6PYR image
Entry Detail
PDB ID:
6PYR
Keywords:
TRANSFERASE/TRANSFERASE INHIBITOR
Title:
Human PI3Kdelta in complex with Compound 2-10 ((3S)-3-benzyl-3-methyl-5-[5-(2-methylpyrimidin-5-yl)pyrazolo[1,5-a]pyrimidin-3-yl]-1,3-dihydro-2H-indol-2-one)
Biological Source:
Source Organism:
Homo sapiens
Host Organism:
Spodoptera frugiperda
PDB Version:
Deposition Date:
2019-07-30
Release Date:
2019-08-28
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.21 Å
R-Value Free:
0.25
R-Value Work:
0.22
R-Value Observed:
0.22
Space Group:
P 21 21 21
6PYR validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Description:Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit delta isoform
Chain IDs:A
Chain Length:1018
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:O00329 Pfam ID:PF02192, PF00794, PF00792, PF00613, PF00454 EC:2.7.1.137
Protein Blast
Polymer Type:polypeptide(L)
Description:Phosphatidylinositol 3-kinase regulatory subunit alpha
Chain IDs:B
Chain Length:169
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P27986 Pfam ID:PF16454 EC:2.7.1.137
Ligand Molecules
P5J
Primary Citation
Design of selective PI3K delta inhibitors using an iterative scaffold-hopping workflow.
Bioorg.Med.Chem.Lett. 29 2575 2580 (2019)
PMID: 31416665 DOI: 10.1016/j.bmcl.2019.08.004

Abstact

PI3Kδ mediates key immune cell signaling pathways and is a target of interest for multiple indications in immunology and oncology. Here we report a structure-based scaffold-hopping strategy for the design of chemically diverse PI3Kδ inhibitors. Using this strategy, we identified several scaffolds that can be combined to generate new PI3Kδ inhibitors with high potency and isoform selectivity. In particular, an oxindole-based scaffold was found to impart exquisite selectivity when combined with several hinge binding motifs.

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Disease

Primary Citation of related structures
6PYR