Sodium in PDB 7icj: Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Six Base Pairs of Dna; Soaked in the Presence of CUCL2 (0.1 Millimolar)

The structure of Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Six Base Pairs of Dna; Soaked in the Presence of CUCL2 (0.1 Millimolar), PDB code: 7icj 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 / 3.50
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	177.010, 57.749, 48.582, 90.00, 90.00, 90.00
R / Rfree (%)	16.3 / n/a

The structure of Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Six Base Pairs of Dna; Soaked in the Presence of CUCL2 (0.1 Millimolar) also contains other interesting chemical elements:

Copper

(Cu)

1 atom

The binding sites of Sodium atom in the Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Six Base Pairs of Dna; Soaked in the Presence of CUCL2 (0.1 Millimolar) (pdb code 7icj). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Six Base Pairs of Dna; Soaked in the Presence of CUCL2 (0.1 Millimolar), PDB code: 7icj:

Sodium binding site 1 out of 1 in the Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Six Base Pairs of Dna; Soaked in the Presence of CUCL2 (0.1 Millimolar)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Six Base Pairs of Dna; Soaked in the Presence of CUCL2 (0.1 Millimolar) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na342 b:34.8 occ:1.00 N A:VAL65 2.1 10.6 1.0 O A:LEU62 2.2 26.0 1.0 N A:GLY64 2.5 18.3 1.0 O A:VAL65 2.6 1.9 1.0 C A:GLY64 2.7 11.7 1.0 C A:VAL65 2.8 7.8 1.0 CA A:VAL65 2.8 8.7 1.0 C A:LEU62 3.0 24.2 1.0 C A:PRO63 3.0 15.7 1.0 CA A:GLY64 3.1 14.4 1.0 CA A:PRO63 3.3 21.9 1.0 N A:PRO63 3.5 24.8 1.0 O A:GLY64 3.5 10.4 1.0 CB A:VAL65 3.5 11.7 1.0 N A:GLY66 3.7 13.3 1.0 O A:LYS60 3.9 2.2 1.0 O A:PRO63 3.9 9.7 1.0 CG2 A:VAL65 4.1 16.3 1.0 CA A:LEU62 4.2 15.1 1.0 CA A:GLY66 4.6 14.8 1.0 N A:LEU62 4.6 10.4 1.0 CB A:LEU62 4.7 16.6 1.0 C A:LYS60 4.7 1.1 1.0 CB A:PRO63 4.8 20.6 1.0 CG1 A:VAL65 4.8 13.7 1.0 CD A:PRO63 5.0 24.2 1.0 O A:ALA59 5.0 1.0 1.0

H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut. A Structural Basis For Metal Ion Mutagenicity and Nucleotide Selectivity in Human Dna Polymerase Beta Biochemistry V. 35 12762 1996.
ISSN: ISSN 0006-2960
PubMed: 8841119
DOI: 10.1021/BI9529566