4JVB image
Deposition Date 2013-03-25
Release Date 2013-05-22
Last Version Date 2023-09-20
Entry Detail
PDB ID:
4JVB
Title:
Crystal structure of PDE6D in complex with the inhibitor rac-2
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.75 Å
R-Value Free:
0.23
R-Value Work:
0.18
R-Value Observed:
0.19
Space Group:
P 32 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta
Gene (Uniprot):PDE6D
Chain IDs:A (auth: B)
Chain Length:152
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Small molecule inhibition of the KRAS PDEd interaction impairs oncogenic KRAS signalling
Nature 497 638 642 (2013)
PMID: 23698361 DOI: 10.1038/nature12205

Abstact

The KRAS oncogene product is considered a major target in anticancer drug discovery. However, direct interference with KRAS signalling has not yet led to clinically useful drugs. Correct localization and signalling by farnesylated KRAS is regulated by the prenyl-binding protein PDEδ, which sustains the spatial organization of KRAS by facilitating its diffusion in the cytoplasm. Here we report that interfering with binding of mammalian PDEδ to KRAS by means of small molecules provides a novel opportunity to suppress oncogenic RAS signalling by altering its localization to endomembranes. Biochemical screening and subsequent structure-based hit optimization yielded inhibitors of the KRAS-PDEδ interaction that selectively bind to the prenyl-binding pocket of PDEδ with nanomolar affinity, inhibit oncogenic RAS signalling and suppress in vitro and in vivo proliferation of human pancreatic ductal adenocarcinoma cells that are dependent on oncogenic KRAS. Our findings may inspire novel drug discovery efforts aimed at the development of drugs targeting oncogenic RAS.

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Primary Citation of related structures