Magnesium in PDB 3jaa: Human Dna Polymerase Eta in Complex with Normal Dna and Inco Nucleotide (Nrm)

All present enzymatic activity of Human Dna Polymerase Eta in Complex with Normal Dna and Inco Nucleotide (Nrm):
2.7.7.7;

The binding sites of Magnesium atom in the Human Dna Polymerase Eta in Complex with Normal Dna and Inco Nucleotide (Nrm) (pdb code 3jaa). 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 Eta in Complex with Normal Dna and Inco Nucleotide (Nrm), PDB code: 3jaa:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Human Dna Polymerase Eta in Complex with Normal Dna and Inco Nucleotide (Nrm)


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 Eta in Complex with Normal Dna and Inco Nucleotide (Nrm) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg502 b:12.2 occ:1.00 O A:MET14 2.1 12.1 1.0 OD1 A:ASP115 2.1 11.2 1.0 OD1 A:ASP13 2.1 12.8 1.0 O1B A:DZ4501 2.1 10.2 1.0 O1G A:DZ4501 2.2 12.5 1.0 O1A A:DZ4501 2.3 11.0 1.0 CG A:ASP13 3.1 9.1 1.0 PB A:DZ4501 3.1 13.8 1.0 CG A:ASP115 3.1 11.9 1.0 C A:MET14 3.2 12.3 1.0 PG A:DZ4501 3.3 13.5 1.0 PA A:DZ4501 3.3 13.0 1.0 N3A A:DZ4501 3.4 11.8 1.0 OD2 A:ASP13 3.4 11.6 1.0 O3B A:DZ4501 3.6 12.3 1.0 MG A:MG503 3.6 13.9 1.0 OD2 A:ASP115 3.6 10.5 1.0 NZ A:LYS231 3.8 13.9 1.0 N A:MET14 3.8 11.4 1.0 O A:HOH650 3.9 19.2 1.0 O2G A:DZ4501 4.0 11.9 1.0 CA A:MET14 4.0 12.0 1.0 C5' A:DZ4501 4.0 11.3 1.0 O5' A:DZ4501 4.1 10.9 1.0 O2B A:DZ4501 4.2 11.8 1.0 C A:ASP13 4.2 11.6 1.0 N A:ASP15 4.3 11.8 1.0 CB A:ASP13 4.3 10.5 1.0 CB A:ASP115 4.4 12.1 1.0 O A:HOH622 4.4 9.4 1.0 O3G A:DZ4501 4.4 13.1 1.0 CA A:ASP15 4.5 14.0 1.0 N A:CYS16 4.5 13.8 1.0 O2A A:DZ4501 4.5 12.1 1.0 CB A:MET14 4.5 14.3 1.0 C A:ASP15 4.6 14.6 1.0 CE A:LYS231 4.6 13.7 1.0 O A:ASP13 4.7 11.6 1.0 N A:PHE17 4.7 10.6 1.0 CB A:PHE17 4.7 10.9 1.0 CA A:ASP13 4.8 9.8 1.0 O A:ASP115 4.9 12.4 1.0

Magnesium binding site 2 out of 2 in the Human Dna Polymerase Eta in Complex with Normal Dna and Inco Nucleotide (Nrm)


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 Eta in Complex with Normal Dna and Inco Nucleotide (Nrm) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg503 b:13.9 occ:1.00 OD2 A:ASP115 2.0 10.5 1.0 OD2 A:ASP13 2.0 11.6 1.0 OE2 A:GLU116 2.1 15.4 1.0 O A:HOH622 2.2 9.4 1.0 O3' P:DT9 2.2 14.6 1.0 O1A A:DZ4501 2.3 11.0 1.0 CG A:ASP115 3.0 11.9 1.0 CD A:GLU116 3.1 18.6 1.0 CG A:ASP13 3.1 9.1 1.0 C3' P:DT9 3.2 14.6 1.0 PA A:DZ4501 3.2 13.0 1.0 OD1 A:ASP115 3.4 11.2 1.0 OD1 A:ASP13 3.5 12.8 1.0 MG A:MG502 3.6 12.2 1.0 O5' A:DZ4501 3.6 10.9 1.0 O2A A:DZ4501 3.6 12.1 1.0 OG A:SER113 3.8 14.7 1.0 OE1 A:GLU116 3.8 20.8 1.0 C4' P:DT9 4.0 16.4 1.0 CG A:GLU116 4.1 16.8 1.0 C5' A:DZ4501 4.1 11.3 1.0 O A:HOH650 4.2 19.2 1.0 CB A:GLU116 4.2 14.3 1.0 O P:HOH105 4.3 16.8 1.0 O1 A:GOL506 4.3 30.7 1.0 CB A:ASP115 4.4 12.1 1.0 CB A:ASP13 4.4 10.5 1.0 C2' P:DT9 4.4 14.7 1.0 C1 A:GOL506 4.4 34.1 1.0 C A:ASP115 4.6 13.9 1.0 N3A A:DZ4501 4.6 11.8 1.0 O A:ASP115 4.6 12.4 1.0 O1G A:DZ4501 4.8 12.5 1.0 C5' P:DT9 4.8 15.8 1.0 CB A:SER113 4.8 13.9 1.0 N A:GLU116 4.9 13.8 1.0 O1B A:DZ4501 4.9 10.2 1.0 CA A:ASP115 4.9 12.8 1.0

W.C.Lau, Y.Li, Q.Zhang, M.S.Huen. Molecular Architecture of the Ub-Pcna/Pol Eta Complex Bound to Dna Sci Rep V. 5 15759 2015.
ISSN: ESSN 2045-2322
PubMed: 26503230
DOI: 10.1038/SREP15759