Magnesium in PDB 3q8s: Human Dna Polymerase Iota Incorporating Dttp Opposite 8-Oxo-Guanine

All present enzymatic activity of Human Dna Polymerase Iota Incorporating Dttp Opposite 8-Oxo-Guanine:
2.7.7.7;

The structure of Human Dna Polymerase Iota Incorporating Dttp Opposite 8-Oxo-Guanine, PDB code: 3q8s was solved by K.N.Kirouac, H.Ling, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.48 / 2.09
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	97.494, 97.494, 201.899, 90.00, 90.00, 120.00
R / Rfree (%)	22.7 / 26.6

The binding sites of Magnesium atom in the Human Dna Polymerase Iota Incorporating Dttp Opposite 8-Oxo-Guanine (pdb code 3q8s). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Human Dna Polymerase Iota Incorporating Dttp Opposite 8-Oxo-Guanine, PDB code: 3q8s:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Human Dna Polymerase Iota Incorporating Dttp Opposite 8-Oxo-Guanine


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human Dna Polymerase Iota Incorporating Dttp Opposite 8-Oxo-Guanine within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg421 b:25.0 occ:1.00 O B:LYS237 2.4 40.8 1.0 OP1 P:DC872 2.5 31.7 1.0 O B:ILE242 2.5 34.3 1.0 O B:HOH437 2.6 42.5 1.0 O P:HOH217 2.7 44.8 1.0 O B:ILE239 2.8 28.4 1.0 C B:ILE242 3.5 36.9 1.0 C B:LYS237 3.5 41.7 1.0 C B:ILE239 3.6 33.6 1.0 P P:DC872 3.6 28.4 1.0 O P:HOH211 3.8 53.3 1.0 N B:ILE242 3.9 36.4 1.0 OP2 P:DC872 3.9 28.4 1.0 CA B:PRO240 4.0 41.1 1.0 N B:PRO240 4.1 39.0 1.0 N B:GLY241 4.1 32.1 1.0 CA B:ILE242 4.2 35.4 1.0 CA B:LYS237 4.2 43.1 1.0 N B:ILE239 4.2 27.2 1.0 C B:GLU238 4.3 34.8 1.0 N B:GLY243 4.3 41.1 1.0 C B:PRO240 4.5 38.5 1.0 CA B:GLY243 4.5 39.6 1.0 N B:GLU238 4.5 41.4 1.0 CA B:ILE239 4.6 30.8 1.0 CA B:GLU238 4.7 38.2 1.0 O5' P:DC872 4.7 29.0 1.0 CB B:ILE242 4.7 36.8 1.0 O3' P:DC871 4.7 28.8 1.0 O B:GLU238 4.7 38.2 1.0 CB B:LYS237 4.7 52.2 1.0 C B:GLY241 4.9 41.8 1.0

Magnesium binding site 2 out of 2 in the Human Dna Polymerase Iota Incorporating Dttp Opposite 8-Oxo-Guanine


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human Dna Polymerase Iota Incorporating Dttp Opposite 8-Oxo-Guanine within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg422 b:24.5 occ:1.00 O B:LEU35 2.2 32.0 1.0 O1B B:TTP423 2.2 27.3 0.8 O2G B:TTP423 2.2 25.5 0.8 OD1 B:ASP34 2.2 34.3 1.0 OD1 B:ASP126 2.3 37.7 1.0 O2A B:TTP423 2.8 32.9 0.8 O B:HOH602 2.9 39.9 1.0 CG B:ASP126 3.3 35.5 1.0 PB B:TTP423 3.3 26.4 0.8 C B:LEU35 3.4 28.0 1.0 CG B:ASP34 3.4 31.0 1.0 PG B:TTP423 3.4 30.8 0.8 OD2 B:ASP126 3.7 35.0 1.0 N B:LEU35 3.7 27.2 1.0 O3A B:TTP423 3.7 33.9 0.8 O3B B:TTP423 3.8 31.2 0.8 PA B:TTP423 3.8 35.0 0.8 OD2 B:ASP34 4.0 36.9 1.0 O B:HOH440 4.0 42.0 1.0 C B:ASP34 4.1 30.4 1.0 O1G B:TTP423 4.1 29.4 0.8 CA B:LEU35 4.1 30.1 1.0 N B:ASP36 4.4 27.5 1.0 C5' B:TTP423 4.5 34.1 0.8 O B:ASP34 4.5 29.5 1.0 CB B:ASP34 4.5 30.9 1.0 CA B:ASP36 4.6 34.0 1.0 N B:CYS37 4.6 27.7 1.0 CB B:ASP126 4.6 30.4 1.0 CA B:ASP34 4.6 24.8 1.0 O2B B:TTP423 4.6 32.3 0.8 O3G B:TTP423 4.6 33.1 0.8 O5' B:TTP423 4.7 37.7 0.8 CB B:LEU35 4.7 27.0 1.0 N B:PHE38 4.8 30.5 1.0 O B:ASP126 4.9 29.7 1.0 O B:HOH464 4.9 40.7 1.0 C B:ASP36 4.9 31.8 1.0 O1A B:TTP423 5.0 32.9 0.8

K.N.Kirouac, H.Ling. Human Dna Polymerase Iota Incorporating Dttp Opposite 8-Oxo-Guanine To Be Published.