' P:G10 2.3 76.9 1.0 OD2 A:ASP483 2.3 59.3 1.0 OD1 A:ASP485 2.4 68.2 1.0 OD2 A:ASP485 2.5 63.8 1.0 CG A:ASP481 2.7 67.9 1.0 CG A:ASP485 2.8 62.7 1.0 CG A:ASP483 3.2 56.3 1.0 CB A:ASP481 3.3 61.1 1.0 OD1 A:ASP483 3.3 57.6 1.0 OD2 A:ASP481 3.4 72.4 1.0 C3' P:G10 3.6 80.1 1.0 O2' P:G10 3.7 83.9 1.0 N A:ASP481 3.8 53.3 1.0 C4' P:G10 4.0 79.8 1.0 CA A:ASP481 4.1 55.9 1.0 C2' P:G10 4.2 81.0 1.0 CB A:ASP485 4.3 56.9 1.0 C A:ASP481 4.3 54.7 1.0 O A:ASP481 4.3 54.4 1.0 CB A:ASP483 4.5 52.2 1.0 N A:ASP483 4.6 48.9 1.0 N A:ASP485 4.7 50.2 1.0 C5' P:G10 4.8 79.6 1.0 N A:PHE482 4.9 52.6 1.0 C A:ALA480 4.9 51.4 1.0 CA A:ASP483 5.0 47.5 1.0 CA A:ASP485 5.0 50.8 1.0

J.F.Sydow, F.Brueckner, A.C.M.Cheung, G.E.Damsma, S.Dengl, E.Lehmann, D.Vassylyev, P.Cramer. Structural Basis of Transcription: Mismatch-Specific Fidelity Mechanisms and Paused Rna Polymerase II with Frayed Rna. Mol.Cell V. 34 710 2009.
ISSN: ISSN 1097-2765
PubMed: 19560423
DOI: 10.1016/J.MOLCEL.2009.06.002