Sodium in PDB 7sgg: Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Saha

Enzymatic activity of Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Saha

All present enzymatic activity of Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Saha:
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 Saha, PDB code: 7sgg 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) 69.58 / 2.10
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 80.338, 80.338, 247.241, 90, 90, 120
R / Rfree (%) 18.3 / 20.6

Other elements in 7sgg:

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

Zinc (Zn) 1 atom
Potassium (K) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Saha (pdb code 7sgg). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Saha, PDB code: 7sgg:

Sodium binding site 1 out of 1 in 7sgg

Go back to Sodium Binding Sites List in 7sgg
Sodium binding site 1 out of 1 in the Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Saha


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Saha within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na710

b:74.2
occ:1.00
 O A:HOH994 2.5 56.9 1.0
O A:HOH1001 2.6 56.2 1.0
O A:HOH926 2.8 64.5 1.0
O A:HOH900 3.0 38.3 1.0
O A:TYR92 4.2 37.8 1.0
O A:HOH923 4.2 54.4 1.0
OD1 A:ASP22 4.4 63.3 1.0
CA A:LYS90 4.6 49.3 1.0
N A:ALA94 4.7 34.9 1.0
CG A:LYS90 4.8 50.9 1.0
OE2 A:GLU24 4.8 71.7 1.0
O A:SER89 4.9 37.0 1.0

Reference:

R.R.Steimbach, C.J.Herbst-Gervasoni, S.Lechner, T.M.Stewart, G.Klinke, J.Ridinger, M.N.E.Geraldy, G.Tihanyi, J.R.Foley, U.Uhrig, B.Kuster, G.Poschet, R.A.Casero Jr., G.Medard, I.Oehme, D.W.Christianson, N.Gunkel, A.K.Miller. Aza-Saha Derivatives Are Selective Histone Deacetylase 10 Chemical Probes That Inhibit Polyamine Deacetylation and Phenocopy HDAC10 Knockout. J.Am.Chem.Soc. V. 144 18861 2022.
ISSN: ESSN 1520-5126
PubMed: 36200994
DOI: 10.1021/JACS.2C05030
Page generated: Fri Apr 7 16:16:58 2023

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy