Calcium in PDB 1zqj: Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of CACL2 (15 Millimolar) and MGCL2 (15 Millimolar)

The structure of Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of CACL2 (15 Millimolar) and MGCL2 (15 Millimolar), PDB code: 1zqj was solved by H.Pelletier, M.R.Sawaya, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 3.30
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	178.052, 57.629, 48.176, 90.00, 90.00, 90.00
R / Rfree (%)	20.6 / n/a

The binding sites of Calcium atom in the Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of CACL2 (15 Millimolar) and MGCL2 (15 Millimolar) (pdb code 1zqj). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of CACL2 (15 Millimolar) and MGCL2 (15 Millimolar), PDB code: 1zqj:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of CACL2 (15 Millimolar) and MGCL2 (15 Millimolar)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of CACL2 (15 Millimolar) and MGCL2 (15 Millimolar) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca341 b:18.7 occ:1.00 O A:THR101 1.8 16.4 1.0 O A:HOH601 2.7 0.0 1.0 O A:ILE106 2.7 21.9 1.0 OP1 P:DT6 2.8 38.1 1.0 C A:THR101 2.9 13.0 1.0 O A:VAL103 3.2 1.0 1.0 OP2 P:DT6 3.3 22.4 1.0 P P:DT6 3.5 22.8 1.0 C A:VAL103 3.6 5.5 1.0 N A:VAL103 3.7 6.1 1.0 CA A:THR101 3.8 15.4 1.0 C A:ARG102 3.8 4.8 1.0 CG2 A:THR101 3.9 20.9 1.0 N A:ARG102 3.9 5.0 1.0 C A:ILE106 3.9 19.0 1.0 CA A:ARG102 4.1 6.3 1.0 N A:SER104 4.1 10.2 1.0 CA A:VAL103 4.2 4.8 1.0 O A:ARG102 4.4 1.0 1.0 CB A:THR101 4.4 16.0 1.0 CA A:SER104 4.4 16.5 1.0 O5' P:DT6 4.5 11.6 1.0 N A:GLY105 4.5 1.0 1.0 N A:ILE106 4.5 18.0 1.0 O A:LEU100 4.6 20.3 1.0 CA A:ILE106 4.7 18.4 1.0 CB A:ILE106 4.9 12.1 1.0 O3' P:DA5 4.9 9.3 1.0 N A:GLY107 4.9 9.9 1.0 C A:SER104 5.0 10.8 1.0 N A:THR101 5.0 16.7 1.0

Calcium binding site 2 out of 2 in the Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of CACL2 (15 Millimolar) and MGCL2 (15 Millimolar)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of CACL2 (15 Millimolar) and MGCL2 (15 Millimolar) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca342 b:41.6 occ:1.00 O A:LEU62 2.2 45.8 1.0 C A:LEU62 3.2 43.2 1.0 O A:LYS60 3.6 6.3 1.0 O A:LYS61 3.6 41.5 1.0 CA A:PRO63 3.8 49.9 1.0 N A:PRO63 4.0 49.8 1.0 C A:LYS61 4.0 44.4 1.0 N A:GLY64 4.3 50.0 1.0 CA A:LEU62 4.3 33.7 1.0 N A:LEU62 4.3 37.2 1.0 C A:PRO63 4.4 49.1 1.0 N A:VAL65 4.4 32.0 1.0 O A:VAL65 4.5 23.1 1.0 C A:LYS60 4.7 15.9 1.0 C A:VAL65 4.8 21.2 1.0 CA A:LYS61 4.9 47.3 1.0 CD A:PRO63 4.9 49.3 1.0 CB A:PRO63 5.0 47.2 1.0

H.Pelletier, M.R.Sawaya. Characterization of the Metal Ion Binding Helix-Hairpin-Helix Motifs in Human Dna Polymerase Beta By X-Ray Structural Analysis. Biochemistry V. 35 12778 1996.
ISSN: ISSN 0006-2960
PubMed: 8841120
DOI: 10.1021/BI960790I