Calcium in PDB 5ewe: Ternary Complex of Human Dna Polymerase Eta Inserting Rctp Opposite Template G

All present enzymatic activity of Ternary Complex of Human Dna Polymerase Eta Inserting Rctp Opposite Template G:
2.7.7.7;

The structure of Ternary Complex of Human Dna Polymerase Eta Inserting Rctp Opposite Template G, PDB code: 5ewe was solved by Y.Su, M.Egli, F.P.Guengerich, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.99 / 1.66
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	99.282, 99.282, 81.895, 90.00, 90.00, 120.00
R / Rfree (%)	17.1 / 20.7

The binding sites of Calcium atom in the Ternary Complex of Human Dna Polymerase Eta Inserting Rctp Opposite Template G (pdb code 5ewe). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Ternary Complex of Human Dna Polymerase Eta Inserting Rctp Opposite Template G, PDB code: 5ewe:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Ternary Complex of Human Dna Polymerase Eta Inserting Rctp Opposite Template G


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Ternary Complex of Human Dna Polymerase Eta Inserting Rctp Opposite Template G within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca502 b:11.8 occ:1.00 OD1 A:ASP13 2.3 20.4 1.0 O1B A:CTP501 2.3 11.4 1.0 O A:MET14 2.3 13.3 1.0 OD2 A:ASP115 2.3 14.2 1.0 O1G A:CTP501 2.3 13.5 1.0 O1A A:CTP501 2.4 20.2 1.0 CA A:CA503 3.4 22.9 0.2 PB A:CTP501 3.4 12.7 1.0 CG A:ASP13 3.4 24.8 1.0 CG A:ASP115 3.4 16.8 1.0 C A:MET14 3.5 12.3 1.0 PG A:CTP501 3.6 13.2 1.0 PA A:CTP501 3.6 16.2 1.0 O3A A:CTP501 3.8 17.2 1.0 O3B A:CTP501 3.8 13.7 1.0 O A:HOH638 3.9 32.8 1.0 OD1 A:ASP115 3.9 18.7 1.0 OD2 A:ASP13 3.9 35.1 1.0 N A:MET14 4.0 12.6 1.0 NZ A:LYS231 4.1 18.8 1.0 C5' A:CTP501 4.2 17.5 1.0 CA A:MET14 4.3 11.3 1.0 O2G A:CTP501 4.3 14.3 1.0 C A:ASP13 4.3 13.1 1.0 O5' A:CTP501 4.4 18.6 1.0 N A:ASP15 4.5 10.2 1.0 CB A:ASP13 4.6 14.0 1.0 N A:CYS16 4.6 11.4 1.0 CA A:ASP15 4.7 10.5 1.0 CB A:ASP115 4.7 14.6 1.0 CB A:MET14 4.7 12.0 1.0 O2B A:CTP501 4.8 13.8 1.0 O A:ASP13 4.8 12.5 1.0 O3G A:CTP501 4.8 14.2 1.0 O2A A:CTP501 4.8 18.5 1.0 C A:ASP15 4.8 12.0 1.0 CA A:ASP13 4.8 14.8 1.0 CE A:LYS231 4.8 26.9 1.0 N A:PHE17 4.9 9.5 1.0 O A:ASP115 4.9 13.8 1.0 CB A:PHE17 4.9 10.4 1.0 O A:HOH855 5.0 30.6 1.0

Calcium binding site 2 out of 2 in the Ternary Complex of Human Dna Polymerase Eta Inserting Rctp Opposite Template G


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Ternary Complex of Human Dna Polymerase Eta Inserting Rctp Opposite Template G within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca503 b:22.9 occ:0.25 O3' P:DT8 2.3 24.2 0.7 O3' P:DT8 2.3 24.4 0.3 OE2 A:GLU116 2.5 32.7 1.0 O1A A:CTP501 2.5 20.2 1.0 OD1 A:ASP115 2.6 18.7 1.0 C3' P:DT8 2.8 24.1 0.3 C3' P:DT8 2.9 24.6 0.7 CG A:GLU116 2.9 24.1 1.0 CD A:GLU116 3.0 24.0 1.0 OD1 A:ASP13 3.1 20.4 1.0 O A:HOH638 3.2 32.8 1.0 OD2 A:ASP13 3.2 35.1 1.0 CG A:ASP115 3.3 16.8 1.0 CA A:CA502 3.4 11.8 1.0 OD2 A:ASP115 3.4 14.2 1.0 CG A:ASP13 3.4 24.8 1.0 PA A:CTP501 3.7 16.2 1.0 C4' P:DT8 3.8 20.5 0.3 C2' P:DT8 3.9 22.4 0.7 C2' P:DT8 3.9 22.3 0.3 O5' A:CTP501 4.0 18.6 1.0 OG A:SER113 4.0 19.7 1.0 C4' P:DT8 4.1 20.4 0.7 C5' A:CTP501 4.1 17.5 1.0 OE1 A:GLU116 4.2 25.8 1.0 CB A:GLU116 4.2 17.9 1.0 O2A A:CTP501 4.4 18.5 1.0 O A:ASP115 4.5 13.8 1.0 C5' P:DT8 4.6 23.4 0.3 C A:ASP115 4.6 16.1 1.0 CB A:ASP13 4.7 14.0 1.0 CB A:ASP115 4.7 14.6 1.0 N A:GLU116 4.8 14.0 1.0 O1G A:CTP501 4.8 13.5 1.0 C5' P:DT8 4.8 24.7 0.7 O1B A:CTP501 4.9 11.4 1.0 CA A:GLU116 5.0 14.1 1.0 C1' P:DT8 5.0 19.3 0.3 O4' P:DT8 5.0 20.7 0.3

Y.Su, M.Egli, F.P.Guengerich. Mechanism of Ribonucleotide Incorporation By Human Dna Polymerase Eta. J.Biol.Chem. V. 291 3747 2016.
ISSN: ESSN 1083-351X
PubMed: 26740629
DOI: 10.1074/JBC.M115.706226