Zinc in PDB 7icr: Dna Polymerase Beta (E.C.2.7.7.7)/Dna Complex, Soaked in the Presence of ZNCL2

The structure of Dna Polymerase Beta (E.C.2.7.7.7)/Dna Complex, Soaked in the Presence of ZNCL2, PDB code: 7icr 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 / 3.00
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	179.283, 57.743, 48.480, 90.00, 90.00, 90.00
R / Rfree (%)	16 / n/a

The structure of Dna Polymerase Beta (E.C.2.7.7.7)/Dna Complex, Soaked in the Presence of ZNCL2 also contains other interesting chemical elements:

Sodium

(Na)

2 atoms

The binding sites of Zinc atom in the Dna Polymerase Beta (E.C.2.7.7.7)/Dna Complex, Soaked in the Presence of ZNCL2 (pdb code 7icr). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Dna Polymerase Beta (E.C.2.7.7.7)/Dna Complex, Soaked in the Presence of ZNCL2, PDB code: 7icr:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Dna Polymerase Beta (E.C.2.7.7.7)/Dna Complex, Soaked in the Presence of ZNCL2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Dna Polymerase Beta (E.C.2.7.7.7)/Dna Complex, Soaked in the Presence of ZNCL2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn340 b:87.3 occ:1.00 OD1 A:ASP192 2.9 38.4 1.0 O A:HOH659 3.2 32.6 1.0 CG A:ASP192 3.2 27.8 1.0 O A:HOH549 3.4 83.4 1.0 OD1 A:ASP190 3.4 37.9 1.0 CG A:ASP190 3.6 30.4 1.0 OD2 A:ASP192 3.7 27.7 1.0 OD2 A:ASP190 3.8 34.5 1.0 OD2 A:ASP256 3.9 33.2 1.0 CB A:ASP192 4.1 14.8 1.0 CG A:ASP256 4.2 25.3 1.0 O A:HOH668 4.2 44.0 1.0 O A:HOH661 4.4 44.3 1.0 CB A:ASP190 4.4 21.1 1.0 CB A:ASP256 4.5 19.5 1.0 CA A:ASP192 4.7 12.0 1.0 OD1 A:ASP256 4.8 21.1 1.0 N A:ASP192 4.8 14.4 1.0 NH1 A:ARG258 5.0 81.0 1.0

Zinc binding site 2 out of 2 in the Dna Polymerase Beta (E.C.2.7.7.7)/Dna Complex, Soaked in the Presence of ZNCL2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Dna Polymerase Beta (E.C.2.7.7.7)/Dna Complex, Soaked in the Presence of ZNCL2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn343 b:60.7 occ:1.00 ND1 A:HIS51 2.1 51.4 1.0 CE1 A:HIS51 2.8 48.6 1.0 CG A:HIS51 3.1 52.6 1.0 CB A:HIS51 3.7 46.5 1.0 NE2 A:HIS51 3.9 50.2 1.0 CD2 A:HIS51 4.1 52.0 1.0 CA A:HIS51 4.4 33.1 1.0 CE A:LYS52 4.9 82.8 1.0 NZ A:LYS52 5.0 80.3 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