Zinc in PDB 8qa7: Crystal Structure of HDAC6 Catalytic Domain 2 From Zebrafish in Complex with Buffer Component.

The structure of Crystal Structure of HDAC6 Catalytic Domain 2 From Zebrafish in Complex with Buffer Component., PDB code: 8qa7 was solved by J.Sandmark, M.Ek, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	66.63 / 1.47
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	75.39, 92.373, 96.19, 90, 90, 90
R / Rfree (%)	21.7 / 24

The structure of Crystal Structure of HDAC6 Catalytic Domain 2 From Zebrafish in Complex with Buffer Component. also contains other interesting chemical elements:

Potassium

(K)

4 atoms

The binding sites of Zinc atom in the Crystal Structure of HDAC6 Catalytic Domain 2 From Zebrafish in Complex with Buffer Component. (pdb code 8qa7). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of HDAC6 Catalytic Domain 2 From Zebrafish in Complex with Buffer Component., PDB code: 8qa7:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of HDAC6 Catalytic Domain 2 From Zebrafish in Complex with Buffer Component.


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 HDAC6 Catalytic Domain 2 From Zebrafish in Complex with Buffer Component. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn803 b:28.5 occ:1.00 OD2 A:ASP705 2.0 18.6 1.0 ND1 A:HIS614 2.0 18.6 1.0 OD1 A:ASP612 2.1 16.3 1.0 O3S A:EPE804 2.2 26.3 1.0 O2S A:EPE804 2.4 27.3 1.0 S A:EPE804 2.6 31.9 1.0 CG A:ASP612 2.7 17.5 1.0 OD2 A:ASP612 2.7 17.7 1.0 CE1 A:HIS614 2.9 19.3 1.0 CG A:ASP705 3.0 17.4 1.0 C10 A:EPE804 3.0 27.0 1.0 CG A:HIS614 3.2 18.0 1.0 OD1 A:ASP705 3.4 17.4 1.0 CB A:HIS614 3.6 16.9 1.0 N A:HIS614 3.9 16.4 1.0 NE2 A:HIS614 4.1 19.4 1.0 O1S A:EPE804 4.1 29.5 1.0 CB A:ASP612 4.2 16.5 1.0 NE2 A:HIS573 4.2 17.9 1.0 CD2 A:HIS614 4.2 18.5 1.0 CA A:GLY743 4.3 16.8 1.0 CB A:ASP705 4.3 16.9 1.0 OH A:TYR745 4.3 26.4 1.0 CG1 A:VAL613 4.4 16.7 1.0 N A:VAL613 4.4 15.7 1.0 CA A:HIS614 4.4 16.1 1.0 C9 A:EPE804 4.5 28.6 1.0 NE2 A:HIS574 4.6 17.1 1.0 CE2 A:TYR745 4.6 22.6 1.0 CE1 A:HIS573 4.6 16.6 1.0 N A:GLY743 4.7 16.3 1.0 C A:ASP612 4.9 16.1 1.0 CA A:ASP612 4.9 16.2 1.0 C A:VAL613 4.9 16.6 1.0 CZ A:TYR745 5.0 23.6 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of HDAC6 Catalytic Domain 2 From Zebrafish in Complex with Buffer Component.


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 HDAC6 Catalytic Domain 2 From Zebrafish in Complex with Buffer Component. within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn803 b:28.1 occ:1.00 O1S B:EPE804 2.0 26.8 1.0 OD2 B:ASP705 2.0 21.7 1.0 ND1 B:HIS614 2.0 21.4 1.0 OD1 B:ASP612 2.1 17.9 1.0 O3S B:EPE804 2.3 26.5 1.0 S B:EPE804 2.3 30.8 1.0 CG B:ASP612 2.8 18.5 1.0 OD2 B:ASP612 2.8 19.7 1.0 CE1 B:HIS614 2.9 21.5 1.0 C10 B:EPE804 3.0 26.7 1.0 CG B:ASP705 3.0 19.8 1.0 CG B:HIS614 3.2 21.1 1.0 OD1 B:ASP705 3.4 19.4 1.0 CB B:HIS614 3.6 18.9 1.0 C9 B:EPE804 3.6 28.9 1.0 O2S B:EPE804 3.8 29.8 1.0 N B:HIS614 4.0 18.7 1.0 NE2 B:HIS614 4.0 21.9 1.0 CD2 B:HIS614 4.2 21.2 1.0 NE2 B:HIS573 4.2 18.2 1.0 CB B:ASP612 4.3 18.3 1.0 CB B:ASP705 4.3 19.1 1.0 CA B:GLY743 4.3 16.8 1.0 OH B:TYR745 4.3 27.8 1.0 CG1 B:VAL613 4.4 18.8 1.0 CA B:HIS614 4.4 19.0 1.0 N B:VAL613 4.4 18.6 1.0 CE2 B:TYR745 4.6 24.4 1.0 NE2 B:HIS574 4.7 17.9 1.0 CE1 B:HIS573 4.7 17.4 1.0 N B:GLY743 4.7 16.9 1.0 N1 B:EPE804 4.8 29.4 1.0 C B:ASP612 4.9 18.4 1.0 CZ B:TYR745 5.0 24.9 1.0 C B:VAL613 5.0 19.3 1.0 CA B:ASP612 5.0 17.6 1.0

J.Sandmark, M.Ek. Crystal Structure of HDAC6 Catalytic Domain 2 From Zebrafish in Complex with Buffer Component. To Be Published.