Zinc in PDB 7p2u: Crystal Structure of Schistosoma Mansoni HDAC8 in Complex with A 3- Chlorophenyl-Spiroindoline Capped Hydroxamate-Based Inhibitor, Bound to A Novel Site

Protein crystallography data

The structure of Crystal Structure of Schistosoma Mansoni HDAC8 in Complex with A 3- Chlorophenyl-Spiroindoline Capped Hydroxamate-Based Inhibitor, Bound to A Novel Site, PDB code: 7p2u was solved by F.Saccoccia, S.Gemma, G.Campiani, G.Ruberti, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.63 / 1.80
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 70.369, 70.369, 186.346, 90, 90, 90
R / Rfree (%) 17.9 / 21.3

Other elements in 7p2u:

The structure of Crystal Structure of Schistosoma Mansoni HDAC8 in Complex with A 3- Chlorophenyl-Spiroindoline Capped Hydroxamate-Based Inhibitor, Bound to A Novel Site also contains other interesting chemical elements:

Potassium (K) 3 atoms
Chlorine (Cl) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Schistosoma Mansoni HDAC8 in Complex with A 3- Chlorophenyl-Spiroindoline Capped Hydroxamate-Based Inhibitor, Bound to A Novel Site (pdb code 7p2u). 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 Schistosoma Mansoni HDAC8 in Complex with A 3- Chlorophenyl-Spiroindoline Capped Hydroxamate-Based Inhibitor, Bound to A Novel Site, PDB code: 7p2u:

Zinc binding site 1 out of 1 in 7p2u

Go back to Zinc Binding Sites List in 7p2u
Zinc binding site 1 out of 1 in the Crystal Structure of Schistosoma Mansoni HDAC8 in Complex with A 3- Chlorophenyl-Spiroindoline Capped Hydroxamate-Based Inhibitor, Bound to A Novel Site


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 Schistosoma Mansoni HDAC8 in Complex with A 3- Chlorophenyl-Spiroindoline Capped Hydroxamate-Based Inhibitor, Bound to A Novel Site within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:30.7
occ:1.00
OD1 A:ASP186 1.9 26.3 1.0
OD2 A:ASP285 2.0 30.4 1.0
O3 A:TLA506 2.0 42.5 0.9
ND1 A:HIS188 2.0 31.4 1.0
O4 A:TLA506 2.4 33.4 0.9
CG A:ASP186 2.7 30.1 1.0
CE1 A:HIS188 2.9 35.8 1.0
CG A:ASP285 2.9 28.2 1.0
OD2 A:ASP186 3.0 28.5 1.0
C3 A:TLA506 3.1 57.4 0.9
C4 A:TLA506 3.1 46.5 0.9
CG A:HIS188 3.2 32.7 1.0
OD1 A:ASP285 3.3 29.5 1.0
CB A:HIS188 3.6 29.3 1.0
O2 A:TLA506 3.6 63.7 0.9
N A:HIS188 3.8 31.2 1.0
C2 A:TLA506 3.9 55.8 0.9
CA A:GLY339 4.0 30.3 1.0
NE2 A:HIS188 4.1 33.5 1.0
CB A:ASP186 4.1 28.3 1.0
O41 A:TLA506 4.2 45.6 0.9
CD2 A:HIS188 4.2 33.6 1.0
CB A:ASP285 4.3 28.8 1.0
N A:LEU187 4.3 27.6 1.0
CA A:HIS188 4.4 30.3 1.0
CB A:LEU187 4.4 29.6 1.0
OH A:TYR341 4.4 42.8 1.0
N A:GLY339 4.4 30.2 1.0
NE2 A:HIS141 4.5 30.3 1.0
CE2 A:TYR341 4.6 35.6 1.0
C1 A:TLA506 4.7 67.7 0.9
C A:LEU187 4.7 30.6 1.0
CA A:LEU187 4.7 28.4 1.0
NE2 A:HIS142 4.9 29.3 1.0
O1 A:TLA506 4.9 68.8 0.9
C A:ASP186 4.9 27.2 1.0
CE1 A:HIS141 4.9 30.6 1.0
CA A:ASP186 4.9 28.4 1.0

Reference:

F.Saccoccia, L.Pozzetti, R.Gimmelli, S.Butini, A.Guidi, G.Papoff, M.Giannaccari, S.Brogi, V.Scognamiglio, S.Gemma, G.Ruberti, G.Campiani. Crystal Structures of Schistosoma Mansoni Histone Deacetylase 8 Reveal A Novel Binding Site For Allosteric Inhibitors. J.Biol.Chem. V. 298 02375 2022.
ISSN: ESSN 1083-351X
PubMed: 35970392
DOI: 10.1016/J.JBC.2022.102375
Page generated: Sat Apr 8 01:13:20 2023

Last articles

Cd in 4CZQ
Cd in 4CPK
Cd in 4CL3
Cd in 4CVS
Cd in 4COG
Cd in 4CIA
Cd in 4CJN
Cd in 4CIB
Cd in 4BXN
Cd in 4C1K
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy