Zinc in PDB 4xba: HNT3

The structure of HNT3, PDB code: 4xba was solved by A.Jacewicz, M.Chauleau, S.Shuman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.26 / 1.50
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	52.761, 72.509, 53.926, 90.00, 111.25, 90.00
R / Rfree (%)	15.7 / 19.1

The binding sites of Zinc atom in the HNT3 (pdb code 4xba). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the HNT3, PDB code: 4xba:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the HNT3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of HNT3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn302 b:15.5 occ:1.00 NE2 A:HIS217 2.0 13.2 1.0 OE2 A:GLU221 2.1 19.1 1.0 SG A:CYS203 2.2 18.2 1.0 SG A:CYS200 2.3 15.2 1.0 CE1 A:HIS217 2.9 15.0 1.0 CD2 A:HIS217 3.0 14.7 1.0 CD A:GLU221 3.0 17.1 1.0 CB A:CYS200 3.1 16.6 1.0 CB A:CYS203 3.3 17.4 1.0 CG A:GLU221 3.3 13.3 1.0 N A:CYS203 3.6 14.4 1.0 CA A:CYS203 3.9 14.3 1.0 ND1 A:HIS217 4.0 20.9 1.0 CG A:HIS217 4.1 12.4 1.0 OE1 A:GLU221 4.2 18.5 1.0 CA A:CYS200 4.6 13.1 1.0 C A:CYS203 4.6 17.7 1.0 CB A:ARG202 4.6 16.8 1.0 C A:ARG202 4.6 18.9 1.0 N A:GLY204 4.6 15.7 1.0 CB A:GLU205 4.8 19.2 1.0 CB A:GLU221 4.8 13.5 1.0 O A:HOH522 4.8 39.1 1.0 N A:GLU205 4.9 17.4 1.0 N A:ARG202 4.9 12.9 1.0 CA A:ARG202 5.0 13.0 1.0 C A:CYS200 5.0 13.1 1.0

Zinc binding site 2 out of 2 in the HNT3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of HNT3 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn302 b:22.7 occ:0.99 OE2 B:GLU221 1.9 21.3 1.0 NE2 B:HIS217 2.0 20.4 1.0 SG B:CYS203 2.3 26.9 1.0 SG B:CYS200 2.3 22.4 1.0 CD B:GLU221 2.9 23.0 1.0 CE1 B:HIS217 3.0 22.7 1.0 CD2 B:HIS217 3.0 21.5 1.0 CB B:CYS200 3.1 21.6 1.0 CG B:GLU221 3.2 26.2 1.0 CB B:CYS203 3.3 21.3 1.0 N B:CYS203 3.7 20.3 1.0 OE1 B:GLU221 4.0 30.4 1.0 CA B:CYS203 4.1 27.4 1.0 ND1 B:HIS217 4.1 26.7 1.0 CG B:HIS217 4.1 21.3 1.0 CA B:CYS200 4.5 19.8 1.0 CB B:ARG202 4.5 21.7 1.0 CB B:GLU221 4.7 20.7 1.0 C B:ARG202 4.7 23.7 1.0 C B:CYS203 4.7 24.5 1.0 N B:GLY204 4.8 26.8 1.0 CB B:GLU205 4.9 27.6 1.0 N B:ARG202 4.9 18.2 1.0 O B:HOH491 5.0 40.9 1.0 CA B:ARG202 5.0 20.0 1.0 C B:CYS200 5.0 19.6 1.0

M.Chauleau, A.Jacewicz, S.Shuman. DNA3'PP5'G De-Capping Activity of Aprataxin: Effect of Cap Nucleoside Analogs and Structural Basis For Guanosine Recognition. Nucleic Acids Res. V. 43 6075 2015.
ISSN: ESSN 1362-4962
PubMed: 26007660
DOI: 10.1093/NAR/GKV501