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Calcium in PDB 4ecq: Human Dna Polymerase Eta- Dna Ternary Complex: at Crystal at PH6.8(K+ Mes) with 1 CA2+ Ion

Enzymatic activity of Human Dna Polymerase Eta- Dna Ternary Complex: at Crystal at PH6.8(K+ Mes) with 1 CA2+ Ion

All present enzymatic activity of Human Dna Polymerase Eta- Dna Ternary Complex: at Crystal at PH6.8(K+ Mes) with 1 CA2+ Ion:
2.7.7.7;

Protein crystallography data

The structure of Human Dna Polymerase Eta- Dna Ternary Complex: at Crystal at PH6.8(K+ Mes) with 1 CA2+ Ion, PDB code: 4ecq was solved by T.Nakamura, Y.Zhao, W.Yang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.01 / 1.50
Space group P 61
Cell size a, b, c (Å), α, β, γ (°) 98.786, 98.786, 82.431, 90.00, 90.00, 120.00
R / Rfree (%) 17.2 / 20.1

Calcium Binding Sites:

The binding sites of Calcium atom in the Human Dna Polymerase Eta- Dna Ternary Complex: at Crystal at PH6.8(K+ Mes) with 1 CA2+ Ion (pdb code 4ecq). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Human Dna Polymerase Eta- Dna Ternary Complex: at Crystal at PH6.8(K+ Mes) with 1 CA2+ Ion, PDB code: 4ecq:

Calcium binding site 1 out of 1 in 4ecq

Go back to Calcium Binding Sites List in 4ecq
Calcium binding site 1 out of 1 in the Human Dna Polymerase Eta- Dna Ternary Complex: at Crystal at PH6.8(K+ Mes) with 1 CA2+ Ion


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Human Dna Polymerase Eta- Dna Ternary Complex: at Crystal at PH6.8(K+ Mes) with 1 CA2+ Ion within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca501

b:14.6
occ:1.00
 O A:MET14 2.3 13.3 1.0
O3G P:DTP502 2.3 14.9 1.0
OD1 A:ASP115 2.3 13.8 1.0
O1B P:DTP502 2.3 13.0 1.0
OD2 A:ASP13 2.3 18.3 1.0
O2A P:DTP502 2.4 13.1 1.0
CG A:ASP115 3.3 13.9 1.0
PB P:DTP502 3.4 12.9 1.0
CG A:ASP13 3.4 25.4 1.0
C A:MET14 3.5 11.2 1.0
PA P:DTP502 3.5 14.1 1.0
PG P:DTP502 3.6 12.6 1.0
OD2 A:ASP115 3.7 17.2 1.0
O3A P:DTP502 3.7 12.7 1.0
O3B P:DTP502 3.9 12.8 1.0
O A:HOH975 3.9 30.5 1.0
N A:MET14 3.9 9.1 1.0
NZ A:LYS231 4.0 19.1 1.0
OD1 A:ASP13 4.0 29.2 1.0
C5' P:DTP502 4.1 12.8 1.0
O2G P:DTP502 4.2 13.8 1.0
C A:ASP13 4.2 11.1 1.0
CA A:MET14 4.2 5.6 1.0
O5' P:DTP502 4.3 13.2 1.0
N A:ASP15 4.5 10.2 1.0
CB A:ASP13 4.5 14.0 1.0
N A:CYS16 4.6 10.9 1.0
O A:ASP13 4.6 13.8 1.0
CA A:ASP15 4.6 7.6 1.0
CB A:ASP115 4.6 11.7 1.0
CA A:ASP13 4.7 8.9 1.0
CB A:MET14 4.7 12.0 1.0
C A:ASP15 4.7 10.5 1.0
O2B P:DTP502 4.8 13.1 1.0
CE A:LYS231 4.8 30.9 1.0
O1G P:DTP502 4.8 14.4 1.0
N A:PHE17 4.8 10.6 1.0
O1A P:DTP502 4.8 16.2 1.0
O A:ASP115 4.9 15.4 1.0
CB A:PHE17 4.9 9.3 1.0

Reference:

T.Nakamura, Y.Zhao, Y.Yamagata, Y.J.Hua, W.Yang. Watching Dna Polymerase Eta Make A Phosphodiester Bond Nature V. 487 196 2012.
ISSN: ISSN 0028-0836
PubMed: 22785315
DOI: 10.1038/NATURE11181
Page generated: Tue Jul 8 19:44:15 2025

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