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Magnesium in PDB 3gtp: Backtracked Rna Polymerase II Complex with 24MER Rna

Enzymatic activity of Backtracked Rna Polymerase II Complex with 24MER Rna

All present enzymatic activity of Backtracked Rna Polymerase II Complex with 24MER Rna:
2.7.7.6;

Protein crystallography data

The structure of Backtracked Rna Polymerase II Complex with 24MER Rna, PDB code: 3gtp was solved by D.Wang, D.A.Bushnell, X.Huang, K.D.Westover, M.Levitt, R.D.Kornberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 3.90
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 170.778, 222.113, 194.854, 90.00, 102.06, 90.00
R / Rfree (%) 26.6 / 29.9

Other elements in 3gtp:

The structure of Backtracked Rna Polymerase II Complex with 24MER Rna also contains other interesting chemical elements:

Zinc (Zn) 8 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Backtracked Rna Polymerase II Complex with 24MER Rna (pdb code 3gtp). 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 Backtracked Rna Polymerase II Complex with 24MER Rna, PDB code: 3gtp:

Magnesium binding site 1 out of 1 in 3gtp

Go back to Magnesium Binding Sites List in 3gtp
Magnesium binding site 1 out of 1 in the Backtracked Rna Polymerase II Complex with 24MER Rna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Backtracked Rna Polymerase II Complex with 24MER Rna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1736

b:98.0
occ:1.00
CG A:ASP485 2.2 95.4 1.0
OD1 A:ASP485 2.2 98.8 1.0
OD2 A:ASP483 2.2 95.8 1.0
OD2 A:ASP485 2.3 96.0 1.0
O3' R:A10 2.3 0.6 1.0
OD1 A:ASP481 2.6 98.3 1.0
CG A:ASP483 3.0 93.1 1.0
OD1 A:ASP483 3.0 92.4 1.0
O2' R:A10 3.0 0.5 1.0
OP1 R:U11 3.2 0.4 1.0
P R:U11 3.3 0.1 1.0
CB A:ASP485 3.4 93.1 1.0
C3' R:A10 3.4 0.2 1.0
C4' R:A10 3.5 0.7 1.0
N A:ASP485 3.7 92.2 1.0
C2' R:A10 3.8 0.6 1.0
CG A:ASP481 3.9 97.2 1.0
CA A:ASP485 4.0 92.8 1.0
O5' R:U11 4.0 0.1 1.0
N A:ASP481 4.3 94.2 1.0
O A:ASP481 4.4 94.1 1.0
CB A:ASP483 4.4 92.4 1.0
OP2 R:U11 4.4 0.9 1.0
C5' R:A10 4.5 0.9 1.0
N A:GLY484 4.5 91.2 1.0
O4' R:A10 4.5 0.3 1.0
C A:ASP481 4.7 94.1 1.0
N A:ASP483 4.7 92.4 1.0
OD2 A:ASP481 4.7 99.8 1.0
C A:GLY484 4.7 91.8 1.0
C1' R:A10 4.7 0.2 1.0
C5' R:U11 4.8 0.8 1.0
CA A:ASP481 4.9 94.7 1.0
CB A:ASP481 4.9 95.5 1.0
CA A:ASP483 4.9 92.0 1.0
C A:ASP483 5.0 91.4 1.0

Reference:

D.Wang, D.A.Bushnell, X.Huang, K.D.Westover, M.Levitt, R.D.Kornberg. Structural Basis of Transcription: Backtracked Rna Polymerase II at 3.4 Angstrom Resolution. Science V. 324 1203 2009.
ISSN: ISSN 0036-8075
PubMed: 19478184
DOI: 10.1126/SCIENCE.1168729
Page generated: Wed Aug 14 14:57:01 2024

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