Magnesium in PDB 4o3q: Crystal Structure of Human Polymerase Eta Inserting Dgtp Opposite An 8-Oxog Containing Dna Template

All present enzymatic activity of Crystal Structure of Human Polymerase Eta Inserting Dgtp Opposite An 8-Oxog Containing Dna Template:
2.7.7.7;

The structure of Crystal Structure of Human Polymerase Eta Inserting Dgtp Opposite An 8-Oxog Containing Dna Template, PDB code: 4o3q was solved by A.Patra, M.Egli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.59 / 1.72
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	98.365, 98.365, 81.699, 90.00, 90.00, 120.00
R / Rfree (%)	18.5 / 23.2

The binding sites of Magnesium atom in the Crystal Structure of Human Polymerase Eta Inserting Dgtp Opposite An 8-Oxog Containing Dna Template (pdb code 4o3q). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Human Polymerase Eta Inserting Dgtp Opposite An 8-Oxog Containing Dna Template, PDB code: 4o3q:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of Human Polymerase Eta Inserting Dgtp Opposite An 8-Oxog Containing Dna Template


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Human Polymerase Eta Inserting Dgtp Opposite An 8-Oxog Containing Dna Template within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:14.7 occ:1.00 O2G A:XG4501 2.0 12.9 1.0 OD2 A:ASP13 2.0 17.0 1.0 O2B A:XG4501 2.1 13.8 1.0 OD2 A:ASP115 2.1 15.4 1.0 O A:MET14 2.1 15.0 1.0 O1A A:XG4501 2.2 15.7 1.0 CG A:ASP13 3.0 13.9 1.0 PB A:XG4501 3.1 14.5 1.0 CG A:ASP115 3.2 16.0 1.0 PG A:XG4501 3.3 14.3 1.0 C A:MET14 3.3 14.1 1.0 PA A:XG4501 3.3 15.7 1.0 OD1 A:ASP13 3.4 16.9 1.0 O3B A:XG4501 3.5 13.9 1.0 MG A:MG503 3.5 14.9 1.0 N3A A:XG4501 3.5 19.7 1.0 OD1 A:ASP115 3.5 13.9 1.0 NZ A:LYS231 3.8 11.4 1.0 N A:MET14 3.8 11.6 1.0 O A:HOH603 3.8 18.1 1.0 O1G A:XG4501 3.9 13.6 1.0 C5' A:XG4501 4.0 17.1 1.0 CA A:MET14 4.1 12.6 1.0 C A:ASP13 4.2 11.6 1.0 O5' A:XG4501 4.2 15.7 1.0 CB A:ASP13 4.3 11.7 1.0 N A:ASP15 4.3 9.4 1.0 O A:HOH602 4.4 17.4 1.0 O3G A:XG4501 4.5 15.1 1.0 CB A:ASP115 4.5 10.6 1.0 O1B A:XG4501 4.5 12.3 1.0 CE A:LYS231 4.5 18.9 1.0 N A:CYS16 4.5 12.3 1.0 O2A A:XG4501 4.5 17.2 1.0 CA A:ASP15 4.5 11.9 1.0 CB A:MET14 4.5 15.0 1.0 O A:ASP13 4.6 11.0 1.0 C A:ASP15 4.6 13.3 1.0 N A:PHE17 4.7 10.5 1.0 CA A:ASP13 4.7 13.7 1.0 CB A:PHE17 4.8 11.6 1.0 O A:ASP115 4.9 17.1 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of Human Polymerase Eta Inserting Dgtp Opposite An 8-Oxog Containing Dna Template


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Human Polymerase Eta Inserting Dgtp Opposite An 8-Oxog Containing Dna Template within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg503 b:14.9 occ:1.00 OD1 A:ASP13 2.0 16.9 1.0 OD1 A:ASP115 2.1 13.9 1.0 O A:HOH602 2.1 17.4 1.0 OE2 A:GLU116 2.1 14.6 1.0 O1A A:XG4501 2.1 15.7 1.0 O A:HOH601 2.2 18.0 1.0 CG A:ASP115 3.1 16.0 1.0 CG A:ASP13 3.1 13.9 1.0 CD A:GLU116 3.2 19.4 1.0 PA A:XG4501 3.2 15.7 1.0 OD2 A:ASP115 3.4 15.4 1.0 OD2 A:ASP13 3.5 17.0 1.0 MG A:MG502 3.5 14.7 1.0 O2A A:XG4501 3.6 17.2 1.0 OG A:SER113 3.7 18.5 1.0 O5' A:XG4501 3.7 15.7 1.0 OE1 A:GLU116 3.9 23.9 1.0 C5' A:XG4501 4.0 17.1 1.0 O A:HOH603 4.0 18.1 1.0 CG A:GLU116 4.2 11.2 1.0 CB A:GLU116 4.2 15.7 1.0 O A:HOH932 4.3 32.6 1.0 O A:HOH970 4.3 37.5 1.0 NZ A:LYS224 4.3 18.1 1.0 CB A:ASP13 4.4 11.7 1.0 CB A:ASP115 4.5 10.6 1.0 C A:ASP115 4.5 17.8 1.0 O2G A:XG4501 4.6 12.9 1.0 O A:ASP115 4.6 17.1 1.0 CB A:SER113 4.7 22.7 1.0 N A:GLU116 4.7 12.5 1.0 O A:HOH667 4.7 22.6 1.0 N3A A:XG4501 4.8 19.7 1.0 O2B A:XG4501 4.8 13.8 1.0 CA A:ASP115 4.9 13.4 1.0

A.Patra, L.D.Nagy, Q.Zhang, Y.Su, L.Muller, F.P.Guengerich, M.Egli. Kinetics, Structure, and Mechanism of 8-Oxo-7,8-Dihydro-2'-Deoxyguanosine Bypass By Human Dna Polymerase Eta J.Biol.Chem. V. 289 16867 2014.
ISSN: ISSN 0021-9258
PubMed: 24759104
DOI: 10.1074/JBC.M114.551820