Zinc in PDB 5ezb: Chicken Prestin Stas Domain

The structure of Chicken Prestin Stas Domain, PDB code: 5ezb was solved by G.Lolli, E.Pasqualetto, E.Costanzi, G.Bonetto, R.Battistutta, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.59 / 2.30
Space group	I 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	81.551, 56.919, 101.140, 90.00, 96.19, 90.00
R / Rfree (%)	22 / 25.7

The structure of Chicken Prestin Stas Domain also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Zinc atom in the Chicken Prestin Stas Domain (pdb code 5ezb). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Chicken Prestin Stas Domain, PDB code: 5ezb:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Chicken Prestin Stas Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Chicken Prestin Stas Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn801 b:65.4 occ:0.62 SG A:CYS688 2.4 42.3 1.0 SG A:CYS728 2.5 44.4 1.0 SG A:CYS690 2.7 45.8 1.0 HA A:CYS728 2.8 56.3 1.0 HB3 A:CYS688 3.4 50.0 1.0 CB A:CYS728 3.5 45.0 1.0 CA A:CYS728 3.5 46.9 1.0 CB A:CYS688 3.6 41.6 1.0 HB2 A:CYS690 3.7 42.1 1.0 HB3 A:CYS728 3.8 54.0 1.0 CB A:CYS690 3.9 35.1 1.0 N A:CYS728 4.0 39.5 1.0 OG A:SER656 4.0 35.1 1.0 HB2 A:CYS688 4.1 50.0 1.0 H A:CYS728 4.2 47.4 1.0 HB2 A:CYS728 4.3 54.0 1.0 HB3 A:SER656 4.4 43.4 1.0 HB3 A:CYS690 4.5 42.1 1.0 C A:ALA727 4.6 43.3 1.0 HG A:SER656 4.7 42.2 1.0 C A:CYS688 4.7 36.0 1.0 HB3 A:ALA727 4.7 53.3 1.0 O A:CYS688 4.8 36.8 1.0 CB A:SER656 4.8 36.2 1.0 CA A:CYS688 4.8 43.9 1.0 H A:CYS690 4.8 46.9 1.0 N A:CYS690 4.8 39.1 1.0 C A:CYS728 4.8 49.5 1.0 HE2 A:PHE718 4.8 52.0 1.0 HB1 A:ALA727 4.8 53.3 1.0 O A:ALA727 4.9 50.5 1.0 CA A:CYS690 5.0 36.2 1.0

Zinc binding site 2 out of 2 in the Chicken Prestin Stas Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Chicken Prestin Stas Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn801 b:67.3 occ:0.60 SG B:CYS688 2.5 40.9 1.0 SG B:CYS690 2.6 45.6 1.0 SG B:CYS728 2.6 43.6 1.0 HA B:CYS728 2.9 53.7 1.0 HB3 B:CYS688 3.6 46.4 1.0 CA B:CYS728 3.6 44.7 1.0 HB2 B:CYS690 3.6 47.3 1.0 CB B:CYS728 3.7 40.4 1.0 CB B:CYS688 3.8 38.7 1.0 CB B:CYS690 3.8 39.4 1.0 N B:CYS728 4.0 39.7 1.0 HB3 B:CYS728 4.1 48.5 1.0 OG B:SER656 4.1 38.3 1.0 H B:CYS728 4.3 47.6 1.0 HB2 B:CYS688 4.3 46.4 1.0 HB3 B:CYS690 4.4 47.3 1.0 HB2 B:CYS728 4.4 48.5 1.0 HB3 B:SER656 4.4 45.0 1.0 C B:ALA727 4.5 42.3 1.0 HB3 B:ALA727 4.5 53.3 1.0 HB1 B:ALA727 4.6 53.3 1.0 O B:ALA727 4.6 52.5 1.0 HG B:SER656 4.7 45.9 1.0 HE2 B:PHE718 4.7 49.8 1.0 N B:CYS690 4.7 38.9 1.0 H B:CYS690 4.8 46.7 1.0 C B:CYS688 4.8 37.1 1.0 CB B:SER656 4.9 37.5 1.0 CA B:CYS690 4.9 40.7 1.0 C B:CYS728 4.9 48.2 1.0 O B:CYS688 4.9 38.3 1.0 CA B:CYS688 4.9 43.5 1.0 CB B:ALA727 5.0 44.4 1.0

G.Lolli, E.Pasqualetto, E.Costanzi, G.Bonetto, R.Battistutta. The Stas Domain of Mammalian SLC26A5 Prestin Harbours An Anion-Binding Site. Biochem.J. V. 473 365 2016.
ISSN: ESSN 1470-8728
PubMed: 26635354
DOI: 10.1042/BJ20151089