Potassium in PDB 3ew8: Crystal Structure Analysis of Human HDAC8 D101L Variant

All present enzymatic activity of Crystal Structure Analysis of Human HDAC8 D101L Variant:
3.5.1.98;

The structure of Crystal Structure Analysis of Human HDAC8 D101L Variant, PDB code: 3ew8 was solved by D.P.Dowling, S.L.Gantt, S.G.Gattis, C.A.Fierke, D.W.Christianson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.34 / 1.80
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	90.557, 88.911, 52.378, 90.00, 90.00, 90.00
R / Rfree (%)	17.6 / 20.2

The structure of Crystal Structure Analysis of Human HDAC8 D101L Variant also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Potassium atom in the Crystal Structure Analysis of Human HDAC8 D101L Variant (pdb code 3ew8). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Crystal Structure Analysis of Human HDAC8 D101L Variant, PDB code: 3ew8:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Crystal Structure Analysis of Human HDAC8 D101L Variant


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure Analysis of Human HDAC8 D101L Variant within 5.0Å range: probe atom residue distance (Å) B Occ A:K600 b:16.8 occ:1.00 O A:LEU200 2.6 17.2 1.0 O A:ASP178 2.7 16.7 1.0 O A:HIS180 2.7 14.6 1.0 O A:ASP176 2.8 16.4 1.0 OD1 A:ASP176 2.8 17.9 1.0 OG A:SER199 2.9 15.9 1.0 N A:ASP178 3.5 16.9 1.0 C A:ASP176 3.5 15.2 1.0 CG A:ASP176 3.5 17.5 1.0 C A:ASP178 3.6 16.2 1.0 C A:LEU200 3.6 15.2 1.0 C A:HIS180 3.7 17.0 1.0 CB A:HIS201 3.8 14.4 1.0 N A:LEU200 3.8 16.0 1.0 CB A:ASP176 3.9 15.7 1.0 CA A:ASP178 3.9 16.2 1.0 C A:LEU177 4.0 17.1 1.0 CB A:ASP178 4.0 16.4 1.0 CB A:SER199 4.1 17.1 1.0 N A:LEU177 4.1 13.9 1.0 CA A:LEU177 4.2 15.0 1.0 ND1 A:HIS201 4.3 17.6 1.0 N A:GLY182 4.3 16.7 1.0 CA A:ASP176 4.3 15.2 1.0 CA A:HIS201 4.3 17.0 1.0 CA A:HIS181 4.4 16.1 1.0 N A:HIS201 4.4 15.8 1.0 CA A:SER199 4.4 17.6 1.0 OD2 A:ASP176 4.4 17.7 1.0 N A:HIS181 4.4 16.6 1.0 C A:SER199 4.4 17.6 1.0 CA A:LEU200 4.5 16.2 1.0 N A:HIS180 4.5 16.3 1.0 O A:HOH608 4.5 16.8 1.0 CG A:HIS201 4.5 15.4 1.0 C A:LEU179 4.6 16.6 1.0 C A:HIS181 4.6 16.9 1.0 N A:LEU179 4.7 15.5 1.0 CA A:HIS180 4.7 17.0 1.0 O A:LEU177 4.7 17.8 1.0 O A:LEU179 4.9 16.8 1.0 CE1 A:HIS142 4.9 16.0 1.0

Potassium binding site 2 out of 2 in the Crystal Structure Analysis of Human HDAC8 D101L Variant


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure Analysis of Human HDAC8 D101L Variant within 5.0Å range: probe atom residue distance (Å) B Occ A:K602 b:21.5 occ:1.00 O A:PHE189 2.6 20.9 1.0 O A:VAL195 2.6 20.6 1.0 O A:HOH609 2.8 20.9 1.0 O A:HOH605 2.8 18.5 1.0 O A:THR192 2.8 24.4 1.0 O A:TYR225 3.0 19.7 1.0 C A:PHE189 3.6 21.1 1.0 CB A:TYR225 3.6 23.1 1.0 C A:TYR225 3.7 21.3 1.0 C A:VAL195 3.8 20.0 1.0 CB A:PHE189 4.0 21.1 1.0 C A:THR192 4.0 25.7 1.0 OG A:SER226 4.2 21.7 1.0 CA A:TYR225 4.3 22.2 1.0 N A:SER190 4.4 20.3 1.0 CG2 A:THR192 4.4 23.2 1.0 CA A:MET196 4.4 19.2 1.0 CA A:PHE189 4.4 21.3 1.0 CA A:SER190 4.5 22.8 1.0 N A:THR192 4.5 24.4 1.0 O A:SER190 4.5 23.3 1.0 C A:SER190 4.5 23.9 1.0 N A:MET196 4.6 18.8 1.0 N A:SER226 4.6 20.4 1.0 O A:GLY222 4.7 24.2 1.0 N A:THR197 4.7 18.5 1.0 CA A:THR192 4.7 23.8 1.0 CA A:VAL195 4.8 20.5 1.0 CG A:TYR225 4.9 23.7 1.0 OG1 A:THR197 4.9 20.1 1.0 N A:VAL195 5.0 22.6 1.0 CA A:GLY222 5.0 25.1 1.0 N A:SER193 5.0 24.3 1.0 C A:MET196 5.0 18.7 1.0 CB A:VAL195 5.0 20.3 1.0

D.P.Dowling, S.L.Gantt, S.G.Gattis, C.A.Fierke, D.W.Christianson. Structural Studies of Human Histone Deacetylase 8 and Its Site-Specific Variants Complexed with Substrate and Inhibitors. Biochemistry V. 47 13554 2008.
ISSN: ISSN 0006-2960
PubMed: 19053282
DOI: 10.1021/BI801610C