Magnesium in PDB 4by1: Elongating Rna Polymerase II-BYE1 Tld Complex Soaked with Ampcpp

All present enzymatic activity of Elongating Rna Polymerase II-BYE1 Tld Complex Soaked with Ampcpp:
2.7.7.6;

The structure of Elongating Rna Polymerase II-BYE1 Tld Complex Soaked with Ampcpp, PDB code: 4by1 was solved by K.Kinkelin, G.G.Wozniak, S.B.Rothbart, M.Lidschreiber, B.D.Strahl, P.Cramer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.95 / 3.60
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	222.240, 391.580, 281.020, 90.00, 90.00, 90.00
R / Rfree (%)	17.49 / 20.62

The structure of Elongating Rna Polymerase II-BYE1 Tld Complex Soaked with Ampcpp also contains other interesting chemical elements:

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

The binding sites of Magnesium atom in the Elongating Rna Polymerase II-BYE1 Tld Complex Soaked with Ampcpp (pdb code 4by1). 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 Elongating Rna Polymerase II-BYE1 Tld Complex Soaked with Ampcpp, PDB code: 4by1:

Magnesium binding site 1 out of 1 in the Elongating Rna Polymerase II-BYE1 Tld Complex Soaked with Ampcpp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Elongating Rna Polymerase II-BYE1 Tld Complex Soaked with Ampcpp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2458 b:58.7 occ:1.00 O3' P:A11 1.9 83.2 1.0 OD1 A:ASP485 2.0 97.5 1.0 OD1 A:ASP483 2.1 0.9 1.0 OD2 A:ASP481 2.2 0.2 1.0 CG A:ASP481 2.3 0.7 1.0 OD1 A:ASP481 2.4 0.8 1.0 CG A:ASP483 2.9 0.8 1.0 O2A P:APC12 2.9 0.9 1.0 CG A:ASP485 3.0 94.9 1.0 OD2 A:ASP483 3.1 1.0 1.0 O2' P:A11 3.1 83.8 1.0 C3' P:A11 3.2 83.5 1.0 OD2 A:ASP485 3.3 98.9 1.0 CB A:ASP481 3.6 85.3 1.0 C2' P:A11 3.7 83.4 1.0 C4' P:A11 3.8 84.0 1.0 O A:ASP481 4.2 86.3 1.0 O2B P:APC12 4.2 0.2 1.0 CA A:ASP481 4.3 82.0 1.0 PA P:APC12 4.3 0.8 1.0 N A:ASP481 4.3 80.9 1.0 C A:ASP481 4.3 86.8 1.0 CB A:ASP483 4.3 90.3 1.0 CB A:ASP485 4.3 82.4 1.0 N A:ASP483 4.5 86.9 1.0 O1A P:APC12 4.5 0.5 1.0 C5' P:A11 4.6 85.2 1.0 CA A:ASP483 4.8 87.4 1.0 NH2 A:ARG446 4.9 88.9 1.0 C1' P:A11 4.9 83.1 1.0 N A:ASP485 4.9 82.3 1.0 O4' P:A11 4.9 83.2 1.0 CA A:ASP485 4.9 80.5 1.0 C A:ASP483 4.9 90.6 1.0

K.Kinkelin, G.G.Wozniak, S.B.Rothbart, M.Lidschreiber, B.D.Strahl, P.Cramer. Structures of Rna Polymerase II Complexes with BYE1, A Chromatin-Binding PHF3/DIDO1 Homologue Proc.Natl.Acad.Sci.Usa V. 110 15277 2013.
ISSN: ISSN 0027-8424
PubMed: 24003114
DOI: 10.1073/PNAS.1311010110