Atomistry » Zinc » PDB 6uat-6uo3 » 6ufn
Atomistry »
  Zinc »
    PDB 6uat-6uo3 »
      6ufn »

Zinc in PDB 6ufn: Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with 7-[(3-Aminopropyl)Amino]Heptan-2-One

Enzymatic activity of Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with 7-[(3-Aminopropyl)Amino]Heptan-2-One

All present enzymatic activity of Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with 7-[(3-Aminopropyl)Amino]Heptan-2-One:
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 7-[(3-Aminopropyl)Amino]Heptan-2-One, PDB code: 6ufn 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) 28.74 / 2.70
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 80.547, 80.547, 246.201, 90.00, 90.00, 120.00
R / Rfree (%) 19 / 22.8

Other elements in 6ufn:

The structure of Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with 7-[(3-Aminopropyl)Amino]Heptan-2-One 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 7-[(3-Aminopropyl)Amino]Heptan-2-One (pdb code 6ufn). 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 7-[(3-Aminopropyl)Amino]Heptan-2-One, PDB code: 6ufn:

Zinc binding site 1 out of 1 in 6ufn

Go back to Zinc Binding Sites List in 6ufn
Zinc binding site 1 out of 1 in the Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with 7-[(3-Aminopropyl)Amino]Heptan-2-One


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 7-[(3-Aminopropyl)Amino]Heptan-2-One within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn702

b:40.4
occ:1.00
 OD2 A:ASP267 2.0 35.1 1.0
O04 A:Q6M701 2.0 43.0 1.0
OD2 A:ASP174 2.1 32.0 1.0
ND1 A:HIS176 2.2 38.9 1.0
O03 A:Q6M701 2.3 37.5 1.0
OD1 A:ASP174 2.5 34.3 1.0
CG A:ASP174 2.6 33.7 1.0
C02 A:Q6M701 2.6 35.5 1.0
CE1 A:HIS176 3.0 39.0 1.0
CG A:ASP267 3.0 32.4 1.0
CG A:HIS176 3.2 37.9 1.0
OD1 A:ASP267 3.5 33.5 1.0
CB A:HIS176 3.6 27.3 1.0
C01 A:Q6M701 3.7 37.3 1.0
C05 A:Q6M701 3.7 42.1 1.0
N A:HIS176 3.7 34.5 1.0
C06 A:Q6M701 3.8 45.8 1.0
CG1 A:VAL175 4.1 31.4 1.0
CB A:ASP174 4.1 32.0 1.0
NE2 A:HIS176 4.2 40.1 1.0
CA A:GLY305 4.2 37.6 1.0
N A:VAL175 4.2 38.1 1.0
CD2 A:HIS176 4.3 37.0 1.0
CA A:HIS176 4.3 28.0 1.0
NE2 A:HIS136 4.3 34.3 1.0
CB A:ASP267 4.3 33.2 1.0
OH A:TYR307 4.4 42.3 1.0
CE2 A:TYR307 4.5 37.1 1.0
CE1 A:HIS136 4.6 32.1 1.0
N A:GLY305 4.6 42.4 1.0
C A:VAL175 4.7 40.2 1.0
NE2 A:HIS137 4.8 37.3 1.0
C A:ASP174 4.8 37.0 1.0
CA A:VAL175 4.8 40.1 1.0
CA A:ASP174 4.9 30.9 1.0
CZ A:TYR307 4.9 45.5 1.0

Reference:

C.J.Herbst-Gervasoni, D.W.Christianson. Binding of N8-Acetylspermidine Analogues to Histone Deacetylase 10 Reveals Molecular Strategies For Blocking Polyamine Deacetylation. Biochemistry 2019.
ISSN: ISSN 0006-2960
PubMed: 31746596
DOI: 10.1021/ACS.BIOCHEM.9B00906
Page generated: Tue Oct 29 08:34:53 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy