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Magnesium in PDB 6u2o: Structure of Human Dna Polymerase Beta Misinserting Dampnpp Opposite the 5'G of the Cisplatin Pt-Gg Intrastrand Crosslink

Enzymatic activity of Structure of Human Dna Polymerase Beta Misinserting Dampnpp Opposite the 5'G of the Cisplatin Pt-Gg Intrastrand Crosslink

All present enzymatic activity of Structure of Human Dna Polymerase Beta Misinserting Dampnpp Opposite the 5'G of the Cisplatin Pt-Gg Intrastrand Crosslink:
2.7.7.7;

Protein crystallography data

The structure of Structure of Human Dna Polymerase Beta Misinserting Dampnpp Opposite the 5'G of the Cisplatin Pt-Gg Intrastrand Crosslink, PDB code: 6u2o was solved by H.Ouzon-Shubeita, C.K.Vilas, S.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.52 / 2.30
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 53.990, 79.184, 54.587, 90.00, 107.60, 90.00
R / Rfree (%) 20.1 / 24.8

Other elements in 6u2o:

The structure of Structure of Human Dna Polymerase Beta Misinserting Dampnpp Opposite the 5'G of the Cisplatin Pt-Gg Intrastrand Crosslink also contains other interesting chemical elements:

Platinum (Pt) 1 atom
Sodium (Na) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Human Dna Polymerase Beta Misinserting Dampnpp Opposite the 5'G of the Cisplatin Pt-Gg Intrastrand Crosslink (pdb code 6u2o). 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 Structure of Human Dna Polymerase Beta Misinserting Dampnpp Opposite the 5'G of the Cisplatin Pt-Gg Intrastrand Crosslink, PDB code: 6u2o:

Magnesium binding site 1 out of 1 in 6u2o

Go back to Magnesium Binding Sites List in 6u2o
Magnesium binding site 1 out of 1 in the Structure of Human Dna Polymerase Beta Misinserting Dampnpp Opposite the 5'G of the Cisplatin Pt-Gg Intrastrand Crosslink


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Human Dna Polymerase Beta Misinserting Dampnpp Opposite the 5'G of the Cisplatin Pt-Gg Intrastrand Crosslink within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg401

b:35.3
occ:1.00
 O2B A:DZ4403 2.0 34.0 1.0
O A:HOH524 2.1 27.0 1.0
OD1 A:ASP190 2.1 31.6 1.0
O1A A:DZ4403 2.2 35.0 1.0
OD2 A:ASP192 2.2 31.8 1.0
O3G A:DZ4403 2.4 40.1 1.0
PB A:DZ4403 3.1 37.9 1.0
CG A:ASP190 3.1 29.9 1.0
CG A:ASP192 3.2 31.1 1.0
PA A:DZ4403 3.2 40.4 1.0
N3A A:DZ4403 3.3 40.9 1.0
OD2 A:ASP190 3.4 31.1 1.0
OD1 A:ASP192 3.4 31.7 1.0
PG A:DZ4403 3.5 36.8 1.0
O3B A:DZ4403 3.5 36.2 1.0
O5' A:DZ4403 3.6 46.6 1.0
O A:HOH501 3.6 38.2 1.0
O A:ASP190 4.0 26.3 1.0
O1G A:DZ4403 4.1 43.4 1.0
O A:HOH521 4.1 49.3 1.0
O A:HOH525 4.2 28.3 1.0
CA A:GLY179 4.3 34.8 1.0
N A:SER180 4.4 35.4 1.0
CB A:ASP190 4.5 28.1 1.0
O1B A:DZ4403 4.5 40.4 1.0
C A:ASP190 4.5 29.3 1.0
CB A:ASP192 4.5 29.6 1.0
O2A A:DZ4403 4.6 44.8 1.0
OG A:SER180 4.6 33.9 1.0
N A:ASP190 4.6 27.0 1.0
O2G A:DZ4403 4.7 41.2 1.0
CA A:ASP190 4.8 28.8 1.0
C5' A:DZ4403 4.8 52.5 1.0
N A:ASP192 5.0 28.3 1.0
C A:GLY179 5.0 33.9 1.0

Reference:

H.Ouzon-Shubeita, C.K.Vilas, S.Lee. Structures of the Mutagenic Bypass of the Major Cisplatin-Dna Lesion By Human Dna Polymerase Beta Reveal Insights Into Cisplatin-Induced Mutagenesis To Be Published.
Page generated: Tue Oct 1 20:49:07 2024

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