5GNK

Target information

RCSB PDB
5GNK
Title
Crystal structure of EGFR 696-988 T790M in complex with LXX-6-34
Method
X-RAY DIFFRACTION
Resolution
1.8
Classification
TRANSFERASE
Organism
Homo sapiens
Protein
Epidermal growth factor receptor (P00533)    Looking for covalent inhibitors of this target ?
Year
2016
Publication Title
Discovery of (R)-1-(3-(4-Amino-3-(3-chloro-4-(pyridin-2-ylmethoxy)phenyl)-1H-pyrazolo[3,4-d]pyrimidin-1-yl)piperidin-1-yl)prop-2-en-1-one (CHMFL-EGFR-202) as a Novel Irreversible EGFR Mutant Kinase Inhibitor with a Distinct Binding Mode.
Abstract

On the basis of Ibrutinib's core pharmacophore, which was moderately active to EGFR T790M mutant, we discovered novel epidermal growth factor receptor (EGFR) inhibitor compound 19 (CHMFL-EGFR-202), which potently inhibited EGFR primary mutants (L858R, del19) and drug-resistant mutant L858R/T790M. Compound 19 displayed a good selectivity profile among 468 kinases/mutants tested in the KINOMEscan assay (S score (1) = 0.02). In particular, it did not exhibit apparent activities against INSR and IGF1R kinases. The X-ray crystal structure revealed that this class of inhibitors formed a covalent bond with Cys797 in a distinct 'DFG-in-C-helix-out' inactive EGFR conformation. Compound 19 displayed strong antiproliferative effects against EGFR mutant-driven nonsmall cell lung cancer (NSCLC) cell lines such as H1975, PC9, HCC827, and H3255 but not the wild-type EGFR expressing cells. In the H1975 and PC9 cell-inoculated xenograft mouse models, compound 19 exhibited dose-dependent tumor growth suppression efficacy without obvious toxicity. Compound 19 might be a potential drug candidate for EGFR mutant-driven NSCLC.

External Link
RCSB PDB





Ligand information

HET
80U
Chain ID
A
HET Number
1001
Molecular Formula
C24H25ClN8O2
Structure
2D structure
IUPAC Name
1-[(3R)-3-[4-amino-3-[3-chloro-4-[(1-methylimidazol-2-yl)methoxy]phenyl]pyrazolo[3,4-d]pyrimidin-1-yl]-1-piperidyl]prop-2-en-1-one
InChI
InChI=1S/C24H25ClN8O2/c1-3-20(34)32-9-4-5-16(12-32)33-24-21(23(26)28-14-29-24)22(30-33)15-6-7-18(17(25)11-15)35-13-19-27-8-10-31(19)2/h3,6-8,10-11,14,16H,1,4-5,9,12-13H2,2H3,(H2,26,28,29)/t16-/m1/s1
InChI Key
IDPFQFBOJCHECD-MRXNPFEDSA-N
Canonical SMILES
Cn1ccnc1COc2ccc(cc2Cl)-c(c(c34)c(N)ncn4)nn3[C@@H]5CCCN(C5)C(=O)C=C
Bioactivity data
CI003725

Covalent Binding

Warhead
Michael Acceptor
Reaction Mechanism
Michael Addition
Residue
CYS : 797
Residue Chain
A
Interactions
Pharmacophore Model