Manganese in PDB 8v7f: Human Dna Polymerase Eta-Dna-Arac-Ended Primer-Dampnpp Ternary Complex with MN2+

All present enzymatic activity of Human Dna Polymerase Eta-Dna-Arac-Ended Primer-Dampnpp Ternary Complex with MN2+:
2.7.7.7;

The structure of Human Dna Polymerase Eta-Dna-Arac-Ended Primer-Dampnpp Ternary Complex with MN2+, PDB code: 8v7f 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)	42.74 / 2.20
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	98.7, 98.7, 82.324, 90, 90, 120
R / Rfree (%)	20.3 / 25.2

The binding sites of Manganese atom in the Human Dna Polymerase Eta-Dna-Arac-Ended Primer-Dampnpp Ternary Complex with MN2+ (pdb code 8v7f). 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-Arac-Ended Primer-Dampnpp Ternary Complex with MN2+, PDB code: 8v7f:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Human Dna Polymerase Eta-Dna-Arac-Ended Primer-Dampnpp Ternary Complex with MN2+


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-Arac-Ended Primer-Dampnpp Ternary Complex with MN2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn501 b:27.2 occ:1.00 OD1 A:ASP13 2.1 22.7 1.0 O1A A:DZ4503 2.2 27.6 1.0 O A:MET14 2.2 24.9 1.0 O2G A:DZ4503 2.2 20.0 1.0 OD2 A:ASP115 2.3 27.2 1.0 O1B A:DZ4503 2.3 23.1 1.0 CG A:ASP13 3.1 26.3 1.0 PB A:DZ4503 3.2 25.3 1.0 CG A:ASP115 3.4 28.9 1.0 PG A:DZ4503 3.4 27.5 1.0 PA A:DZ4503 3.4 26.0 1.0 C A:MET14 3.4 25.8 1.0 OD2 A:ASP13 3.5 27.2 1.0 O3B A:DZ4503 3.5 28.8 1.0 MN A:MN502 3.6 28.1 1.0 N3A A:DZ4503 3.6 24.7 1.0 NZ A:LYS231 3.6 20.7 1.0 OD1 A:ASP115 3.8 26.2 1.0 N A:MET14 4.0 24.9 1.0 O3G A:DZ4503 4.0 25.3 1.0 C5' A:DZ4503 4.1 24.1 1.0 CA A:MET14 4.2 25.3 1.0 O5' A:DZ4503 4.2 24.4 1.0 C A:ASP13 4.3 27.0 1.0 CB A:ASP13 4.4 26.1 1.0 O A:HOH612 4.4 27.7 1.0 N A:ASP15 4.4 21.8 1.0 O2A A:DZ4503 4.6 26.4 1.0 O1G A:DZ4503 4.6 25.5 1.0 O2B A:DZ4503 4.6 27.6 1.0 CB A:ASP115 4.6 21.5 1.0 CE A:LYS231 4.6 29.9 1.0 CA A:ASP15 4.6 28.2 1.0 CB A:MET14 4.6 29.1 1.0 N A:CYS16 4.6 25.9 1.0 O A:ASP13 4.7 22.3 1.0 C A:ASP15 4.8 25.7 1.0 CA A:ASP13 4.8 25.9 1.0 N A:PHE17 4.8 23.6 1.0 CB A:PHE17 4.9 21.4 1.0

Manganese binding site 2 out of 2 in the Human Dna Polymerase Eta-Dna-Arac-Ended Primer-Dampnpp Ternary Complex with MN2+


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-Arac-Ended Primer-Dampnpp Ternary Complex with MN2+ within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn502 b:28.1 occ:1.00 OD2 A:ASP13 2.1 27.2 1.0 OE1 A:GLU116 2.2 26.4 1.0 OD1 A:ASP115 2.3 26.2 1.0 O A:HOH612 2.3 27.7 1.0 O1A A:DZ4503 2.3 27.6 1.0 O3' P:CAR9 2.6 25.0 0.6 CG A:ASP115 3.2 28.9 1.0 CD A:GLU116 3.2 34.6 1.0 CG A:ASP13 3.2 26.3 1.0 PA A:DZ4503 3.3 26.0 1.0 OD2 A:ASP115 3.4 27.2 1.0 OD1 A:ASP13 3.5 22.7 1.0 C3' P:CAR9 3.5 35.1 0.6 MN A:MN501 3.6 27.2 1.0 O2A A:DZ4503 3.6 26.4 1.0 O5' A:DZ4503 3.7 24.4 1.0 OE2 A:GLU116 3.8 34.1 1.0 OG A:SER113 3.8 27.7 1.0 O3' P:CAR9 4.0 35.7 0.4 C5' A:DZ4503 4.0 24.1 1.0 NZ A:LYS224 4.2 36.3 1.0 CG A:GLU116 4.2 30.9 1.0 CB A:GLU116 4.2 25.8 1.0 CB A:ASP13 4.5 26.1 1.0 C4' P:CAR9 4.5 31.4 0.6 CB A:ASP115 4.6 21.5 1.0 C2' P:CAR9 4.7 35.1 0.6 C A:ASP115 4.7 24.4 1.0 C5' P:CAR9 4.7 32.7 0.6 O A:ASP115 4.8 28.8 1.0 O2G A:DZ4503 4.8 20.0 1.0 N3A A:DZ4503 4.8 24.7 1.0 CB A:SER113 4.9 31.6 1.0 C3' P:CAR9 4.9 35.0 0.4 O1B A:DZ4503 4.9 23.1 1.0 N A:GLU116 5.0 25.8 1.0

C.Chang, Y.Gao. Human Dna Polymerase Eta-Dna-Arac-Ended Primer-Dampnpp Ternary Complex with MN2+ To Be Published.