Atomistry » Zinc » PDB 6v77-6vpc » 6vnq
Atomistry »
  Zinc »
    PDB 6v77-6vpc »
      6vnq »

Zinc in PDB 6vnq: Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Bishydroxamic Acid Based Inhibitor

Enzymatic activity of Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Bishydroxamic Acid Based Inhibitor

All present enzymatic activity of Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Bishydroxamic Acid Based Inhibitor:
3.5.1.48; 3.5.1.62;

Protein crystallography data

The structure of Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Bishydroxamic Acid Based Inhibitor, PDB code: 6vnq was solved by C.J.Herbst-Gervasoni, D.W.Christianson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 69.76 / 2.05
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 80.549, 80.549, 245.370, 90.00, 90.00, 120.00
R / Rfree (%) 19.3 / 23.1

Other elements in 6vnq:

The structure of Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Bishydroxamic Acid Based Inhibitor also contains other interesting chemical elements:

Potassium (K) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Bishydroxamic Acid Based Inhibitor (pdb code 6vnq). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Bishydroxamic Acid Based Inhibitor, PDB code: 6vnq:

Zinc binding site 1 out of 1 in 6vnq

Go back to Zinc Binding Sites List in 6vnq
Zinc binding site 1 out of 1 in the Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Bishydroxamic Acid Based Inhibitor


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 Danio Rerio Histone Deacetylase 10 in Complex with Bishydroxamic Acid Based Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn704

b:32.7
occ:1.00
 OD2 A:ASP174 2.0 24.9 1.0
OD2 A:ASP267 2.1 33.4 1.0
O01 A:R5G701 2.1 44.4 0.7
O A:HOH801 2.2 31.7 0.7
ND1 A:HIS176 2.3 30.0 1.0
O01 A:R5G701 2.4 34.7 0.3
N02 A:R5G701 2.4 37.5 0.7
N02 A:R5G701 2.6 32.8 0.3
CG A:ASP174 2.7 34.7 1.0
OD1 A:ASP174 2.7 31.8 1.0
O24 A:R5G701 2.8 40.6 0.3
C03 A:R5G701 2.8 37.4 0.3
CG A:ASP267 3.1 29.5 1.0
CG A:HIS176 3.2 30.4 1.0
CE1 A:HIS176 3.3 32.3 1.0
C03 A:R5G701 3.3 37.1 0.7
OD1 A:ASP267 3.4 28.4 1.0
CB A:HIS176 3.4 26.8 1.0
N A:HIS176 3.8 30.4 1.0
O24 A:R5G701 3.8 38.3 0.7
C04 A:R5G701 3.9 36.2 0.3
CB A:ASP174 4.2 24.6 1.0
NE2 A:HIS136 4.2 28.5 1.0
CA A:HIS176 4.3 30.9 1.0
C04 A:R5G701 4.3 35.7 0.7
N A:VAL175 4.3 28.6 1.0
CD2 A:HIS176 4.3 33.6 1.0
NE2 A:HIS176 4.4 33.3 1.0
CG1 A:VAL175 4.4 29.0 1.0
C23 A:R5G701 4.4 37.9 0.3
CB A:ASP267 4.4 29.3 1.0
CA A:GLY305 4.4 27.7 1.0
NE2 A:HIS137 4.5 31.2 1.0
CE2 A:TYR307 4.6 36.6 1.0
CE1 A:HIS136 4.7 24.2 1.0
OH A:TYR307 4.7 39.3 1.0
N A:GLY305 4.7 32.8 1.0
C A:VAL175 4.7 35.2 1.0
C23 A:R5G701 4.8 38.1 0.7
C05 A:R5G701 4.9 36.1 0.3
CA A:VAL175 4.9 30.4 1.0
C A:ASP174 5.0 34.0 1.0
CA A:ASP174 5.0 25.2 1.0

Reference:

A.K.Miller, M.Morgen, R.R.Steimbach, M.Geraldy, L.Hellweg, P.Sehr, J.Ridinger, O.Witt, I.Oehme, C.J.Herbst-Gervasoni, J.D.Osko, N.J.Porter, D.W.Christianson, N.Gunkel. Design and Synthesis of Dihydroxamic Acids As HDAC6/8/10 Inhibitors. Chemmedchem 2020.
ISSN: ESSN 1860-7187
PubMed: 32348628
DOI: 10.1002/CMDC.202000149
Page generated: Tue Oct 29 09:05:09 2024

Last articles

Al in 8SHA
Al in 8SGL
Al in 8SH9
Al in 8SGC
Al in 8SG9
Al in 8SFF
Al in 8SG8
Al in 8R1A
Al in 8Q75
Al in 8OIE
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy