Potassium in PDB 5zoo: Crystal Structure of Histone Deacetylase 4 (HDAC4) in Complex with A Smrt Corepressor SP1 Fragment

Enzymatic activity of Crystal Structure of Histone Deacetylase 4 (HDAC4) in Complex with A Smrt Corepressor SP1 Fragment

All present enzymatic activity of Crystal Structure of Histone Deacetylase 4 (HDAC4) in Complex with A Smrt Corepressor SP1 Fragment:
3.5.1.98;

Protein crystallography data

The structure of Crystal Structure of Histone Deacetylase 4 (HDAC4) in Complex with A Smrt Corepressor SP1 Fragment, PDB code: 5zoo was solved by S.Y.Park, H.J.Hwang, J.S.Kim, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 9.99 / 1.85
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 131.424, 131.424, 67.770, 90.00, 90.00, 120.00
R / Rfree (%) 15.5 / 17.5

Other elements in 5zoo:

The structure of Crystal Structure of Histone Deacetylase 4 (HDAC4) in Complex with A Smrt Corepressor SP1 Fragment also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of Histone Deacetylase 4 (HDAC4) in Complex with A Smrt Corepressor SP1 Fragment (pdb code 5zoo). 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 of Histone Deacetylase 4 (HDAC4) in Complex with A Smrt Corepressor SP1 Fragment, PDB code: 5zoo:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in 5zoo

Go back to Potassium Binding Sites List in 5zoo
Potassium binding site 1 out of 2 in the Crystal Structure of Histone Deacetylase 4 (HDAC4) in Complex with A Smrt Corepressor SP1 Fragment


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of Histone Deacetylase 4 (HDAC4) in Complex with A Smrt Corepressor SP1 Fragment within 5.0Å range:
probe atom residue distance (Å) B Occ
G:K1101

b:23.9
occ:1.00
O G:ASP840 2.6 18.2 1.0
OG G:SER861 2.7 22.6 1.0
OD1 G:ASP838 2.7 20.7 1.0
O G:LEU862 2.7 20.0 1.0
O G:ASP838 2.7 19.0 1.0
O G:HIS842 2.7 20.5 1.0
CG G:ASP838 3.3 24.2 1.0
C G:ASP838 3.4 21.4 1.0
C G:ASP840 3.6 20.9 1.0
C G:HIS842 3.7 19.0 1.0
C G:LEU862 3.7 18.9 1.0
CB G:ASP838 3.8 18.3 1.0
CB G:SER861 3.9 22.2 1.0
N G:ASP840 3.9 19.7 1.0
CB G:HIS863 3.9 20.9 1.0
N G:LEU862 4.0 19.5 1.0
OD2 G:ASP838 4.0 23.2 1.0
CA G:ASP840 4.1 18.5 1.0
N G:TRP839 4.1 19.4 1.0
C G:TRP839 4.2 20.9 1.0
CA G:ASP838 4.2 18.5 1.0
CA G:SER861 4.3 19.4 1.0
CA G:TRP839 4.3 18.7 1.0
CA G:HIS843 4.3 23.4 1.0
CB G:ASP840 4.3 17.3 1.0
N G:HIS843 4.3 18.9 1.0
N G:HIS842 4.4 18.8 1.0
C G:SER861 4.5 23.5 1.0
ND1 G:HIS863 4.5 23.1 1.0
N G:GLY844 4.5 20.3 1.0
CA G:HIS863 4.5 22.0 1.0
N G:HIS863 4.5 18.5 1.0
CA G:LEU862 4.5 21.5 1.0
O G:HOH1232 4.6 22.5 1.0
C G:VAL841 4.7 22.9 1.0
CG G:HIS863 4.7 20.1 1.0
CA G:HIS842 4.7 21.1 1.0
N G:VAL841 4.7 19.6 1.0
OH G:TYR859 4.7 22.1 1.0
C G:HIS843 4.7 21.9 1.0
CE1 G:HIS802 4.8 20.8 1.0
O G:TRP839 5.0 19.2 1.0

Potassium binding site 2 out of 2 in 5zoo

Go back to Potassium Binding Sites List in 5zoo
Potassium binding site 2 out of 2 in the Crystal Structure of Histone Deacetylase 4 (HDAC4) in Complex with A Smrt Corepressor SP1 Fragment


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of Histone Deacetylase 4 (HDAC4) in Complex with A Smrt Corepressor SP1 Fragment within 5.0Å range:
probe atom residue distance (Å) B Occ
G:K1102

b:35.2
occ:1.00
O G:PHE851 2.5 22.1 1.0
O G:HOH1234 2.6 27.6 1.0
O G:VAL857 2.6 26.4 1.0
O G:ASP854 2.8 24.7 1.0
O G:PHE888 3.1 22.8 1.0
O G:HOH1258 3.5 25.4 1.0
C G:PHE851 3.6 22.5 1.0
C G:VAL857 3.8 27.1 1.0
CB G:PHE851 3.8 19.8 1.0
CB G:PHE888 3.8 24.0 1.0
C G:PHE888 3.8 24.2 1.0
C G:ASP854 3.9 24.7 1.0
N G:ASP854 4.3 24.9 1.0
CA G:PHE851 4.3 19.0 1.0
CA G:PHE888 4.5 21.0 1.0
N G:TYR852 4.5 22.2 1.0
CA G:ASP854 4.5 24.1 1.0
N G:TYR859 4.5 21.0 1.0
CA G:TYR852 4.5 24.8 1.0
C G:TYR852 4.6 25.2 1.0
O G:TYR852 4.6 25.3 1.0
CB G:ASP854 4.6 20.6 1.0
CA G:LEU858 4.6 20.5 1.0
N G:LEU858 4.7 21.7 1.0
N G:ASN889 4.7 24.2 1.0
CA G:VAL857 4.7 20.5 1.0
CB G:VAL857 4.7 23.7 1.0
N G:VAL857 4.8 19.4 1.0
O G:GLY885 4.9 27.0 1.0
N G:PRO855 4.9 27.2 1.0
CB G:ASN889 5.0 23.1 1.0

Reference:

S.Y.Park, G.S.Kim, H.J.Hwang, T.H.Nam, H.S.Park, J.Song, T.H.Jang, Y.C.Lee, J.S.Kim. Structural Basis of the Specific Interaction of Smrt Corepressor with Histone Deacetylase 4. Nucleic Acids Res. V. 46 11776 2018.
ISSN: ESSN 1362-4962
PubMed: 30321390
DOI: 10.1093/NAR/GKY926
Page generated: Mon Dec 14 00:16:10 2020

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