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Magnesium in PDB 3hoz: Complete Rna Polymerase II Elongation Complex IV with A T-U Mismatch and A Frayed Rna 3'-Guanine

Enzymatic activity of Complete Rna Polymerase II Elongation Complex IV with A T-U Mismatch and A Frayed Rna 3'-Guanine

All present enzymatic activity of Complete Rna Polymerase II Elongation Complex IV with A T-U Mismatch and A Frayed Rna 3'-Guanine:
2.7.7.6;

Protein crystallography data

The structure of Complete Rna Polymerase II Elongation Complex IV with A T-U Mismatch and A Frayed Rna 3'-Guanine, PDB code: 3hoz was solved by J.F.Sydow, F.Brueckner, A.C.M.Cheung, G.E.Damsma, S.Dengl, E.Lehmann, D.Vassylyev, P.Cramer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 3.65
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 221.427, 393.750, 281.818, 90.00, 90.00, 90.00
R / Rfree (%) 21 / 25.3

Other elements in 3hoz:

The structure of Complete Rna Polymerase II Elongation Complex IV with A T-U Mismatch and A Frayed Rna 3'-Guanine also contains other interesting chemical elements:

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

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Complete Rna Polymerase II Elongation Complex IV with A T-U Mismatch and A Frayed Rna 3'-Guanine (pdb code 3hoz). 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 Complete Rna Polymerase II Elongation Complex IV with A T-U Mismatch and A Frayed Rna 3'-Guanine, PDB code: 3hoz:

Magnesium binding site 1 out of 1 in 3hoz

Go back to Magnesium Binding Sites List in 3hoz
Magnesium binding site 1 out of 1 in the Complete Rna Polymerase II Elongation Complex IV with A T-U Mismatch and A Frayed Rna 3'-Guanine


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Complete Rna Polymerase II Elongation Complex IV with A T-U Mismatch and A Frayed Rna 3'-Guanine within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Mg2458

b:0.5
occ:1.00
 OD1 A:ASP481 2.4 0.9 1.0
OD2 A:ASP483 2.4 1.0 1.0
OD2 A:ASP485 2.4 92.5 1.0
O3' P:U10 2.6 0.1 1.0
CG A:ASP485 2.6 91.5 1.0
OD1 A:ASP485 2.7 94.3 1.0
OP2 P:G11 2.8 0.1 1.0
C5' P:G11 2.8 0.3 1.0
P P:G11 3.1 0.5 1.0
O3' P:G11 3.1 0.5 1.0
O5' P:G11 3.3 0.8 1.0
C4' P:G11 3.5 0.8 1.0
CG A:ASP481 3.5 0.7 1.0
CG A:ASP483 3.6 0.3 1.0
C3' P:G11 3.7 0.4 1.0
CB A:ASP485 3.8 87.3 1.0
C3' P:U10 3.9 0.1 1.0
OD2 A:ASP481 4.1 0.1 1.0
OD1 A:ASP483 4.2 0.1 1.0
N A:ASP485 4.2 85.8 1.0
CA A:ASP485 4.2 82.5 1.0
C4' P:U10 4.3 0.2 1.0
OP1 P:G11 4.5 0.1 1.0
C5' P:U10 4.6 0.4 1.0
O A:ASP481 4.7 0.7 1.0
CB A:ASP483 4.7 0.9 1.0
CB A:ASP481 4.7 0.6 1.0
C A:GLY484 4.8 89.9 1.0
O2' P:U10 4.8 1.0 1.0
C A:ASP483 4.9 0.7 1.0
O4' P:G11 4.9 0.2 1.0
C2' P:U10 5.0 0.7 1.0
N A:GLY484 5.0 99.8 1.0
N A:ASP483 5.0 0.7 1.0

Reference:

J.F.Sydow, F.Brueckner, A.C.M.Cheung, G.E.Damsma, S.Dengl, E.Lehmann, D.Vassylyev, P.Cramer. Structural Basis of Transcription: Mismatch-Specific Fidelity Mechanisms and Paused Rna Polymerase II with Frayed Rna. Mol.Cell V. 34 710 2009.
ISSN: ISSN 1097-2765
PubMed: 19560423
DOI: 10.1016/J.MOLCEL.2009.06.002
Page generated: Wed Aug 14 15:14:43 2024

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