PDBsum entry 6t2h

Hydrolase

PDB id: 6t2h

Contents

Protein chain

354 a.a.

Ligands

DMS ×2

SO4 ×7

EDO ×13

NAG

M9N

Waters ×109

PDB id:

6t2h

Name:

Hydrolase

Title:

Furano[2,3-d]prymidine amides as notum inhibitors

Structure:

Palmitoleoyl-protein carboxylesterase notum. Chain: a. Synonym: hnotum. Engineered: yes

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: notum, ok/sw-cl.30. Expressed in: homo sapiens. Expression_system_taxid: 9606. Expression_system_cell_line: hek293s gnti-

Resolution:

1.41Å R-factor: 0.178 R-free: 0.198

Authors:

Y.Zhao,E.Y.Jones

Key ref:

B.N.Atkinson et al. (2020). Scaffold-hopping identifies furano[2,3-d]pyrimidine amides as potent Notum inhibitors. Bioorg Med Chem Lett, 30, 126751. PubMed id: 31862412 DOI: 10.1016/j.bmcl.2019.126751

Date:

08-Oct-19 Release date: 01-Jan-20

Protein chain

Q6P988  (NOTUM_HUMAN) -  Palmitoleoyl-protein carboxylesterase NOTUM from Homo sapiens

Seq: 496 a.a.

Struc: 354 a.a.*

* PDB and UniProt seqs differ at 1 residue position (black cross)

Enzyme reactions

• Enzyme class: E.C.3.1.1.98 - [Wnt protein] O-palmitoleoyl-L-serine hydrolase.
• Reaction: [Wnt protein]-O-(9Z)-hexadecenoyl-L-serine + H2O = [Wnt protein]-L-serine + (9Z)-hexadecenoate + H⁺

DOI no: 10.1016/j.bmcl.2019.126751

Bioorg Med Chem Lett 30:126751 (2020)

PubMed id: 31862412

Scaffold-hopping identifies furano[2,3-d]pyrimidine amides as potent Notum inhibitors.

B.N.Atkinson, D.Steadman, W.Mahy, Y.Zhao, J.Sipthorp, E.D.Bayle, F.Svensson, G.Papageorgiou, F.Jeganathan, S.Frew, A.Monaghan, M.Bictash, E.Y.Jones, P.V.Fish.

ABSTRACT

The carboxylesterase Notum is a key negative regulator of the Wnt signaling pathway by mediating the depalmitoleoylation of Wnt proteins. Our objective was to discover potent small molecule inhibitors of Notum suitable for exploring the regulation of Wnt signaling in the central nervous system. Scaffold-hopping from thienopyrimidine acids 1 and 2, supported by X-ray structure determination, identified 3-methylimidazolin-4-one amides 20-24 as potent inhibitors of Notum with activity across three orthogonal assay formats (biochemical, extra-cellular, occupancy). A preferred example 24 demonstrated good stability in mouse microsomes and plasma, and cell permeability in the MDCK-MDR1 assay albeit with modest P-gp mediated efflux. Pharmacokinetic studies with 24 were performed in vivo in mouse with single oral administration of 24 showing good plasma exposure and reasonable CNS penetration. We propose that 24 is a new chemical tool suitable for cellular studies to explore the fundamental biology of Notum.