Zinc in PDB 7w86: Crystal Structure of the Dyw Domain of DYW1

The structure of Crystal Structure of the Dyw Domain of DYW1, PDB code: 7w86 was solved by Y.Sawada, H.Shimizu, S.Toma-Fukai, T.Shimizu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.66 / 1.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	32.945, 45.165, 37.023, 90, 98.04, 90
R / Rfree (%)	17.7 / 23.4

The binding sites of Zinc atom in the Crystal Structure of the Dyw Domain of DYW1 (pdb code 7w86). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of the Dyw Domain of DYW1, PDB code: 7w86:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Crystal Structure of the Dyw Domain of DYW1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the Dyw Domain of DYW1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:25.6 occ:1.00 ND1 A:HIS171 2.0 23.2 1.0 SG A:CYS199 2.2 24.3 1.0 O A:HOH401 2.2 24.9 1.0 SG A:CYS202 2.3 21.1 1.0 CE1 A:HIS171 2.9 25.4 1.0 CG A:HIS171 3.1 22.9 1.0 CB A:CYS202 3.1 19.3 1.0 CB A:CYS199 3.3 24.1 1.0 CB A:HIS171 3.5 21.9 1.0 OE1 A:GLU173 3.7 30.3 1.0 N A:CYS199 3.8 21.7 1.0 N A:CYS202 3.9 19.1 1.0 CA A:CYS199 4.0 21.6 1.0 CA A:CYS202 4.1 18.8 1.0 NE2 A:HIS171 4.1 23.9 1.0 CD2 A:HIS171 4.2 24.9 1.0 CD A:GLU173 4.2 26.9 1.0 OE2 A:GLU173 4.4 22.9 1.0 NH2 A:ARG174 4.5 20.7 1.0 O A:CYS199 4.6 20.9 1.0 C A:CYS199 4.6 23.5 1.0 CA A:HIS171 5.0 22.5 1.0 C A:ILE198 5.0 23.9 1.0

Zinc binding site 2 out of 3 in the Crystal Structure of the Dyw Domain of DYW1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Dyw Domain of DYW1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn302 b:29.0 occ:1.00 NE2 A:HIS157 1.9 29.5 1.0 O A:HOH436 2.2 20.4 1.0 O A:HOH434 2.3 22.4 1.0 CD2 A:HIS157 2.8 29.3 1.0 CE1 A:HIS157 3.0 26.9 1.0 CG A:HIS157 4.0 29.8 1.0 ND1 A:HIS157 4.0 28.4 1.0 N A:LEU156 4.8 35.6 1.0 O3 A:GOL316 4.8 48.0 1.0

Zinc binding site 3 out of 3 in the Crystal Structure of the Dyw Domain of DYW1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of the Dyw Domain of DYW1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn303 b:23.1 occ:1.00 ND1 A:HIS226 2.0 20.3 1.0 NE2 A:HIS203 2.1 20.0 1.0 SG A:CYS233 2.2 21.8 1.0 SG A:CYS235 2.3 25.4 1.0 CE1 A:HIS226 3.0 22.0 1.0 CD2 A:HIS203 3.0 18.2 1.0 CE1 A:HIS203 3.1 21.6 1.0 CG A:HIS226 3.1 22.1 1.0 CB A:CYS233 3.1 22.6 1.0 CB A:CYS235 3.3 27.1 1.0 CB A:HIS226 3.5 22.4 1.0 NE2 A:HIS226 4.1 22.7 1.0 N A:CYS235 4.1 26.4 1.0 ND1 A:HIS203 4.2 20.2 1.0 CG A:HIS203 4.2 19.8 1.0 CD2 A:HIS226 4.2 21.4 1.0 CA A:HIS226 4.2 20.5 1.0 CA A:CYS235 4.2 27.4 1.0 CZ A:PHE228 4.3 19.6 1.0 CE2 A:PHE228 4.3 19.8 1.0 CA A:CYS233 4.5 21.5 1.0 CE3 A:TRP239 4.7 23.6 1.0 C A:CYS233 4.8 24.0 1.0 C A:CYS235 4.9 27.5 1.0 N A:ASP237 4.9 26.4 1.0 CD2 A:TRP239 4.9 21.4 1.0

Y.Sawada, H.Shimizu, S.Toma-Fukai, T.Shimizu. Crystal Structure of Dyw Domain of DYW1 To Be Published.