Zinc in PDB 3odc: Human Parp-1 Zinc Finger 2 (ZN2) Bound to Dna

All present enzymatic activity of Human Parp-1 Zinc Finger 2 (ZN2) Bound to Dna:
2.4.2.30;

The structure of Human Parp-1 Zinc Finger 2 (ZN2) Bound to Dna, PDB code: 3odc was solved by J.M.Pascal, M.-F.Langelier, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.26 / 2.80
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	63.731, 63.731, 192.405, 90.00, 90.00, 120.00
R / Rfree (%)	19.3 / 24

The binding sites of Zinc atom in the Human Parp-1 Zinc Finger 2 (ZN2) Bound to Dna (pdb code 3odc). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Human Parp-1 Zinc Finger 2 (ZN2) Bound to Dna, PDB code: 3odc:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Human Parp-1 Zinc Finger 2 (ZN2) Bound to Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Human Parp-1 Zinc Finger 2 (ZN2) Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn701 b:40.1 occ:1.00 ND1 A:HIS159 2.1 41.9 1.0 SG A:CYS128 2.2 40.1 1.0 SG A:CYS162 2.2 43.2 1.0 SG A:CYS125 2.3 41.5 1.0 CB A:CYS125 3.0 38.9 1.0 CG A:HIS159 3.1 38.3 1.0 CE1 A:HIS159 3.1 37.1 1.0 CB A:CYS162 3.2 36.8 1.0 CB A:CYS128 3.3 39.5 1.0 CB A:HIS159 3.4 37.7 1.0 N A:CYS128 3.6 46.7 1.0 CA A:CYS128 4.1 38.4 1.0 N A:HIS159 4.2 41.6 1.0 NE2 A:HIS159 4.2 33.2 1.0 CD2 A:HIS159 4.2 34.3 1.0 CA A:HIS159 4.4 36.4 1.0 CA A:CYS125 4.5 39.5 1.0 C A:GLY127 4.5 45.0 1.0 CA A:CYS162 4.6 38.3 1.0 CA A:GLY127 4.7 41.0 1.0 N A:GLY127 4.8 47.2 1.0 C A:CYS128 4.9 41.0 1.0 C A:CYS125 5.0 41.8 1.0 N A:MET129 5.0 41.7 1.0 N A:CYS162 5.0 40.1 1.0

Zinc binding site 2 out of 2 in the Human Parp-1 Zinc Finger 2 (ZN2) Bound to Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Human Parp-1 Zinc Finger 2 (ZN2) Bound to Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn701 b:45.7 occ:1.00 ND1 B:HIS159 2.1 40.4 1.0 SG B:CYS128 2.2 48.4 1.0 SG B:CYS162 2.2 45.5 1.0 SG B:CYS125 2.3 48.6 1.0 CE1 B:HIS159 3.0 39.3 1.0 CB B:CYS125 3.1 42.5 1.0 CG B:HIS159 3.2 41.3 1.0 CB B:CYS162 3.2 40.2 1.0 CB B:CYS128 3.4 47.0 1.0 CB B:HIS159 3.6 39.0 1.0 N B:CYS128 3.7 48.5 1.0 N B:HIS159 4.1 41.6 1.0 NE2 B:HIS159 4.1 37.1 1.0 CA B:CYS128 4.2 46.6 1.0 CD2 B:HIS159 4.3 32.5 1.0 CA B:HIS159 4.5 35.9 1.0 CA B:CYS125 4.5 42.2 1.0 CA B:CYS162 4.6 40.2 1.0 C B:GLY127 4.6 46.5 1.0 O B:CYS125 4.7 47.6 1.0 C B:CYS125 4.8 43.7 1.0 N B:GLY127 4.8 43.5 1.0 CA B:GLY127 4.8 41.6 1.0 C B:CYS128 5.0 51.3 1.0

M.F.Langelier, J.L.Planck, S.Roy, J.M.Pascal. Crystal Structures of Poly(Adp-Ribose) Polymerase-1 (Parp-1) Zinc Fingers Bound to Dna: Structural and Functional Insights Into Dna-Dependent Parp-1 Activity. J.Biol.Chem. V. 286 10690 2011.
ISSN: ISSN 0021-9258
PubMed: 21233213
DOI: 10.1074/JBC.M110.202507