Calcium in PDB 5dqi: Crystal Structure of Human Dna Polymerase Eta Extending An O4- Ethylthymidine : Da Pair By Inserting Dctp Opposite Dg

All present enzymatic activity of Crystal Structure of Human Dna Polymerase Eta Extending An O4- Ethylthymidine : Da Pair By Inserting Dctp Opposite Dg:
2.7.7.7;

The structure of Crystal Structure of Human Dna Polymerase Eta Extending An O4- Ethylthymidine : Da Pair By Inserting Dctp Opposite Dg, PDB code: 5dqi was solved by A.Patra, D.K.Oflaherty, M.Egli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.30
Space group	P 61
Cell size a, b, c (Å), α, β, γ (°)	98.643, 98.643, 81.537, 90.00, 90.00, 120.00
R / Rfree (%)	20.4 / 26.6

The binding sites of Calcium atom in the Crystal Structure of Human Dna Polymerase Eta Extending An O4- Ethylthymidine : Da Pair By Inserting Dctp Opposite Dg (pdb code 5dqi). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of Human Dna Polymerase Eta Extending An O4- Ethylthymidine : Da Pair By Inserting Dctp Opposite Dg, PDB code: 5dqi:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of Human Dna Polymerase Eta Extending An O4- Ethylthymidine : Da Pair By Inserting Dctp Opposite Dg


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Human Dna Polymerase Eta Extending An O4- Ethylthymidine : Da Pair By Inserting Dctp Opposite Dg within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca502 b:32.8 occ:1.00 OD2 A:ASP115 2.2 46.5 1.0 O2G A:DCP501 2.2 37.5 1.0 O2A A:DCP501 2.3 33.6 1.0 O2B A:DCP501 2.3 37.8 1.0 O A:MET14 2.4 35.5 1.0 OD2 A:ASP13 2.5 41.5 1.0 OD1 A:ASP13 2.5 41.6 1.0 CG A:ASP13 2.9 41.4 1.0 PB A:DCP501 3.3 39.7 1.0 CG A:ASP115 3.3 48.0 1.0 PG A:DCP501 3.4 40.3 1.0 CA A:CA503 3.4 50.6 1.0 PA A:DCP501 3.5 40.3 1.0 O3A A:DCP501 3.6 37.0 1.0 C A:MET14 3.6 35.7 1.0 O3B A:DCP501 3.7 37.0 1.0 OD1 A:ASP115 3.8 62.3 1.0 O A:HOH627 3.8 37.4 1.0 O3G A:DCP501 3.9 32.2 1.0 N A:MET14 4.0 38.5 1.0 C5' A:DCP501 4.2 42.3 1.0 NZ A:LYS231 4.3 53.8 1.0 C A:ASP13 4.3 40.6 1.0 CB A:ASP13 4.3 37.2 1.0 CA A:MET14 4.3 34.6 1.0 O5' A:DCP501 4.4 44.0 1.0 O A:HOH639 4.4 35.6 1.0 N A:CYS16 4.5 40.6 1.0 CB A:ASP115 4.5 48.3 1.0 CE A:LYS231 4.5 53.2 1.0 N A:ASP15 4.6 34.0 1.0 O1G A:DCP501 4.6 35.7 1.0 O A:ASP13 4.7 44.0 1.0 O1B A:DCP501 4.7 35.5 1.0 CA A:ASP15 4.7 37.3 1.0 O1A A:DCP501 4.8 34.2 1.0 CA A:ASP13 4.8 37.2 1.0 C A:ASP15 4.8 42.1 1.0 N A:PHE17 4.9 38.3 1.0 CB A:MET14 4.9 38.9 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of Human Dna Polymerase Eta Extending An O4- Ethylthymidine : Da Pair By Inserting Dctp Opposite Dg


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Human Dna Polymerase Eta Extending An O4- Ethylthymidine : Da Pair By Inserting Dctp Opposite Dg within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca503 b:50.6 occ:1.00 OD1 A:ASP13 2.2 41.6 1.0 OE2 A:GLU116 2.2 38.1 1.0 O2A A:DCP501 2.3 33.6 1.0 O A:HOH639 2.4 35.6 1.0 OP2 P:DC9 2.4 67.8 1.0 OD2 A:ASP115 2.8 46.5 1.0 CG A:ASP13 3.4 41.4 1.0 CD A:GLU116 3.4 38.3 1.0 CA A:CA502 3.4 32.8 1.0 PA A:DCP501 3.5 40.3 1.0 P P:DC9 3.5 53.8 1.0 CG A:ASP115 3.5 48.0 1.0 CB A:ASP115 3.6 48.3 1.0 O3' P:DA8 3.6 66.0 1.0 OG A:SER113 4.0 31.8 1.0 O5' A:DCP501 4.0 44.0 1.0 O A:HOH627 4.0 37.4 1.0 O1A A:DCP501 4.0 34.2 1.0 CG A:GLU116 4.0 37.1 1.0 OD2 A:ASP13 4.1 41.5 1.0 C5' A:DCP501 4.1 42.3 1.0 CB A:GLU116 4.2 35.5 1.0 OP1 P:DC9 4.3 54.4 1.0 CB A:ASP13 4.4 37.2 1.0 NZ A:LYS224 4.4 43.6 1.0 OE1 A:GLU116 4.4 36.9 1.0 O2G A:DCP501 4.6 37.5 1.0 C A:ASP115 4.7 38.8 1.0 C3' P:DA8 4.7 76.4 1.0 OD1 A:ASP115 4.7 62.3 1.0 O3A A:DCP501 4.8 37.0 1.0 CA A:ASP115 4.8 43.0 1.0 N A:GLU116 4.8 39.6 1.0 O5' P:DC9 4.8 65.6 1.0 O A:ASP115 4.9 34.1 1.0 O2B A:DCP501 4.9 37.8 1.0

D.K.O'flaherty, A.Patra, Y.Su, F.P.Guengerich, M.Egli, C.J.Wilds. Lesion Orientation OFO4-Alkylthymidine Influences Replication By Human Dna Polymeraseeta. Chem Sci V. 7 4896 2016.
ISSN: ISSN 2041-6520
PubMed: 27574558
DOI: 10.1039/C6SC00666C