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Magnesium in PDB 4mfc: Structure of Human Dna Polymerase Beta Complexed with O6MG in the Template Base Paired with Incoming Non-Hydrolyzable Ctp

Enzymatic activity of Structure of Human Dna Polymerase Beta Complexed with O6MG in the Template Base Paired with Incoming Non-Hydrolyzable Ctp

All present enzymatic activity of Structure of Human Dna Polymerase Beta Complexed with O6MG in the Template Base Paired with Incoming Non-Hydrolyzable Ctp:
2.7.7.7;

Protein crystallography data

The structure of Structure of Human Dna Polymerase Beta Complexed with O6MG in the Template Base Paired with Incoming Non-Hydrolyzable Ctp, PDB code: 4mfc was solved by M.C.Koag, K.Min, A.F.Monzingo, S.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.13
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 54.596, 79.648, 54.856, 90.00, 105.86, 90.00
R / Rfree (%) 21.3 / 27.5

Other elements in 4mfc:

The structure of Structure of Human Dna Polymerase Beta Complexed with O6MG in the Template Base Paired with Incoming Non-Hydrolyzable Ctp also contains other interesting chemical elements:

Sodium (Na) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Human Dna Polymerase Beta Complexed with O6MG in the Template Base Paired with Incoming Non-Hydrolyzable Ctp (pdb code 4mfc). 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 Complexed with O6MG in the Template Base Paired with Incoming Non-Hydrolyzable Ctp, PDB code: 4mfc:

Magnesium binding site 1 out of 1 in 4mfc

Go back to Magnesium Binding Sites List in 4mfc
Magnesium binding site 1 out of 1 in the Structure of Human Dna Polymerase Beta Complexed with O6MG in the Template Base Paired with Incoming Non-Hydrolyzable Ctp


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 Complexed with O6MG in the Template Base Paired with Incoming Non-Hydrolyzable Ctp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg401

b:40.7
occ:1.00
 O A:HOH592 2.0 27.9 1.0
O2B A:0KX404 2.0 36.4 1.0
O1A A:0KX404 2.0 43.2 1.0
O A:HOH591 2.0 34.3 1.0
O1G A:0KX404 2.1 38.1 1.0
OD1 A:ASP190 2.2 33.2 1.0
PB A:0KX404 3.1 40.4 1.0
PG A:0KX404 3.2 34.8 1.0
PA A:0KX404 3.2 42.0 1.0
CG A:ASP190 3.4 32.1 1.0
O3B A:0KX404 3.6 40.5 1.0
N3A A:0KX404 3.6 39.4 1.0
O3G A:0KX404 3.8 36.6 1.0
O A:HOH542 3.8 35.0 1.0
OD2 A:ASP190 4.0 40.0 1.0
O A:ASP190 4.2 22.6 1.0
N A:ASP190 4.2 22.6 1.0
C5' A:0KX404 4.3 45.1 1.0
O5' A:0KX404 4.3 42.0 1.0
O2A A:0KX404 4.3 43.7 1.0
O2G A:0KX404 4.5 37.5 1.0
OG A:SER180 4.5 28.1 1.0
N A:SER180 4.5 28.4 1.0
O1B A:0KX404 4.5 40.9 1.0
CB A:ASP190 4.6 25.7 1.0
C A:ASP190 4.6 26.9 1.0
CA A:GLY179 4.6 26.7 1.0
CA A:ASP190 4.7 26.2 1.0
O A:HOH507 4.7 29.1 1.0
N A:GLY189 4.8 24.2 1.0

Reference:

M.C.Koag, S.Lee. Metal-Dependent Conformational Activation Explains Highly Promutagenic Replication Across O6-Methylguanine By Human Dna Polymerase Beta. J.Am.Chem.Soc. V. 136 5709 2014.
ISSN: ISSN 0002-7863
PubMed: 24694247
DOI: 10.1021/JA500172D
Page generated: Mon Aug 11 20:22:35 2025

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