Magnesium in PDB 6pkz: Structure of Human Dna Polymerase Beta N279A Complexed with 8OA in the Template Base Paired with Incoming Non-Hydrolyzable Gtp

Enzymatic activity of Structure of Human Dna Polymerase Beta N279A Complexed with 8OA in the Template Base Paired with Incoming Non-Hydrolyzable Gtp

All present enzymatic activity of Structure of Human Dna Polymerase Beta N279A Complexed with 8OA in the Template Base Paired with Incoming Non-Hydrolyzable Gtp:
2.7.7.7;

Protein crystallography data

The structure of Structure of Human Dna Polymerase Beta N279A Complexed with 8OA in the Template Base Paired with Incoming Non-Hydrolyzable Gtp, PDB code: 6pkz was solved by M.C.Koag, S.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.64 / 2.74
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 54.609, 78.555, 54.776, 90.00, 106.83, 90.00
R / Rfree (%) 17.5 / 24.9

Other elements in 6pkz:

The structure of Structure of Human Dna Polymerase Beta N279A Complexed with 8OA in the Template Base Paired with Incoming Non-Hydrolyzable Gtp 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 N279A Complexed with 8OA in the Template Base Paired with Incoming Non-Hydrolyzable Gtp (pdb code 6pkz). 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 N279A Complexed with 8OA in the Template Base Paired with Incoming Non-Hydrolyzable Gtp, PDB code: 6pkz:

Magnesium binding site 1 out of 1 in 6pkz

Go back to Magnesium Binding Sites List in 6pkz
Magnesium binding site 1 out of 1 in the Structure of Human Dna Polymerase Beta N279A Complexed with 8OA in the Template Base Paired with Incoming Non-Hydrolyzable Gtp


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 N279A Complexed with 8OA in the Template Base Paired with Incoming Non-Hydrolyzable Gtp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg403

b:26.8
occ:1.00
 O2B A:XG4404 2.1 39.2 1.0
OD1 A:ASP190 2.3 26.4 1.0
O2G A:XG4404 2.6 36.2 1.0
OD1 A:ASP192 2.7 31.0 1.0
O2A A:XG4404 2.9 33.5 1.0
O A:HOH514 3.3 28.2 1.0
O A:ASP190 3.3 28.1 1.0
PG A:XG4404 3.4 38.7 1.0
PB A:XG4404 3.5 35.6 1.0
CG A:ASP190 3.5 24.2 1.0
O1G A:XG4404 3.6 39.2 1.0
C A:ASP190 3.8 21.0 1.0
CG A:ASP192 3.9 31.7 1.0
O3B A:XG4404 4.0 35.7 1.0
PA A:XG4404 4.0 38.0 1.0
N A:ASP190 4.0 24.2 1.0
N A:SER180 4.1 27.6 1.0
CA A:GLY179 4.1 29.2 1.0
OD2 A:ASP190 4.3 28.0 1.0
N3A A:XG4404 4.3 37.2 1.0
CA A:ASP190 4.3 19.5 1.0
OG A:SER180 4.4 32.2 1.0
CB A:ASP192 4.5 21.4 1.0
CB A:ASP190 4.5 24.1 1.0
N A:MET191 4.6 19.9 1.0
N A:ASP192 4.6 24.4 1.0
C A:GLY179 4.6 28.1 1.0
O5' A:XG4404 4.6 36.9 1.0
C5' A:XG4404 4.7 37.7 1.0
O1B A:XG4404 4.7 35.4 1.0
O A:HOH503 4.7 25.7 1.0
CA A:MET191 4.8 19.8 1.0
C A:MET191 4.8 22.1 1.0
OD2 A:ASP192 4.9 33.0 1.0
N A:GLY189 4.9 25.0 1.0
OG A:SER188 4.9 36.0 1.0
O3G A:XG4404 4.9 39.2 1.0

Reference:

M.C.Koag, S.Lee. Structure of Human Dna Polymerase Beta N279A Complexed with 8OA in the Template Base Paired with Incoming Non-Hydrolyzable Gtp To Be Published.
Page generated: Mon Jan 25 15:11:04 2021

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