Magnesium in PDB 5c4a: Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble

All present enzymatic activity of Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble:
2.7.7.6;

The structure of Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble, PDB code: 5c4a was solved by C.O.Barnes, M.Calero, I.Malik, H.Saphr, Q.Zhang, F.Pullara, C.D.Kaplan, G.Calero, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.91 / 4.20
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	219.830, 396.710, 273.640, 90.00, 90.00, 90.00
R / Rfree (%)	22.4 / 24.2

The structure of Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble also contains other interesting chemical elements:

Zinc

(Zn)

8 atoms

The binding sites of Magnesium atom in the Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble (pdb code 5c4a). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble, PDB code: 5c4a:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1803 b:54.2 occ:1.00 O2' R:A10 2.0 0.2 1.0 OD1 A:ASP483 2.4 0.3 1.0 OD1 A:ASP481 2.4 0.2 1.0 OD2 A:ASP485 2.5 0.0 1.0 C2' R:A10 3.1 0.2 1.0 C3' R:A10 3.3 0.7 1.0 CG A:ASP481 3.3 0.9 1.0 CG A:ASP483 3.4 0.8 1.0 CG A:ASP485 3.6 0.8 1.0 OD2 A:ASP483 3.8 0.7 1.0 OD2 A:ASP481 3.8 0.8 1.0 C4' R:A10 3.9 0.2 1.0 N A:ASP481 4.0 82.9 1.0 C1' R:A10 4.2 0.7 1.0 OD1 A:ASP485 4.4 0.6 1.0 O A:ASP481 4.5 78.7 1.0 CB A:ASP481 4.5 0.4 1.0 O4' R:A10 4.6 0.3 1.0 CB A:ASP485 4.6 0.8 1.0 CA A:ASP481 4.6 89.0 1.0 C A:ASP481 4.7 85.7 1.0 CB A:ASP483 4.8 0.9 1.0 CA A:ALA480 4.8 0.6 1.0 NH2 A:ARG446 4.8 0.7 1.0 C A:ALA480 4.9 0.7 1.0 N A:ASP483 5.0 86.2 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1804 b:71.8 occ:1.00 OD1 A:ASP1420 3.2 0.9 1.0 C A:THR1394 3.7 0.5 1.0 O A:LEU1418 3.7 88.9 1.0 N A:GLY1395 3.7 0.4 1.0 CD2 A:LEU860 3.7 0.8 1.0 O A:THR1394 3.8 0.5 1.0 CG A:ASP1420 4.0 0.0 1.0 CA A:GLY1395 4.0 0.9 1.0 OD2 A:ASP1420 4.0 0.0 1.0 O A:ASN1393 4.3 0.7 1.0 CA A:THR1394 4.3 0.9 1.0 N A:THR1394 4.4 0.8 1.0 C A:ASN1393 4.4 0.7 1.0 C A:LEU1418 4.9 84.7 1.0

C.O.Barnes, M.Calero, I.Malik, B.W.Graham, H.Spahr, G.Lin, A.E.Cohen, I.S.Brown, Q.Zhang, F.Pullara, M.A.Trakselis, C.D.Kaplan, G.Calero. Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble. Mol.Cell V. 59 258 2015.
ISSN: ISSN 1097-2765
PubMed: 26186291
DOI: 10.1016/J.MOLCEL.2015.06.034