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Magnesium in PDB 5c4j: Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble

Enzymatic activity of 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;

Protein crystallography data

The structure of Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble, PDB code: 5c4j was solved by C.O.Barnes, M.Calero, I.Malik, H.Spahr, 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) 174.08 / 4.00
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 280.711, 223.384, 156.422, 90.00, 98.14, 90.00
R / Rfree (%) 21.2 / 27.1

Other elements in 5c4j:

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) 9 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble (pdb code 5c4j). 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 Crystal Structure of A Transcribing Rna Polymerase II Complex Reveals A Complete Transcription Bubble, PDB code: 5c4j:

Magnesium binding site 1 out of 1 in 5c4j

Go back to Magnesium Binding Sites List in 5c4j
Magnesium binding site 1 out of 1 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
R:Mg101

b:0.6
occ:1.00
C3' R:A10 1.5 0.7 1.0
O2' R:A10 1.9 0.8 1.0
C2' R:A10 2.0 0.3 1.0
C4' R:A10 2.8 0.7 1.0
C1' R:A10 3.0 0.2 1.0
OD1 A:ASP483 3.4 0.7 1.0
O4' R:A10 3.5 0.0 1.0
OD2 A:ASP483 3.6 0.3 1.0
OD1 A:ASP481 3.9 0.8 1.0
CG A:ASP483 3.9 0.2 1.0
OD2 A:ASP485 3.9 0.8 1.0
C5' R:A10 4.1 0.3 1.0
O5' R:A10 4.3 0.0 1.0
N9 R:A10 4.3 0.6 1.0
CG A:ASP485 4.8 0.1 1.0
CG A:ASP481 4.9 0.8 1.0
O A:ASP483 5.0 0.3 1.0

Reference:

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
Page generated: Tue Aug 12 06:16:49 2025

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