Manganese in PDB 7u73: Human Dna Polymerase Eta-Dna Ternary Mismatch Complex:Reaction with 0.5 Mm MN2+ For 1800S

All present enzymatic activity of Human Dna Polymerase Eta-Dna Ternary Mismatch Complex:Reaction with 0.5 Mm MN2+ For 1800S:
2.7.7.7;

The structure of Human Dna Polymerase Eta-Dna Ternary Mismatch Complex:Reaction with 0.5 Mm MN2+ For 1800S, PDB code: 7u73 was solved by C.Chang, Y.Gao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.50 / 1.56
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	98.152, 98.152, 82.103, 90, 90, 120
R / Rfree (%)	18 / 21.3

The binding sites of Manganese atom in the Human Dna Polymerase Eta-Dna Ternary Mismatch Complex:Reaction with 0.5 Mm MN2+ For 1800S (pdb code 7u73). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Human Dna Polymerase Eta-Dna Ternary Mismatch Complex:Reaction with 0.5 Mm MN2+ For 1800S, PDB code: 7u73:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Human Dna Polymerase Eta-Dna Ternary Mismatch Complex:Reaction with 0.5 Mm MN2+ For 1800S


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Human Dna Polymerase Eta-Dna Ternary Mismatch Complex:Reaction with 0.5 Mm MN2+ For 1800S within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn501 b:21.6 occ:0.80 OD2 A:ASP13 2.0 24.2 0.1 OE1 A:GLU116 2.1 26.2 0.8 OD1 A:ASP115 2.1 24.6 1.0 O1A A:DGT503 2.2 21.8 0.8 OD2 A:ASP13 2.2 26.0 0.8 O A:HOH757 2.2 19.9 0.1 OE1 A:GLU116 2.2 27.0 0.1 O A:HOH722 2.2 26.0 0.8 O3' P:DT8 2.4 25.5 0.5 CD A:GLU116 3.1 29.4 0.1 CG A:ASP13 3.1 24.2 0.1 CG A:ASP115 3.1 21.5 1.0 CG A:ASP13 3.1 24.4 0.8 CD A:GLU116 3.1 29.7 0.8 PA A:DGT503 3.4 24.4 0.8 OD2 A:ASP115 3.4 23.6 1.0 OD1 A:ASP13 3.5 23.8 0.8 C3' P:DT8 3.6 25.1 0.5 MN A:MN502 3.6 18.2 0.8 OD1 A:ASP13 3.7 24.0 0.1 OE2 A:GLU116 3.7 30.1 0.1 OG A:SER113 3.7 27.4 1.0 O2A A:DGT503 3.8 26.2 0.8 OE2 A:GLU116 3.9 31.1 0.8 CB A:GLU116 4.0 23.1 0.1 O5' A:DGT503 4.0 23.4 0.8 CG A:GLU116 4.0 22.7 0.1 CB A:GLU116 4.0 23.1 0.8 O A:HOH738 4.0 33.5 0.8 CG A:GLU116 4.1 22.5 0.8 C5' A:DGT503 4.2 20.0 0.8 NZ A:LYS224 4.2 29.1 0.8 CB A:ASP13 4.3 20.6 0.1 C4' P:DT8 4.4 24.9 0.5 O P:HOH113 4.4 28.7 0.7 CB A:ASP13 4.4 19.8 0.8 CB A:ASP115 4.5 20.8 1.0 C A:ASP115 4.6 20.9 1.0 O A:ASP115 4.7 22.9 1.0 O3A A:DGT503 4.7 23.8 0.8 O2G A:DGT503 4.7 21.8 0.8 C2' P:DT8 4.7 25.7 0.5 C5' P:DT8 4.8 30.6 0.1 N A:GLU116 4.8 18.1 1.0 C5' P:DT8 4.8 29.3 0.3 CB A:SER113 4.8 23.7 1.0 O5' P:DT8 4.8 30.6 0.3 O2B A:DGT503 4.9 17.9 0.8 CA A:ASP115 4.9 19.6 1.0 CA A:GLU116 5.0 22.8 0.1

Manganese binding site 2 out of 2 in the Human Dna Polymerase Eta-Dna Ternary Mismatch Complex:Reaction with 0.5 Mm MN2+ For 1800S


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Human Dna Polymerase Eta-Dna Ternary Mismatch Complex:Reaction with 0.5 Mm MN2+ For 1800S within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn502 b:18.2 occ:0.85 OD1 A:ASP13 2.0 23.8 0.8 O2G A:DGT503 2.1 21.8 0.8 OD2 A:ASP115 2.1 23.6 1.0 O2B A:DGT503 2.1 17.9 0.8 O A:MET14 2.1 21.4 1.0 OD1 A:ASP13 2.2 24.0 0.1 O1A A:DGT503 2.3 21.8 0.8 CG A:ASP13 2.9 24.2 0.1 CG A:ASP13 3.0 24.4 0.8 OD2 A:ASP13 3.1 24.2 0.1 PB A:DGT503 3.1 21.0 0.8 CG A:ASP115 3.2 21.5 1.0 C A:MET14 3.3 18.4 1.0 PG A:DGT503 3.4 21.6 0.8 O3A A:DGT503 3.4 23.8 0.8 PA A:DGT503 3.4 24.4 0.8 OD2 A:ASP13 3.5 26.0 0.8 O3B A:DGT503 3.6 19.4 0.8 OD1 A:ASP115 3.6 24.6 1.0 MN A:MN501 3.6 21.6 0.8 N A:MET14 3.9 18.3 1.0 NZ A:LYS231 3.9 23.1 1.0 O A:HOH738 3.9 33.5 0.8 O1G A:DGT503 4.0 20.6 0.8 CA A:MET14 4.1 17.1 1.0 C5' A:DGT503 4.2 20.0 0.8 C A:ASP13 4.2 18.2 1.0 O5' A:DGT503 4.2 23.4 0.8 CB A:ASP13 4.3 19.8 0.8 CB A:ASP13 4.3 20.6 0.1 N A:ASP15 4.3 15.7 1.0 CB A:ASP115 4.4 20.8 1.0 N A:CYS16 4.5 19.1 1.0 O A:HOH722 4.5 26.0 0.8 CA A:ASP15 4.5 15.2 1.0 O A:ASP13 4.5 19.6 1.0 O1B A:DGT503 4.5 19.0 0.8 C A:ASP15 4.6 18.4 1.0 O3G A:DGT503 4.6 22.3 0.8 O2A A:DGT503 4.6 26.2 0.8 CB A:MET14 4.7 19.8 1.0 N A:PHE17 4.7 18.0 1.0 CA A:ASP13 4.8 20.4 0.1 CA A:ASP13 4.8 20.3 0.8 CE A:LYS231 4.8 30.2 1.0 O A:ASP115 4.9 22.9 1.0 CB A:PHE17 4.9 16.3 1.0 O A:HOH757 4.9 19.9 0.1

C.Chang, C.Lee Luo, Y.Gao. In Crystallo Observation of Three Metal Ion Promoted Dna Polymerase Misincorporation. Nat Commun V. 13 2346 2022.
ISSN: ESSN 2041-1723
PubMed: 35487947
DOI: 10.1038/S41467-022-30005-3