Sodium in PDB 7sgk: Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Dkfz-728

Enzymatic activity of Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Dkfz-728

All present enzymatic activity of Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Dkfz-728:
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 Dkfz-728, PDB code: 7sgk 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 / 2.20
*Space group*	P 3₁ 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	80.548, 80.548, 243.35, 90, 90, 120
*R / R_free (%)*	19.5 / 24.3

Other elements in 7sgk:

The structure of Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Dkfz-728 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 Dkfz-728 (pdb code 7sgk). 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 Dkfz-728, PDB code: 7sgk:

Sodium binding site 1 out of 1 in 7sgk

Go back to

Sodium Binding Sites List in 7sgk

Sodium binding site 1 out of 1 in the Crystal Structure of Danio Rerio Histone Deacetylase 10 in Complex with Dkfz-728

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 Dkfz-728 within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na708 b:69.1 occ:1.00	O	A:HOH906	2.4	57.5	1.0
	O	A:HOH942	2.4	52.1	1.0
	O	A:HOH910	2.7	40.7	1.0
	O	A:HOH1030	2.8	55.4	1.0
	O	A:HOH852	2.9	57.6	1.0
	O	A:TYR92	4.1	33.0	1.0
	O	A:HOH870	4.4	41.5	1.0
	N	A:ALA94	4.5	32.9	1.0
	OE1	A:GLU24	4.5	56.3	1.0
	OD2	A:ASP22	4.5	59.0	1.0
	CA	A:LYS90	4.6	41.6	1.0
	O	A:SER89	4.7	37.5	1.0
	CG	A:LYS90	4.8	51.8	1.0
	O	A:VAL95	5.0	37.9	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: Mon Aug 18 11:56:30 2025

Last articles

Zn in 9UUO
Zn in 9UUS
Zn in 9W4R
Zn in 9VKW
Zn in 9W4S
Zn in 9VH1
Zn in 9RMX
Zn in 9RMU
Zn in 9QWN
Zn in 9U9Y

	© Copyright 2008-2020 by atomistry.com
Home \| Site Map \| Copyright \| Contact us \| Privacy