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Magnesium in PDB 7riq: Rna Polymerase II Elongation Complex Scaffold 1 Without Polyamide

Enzymatic activity of Rna Polymerase II Elongation Complex Scaffold 1 Without Polyamide

All present enzymatic activity of Rna Polymerase II Elongation Complex Scaffold 1 Without Polyamide:
2.7.7.6;

Protein crystallography data

The structure of Rna Polymerase II Elongation Complex Scaffold 1 Without Polyamide, PDB code: 7riq was solved by J.Oh, P.B.Dervan, D.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.15 / 3.00
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 167.849, 223.467, 193.032, 90, 100.3, 90
R / Rfree (%) 21.3 / 26.4

Other elements in 7riq:

The structure of Rna Polymerase II Elongation Complex Scaffold 1 Without Polyamide also contains other interesting chemical elements:

Zinc (Zn) 8 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Rna Polymerase II Elongation Complex Scaffold 1 Without Polyamide (pdb code 7riq). 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 Rna Polymerase II Elongation Complex Scaffold 1 Without Polyamide, PDB code: 7riq:

Magnesium binding site 1 out of 1 in 7riq

Go back to Magnesium Binding Sites List in 7riq
Magnesium binding site 1 out of 1 in the Rna Polymerase II Elongation Complex Scaffold 1 Without Polyamide


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rna Polymerase II Elongation Complex Scaffold 1 Without Polyamide within 5.0Å range:
probe atom residue distance (Å) B Occ
R:Mg2001

b:127.7
occ:1.00
 OD2 A:ASP483 2.0 183.9 1.0
O3' R:G9 2.0 157.9 1.0
OD1 A:ASP483 2.3 184.9 1.0
CG A:ASP483 2.4 166.2 1.0
C4' R:G9 2.4 95.7 1.0
C3' R:G9 2.6 117.8 1.0
O2' R:G9 3.0 101.2 1.0
C5' R:G9 3.2 79.5 1.0
C2' R:G9 3.3 96.1 1.0
OD2 A:ASP485 3.6 144.7 1.0
CG A:ASP485 3.6 134.6 1.0
O4' R:G9 3.6 84.0 1.0
OD1 A:ASP485 3.8 153.5 1.0
CB A:ASP483 3.9 134.6 1.0
N A:ASP485 3.9 74.4 1.0
C1' R:G9 4.1 78.2 1.0
O A:ASP481 4.1 101.4 1.0
CB A:ASP485 4.2 104.1 1.0
O5' R:G9 4.2 94.4 1.0
C A:ASP483 4.3 86.3 1.0
CA A:ASP485 4.3 81.2 1.0
CB A:ASP481 4.3 125.4 1.0
O A:ASP483 4.4 72.0 1.0
NZ B:LYS987 4.4 117.7 1.0
CA A:ASP483 4.4 111.0 1.0
N A:ASP483 4.5 102.5 1.0
N A:GLY484 4.5 65.6 1.0
C A:GLY484 4.6 64.5 1.0
C A:ASP481 4.8 83.5 1.0
CA A:GLY484 4.9 50.5 1.0

Reference:

J.Oh, T.Jia, J.Xu, J.Chong, P.B.Dervan, D.Wang. Rna Polymerase II Trapped on A Molecular Treadmill: Structural Basis of Persistent Transcriptional Arrest By A Minor Groove Dna Binder. Proc.Natl.Acad.Sci.Usa V. 119 2022.
ISSN: ESSN 1091-6490
PubMed: 35022237
DOI: 10.1073/PNAS.2114065119
Page generated: Thu Oct 3 07:52:43 2024

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