7OIL | pdb_00007oil

mPI3Kd in complex with compound 58


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 
    0.289 (Depositor), 0.293 (DCC) 
  • R-Value Work: 
    0.239 (Depositor), 0.244 (DCC) 

Starting Model: other
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 7OIL

Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history

Literature

Discovery of AZD8154, a Dual PI3K gamma delta Inhibitor for the Treatment of Asthma.

Perry, M.W.D.Bjorhall, K.Bold, P.Brulls, M.Borjesson, U.Carlsson, J.Chang, H.A.Chen, Y.Eriksson, A.Fihn, B.M.Fransson, R.Fredlund, L.Ge, H.Huang, H.Karabelas, K.Lamm Bergstrom, E.Lever, S.Lindmark, H.Mogemark, M.Nikitidis, A.Palmgren, A.P.Pemberton, N.Petersen, J.Rodrigo Blomqvist, M.Smith, R.W.Thomas, M.J.Ullah, V.Tyrchan, C.Wennberg, T.Westin Eriksson, A.Yang, W.Zhao, S.Oster, L.

(2021) J Med Chem 64: 8053-8075

  • DOI: https://doi.org/10.1021/acs.jmedchem.1c00434
  • Primary Citation Related Structures: 
    7OI4, 7OIJ, 7OIL, 7OIS

  • PubMed Abstract: 

    Starting from our previously described PI3Kγ inhibitors, we describe the exploration of structure-activity relationships that led to the discovery of highly potent dual PI3Kγδ inhibitors. We explored changes in two positions of the molecules, including macrocyclization, but ultimately identified a simpler series with the desired potency profile that had suitable physicochemical properties for inhalation. We were able to demonstrate efficacy in a rat ovalbumin challenge model of allergic asthma and in cells derived from asthmatic patients. The optimized compound, AZD8154, has a long duration of action in the lung and low systemic exposure coupled with high selectivity against off-targets.


  • Organizational Affiliation
    • Medicinal Chemistry, Research and Early Development, Respiratory and Immunology (R&I), BioPharmaceuticals R&D, AstraZeneca, Gothenburg SE-431 83, Sweden.

Macromolecule Content 

  • Total Structure Weight: 125.41 kDa 
  • Atom Count: 6,958 
  • Modeled Residue Count: 827 
  • Deposited Residue Count: 1,084 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Phosphatidylinositol 4,5-bisphosphate 3-kinase catalytic subunit delta isoformA [auth AAA]1,084Mus musculusMutation(s): 0 
Gene Names: Pik3cd
EC: 2.7.1.137 (PDB Primary Data), 2.7.1.153 (PDB Primary Data)
UniProt
Find proteins for O35904 (Mus musculus)
Explore O35904 
Go to UniProtKB:  O35904
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO35904
Sequence Annotations
Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
VEN
(Subject of Investigation/LOI)

Query on VEN



Download:Ideal Coordinates CCD File
C [auth AAA]2-[(1S)-1-cyclopropylethyl]-5-[4-methyl-2-[[6-(2-oxidanylidenepyrrolidin-1-yl)pyridin-2-yl]amino]-1,3-thiazol-5-yl]-7-methylsulfonyl-3H-isoindol-1-one
C27 H29 N5 O4 S2
XOMFDZJQLSPGGV-INIZCTEOSA-N
NA

Query on NA



Download:Ideal Coordinates CCD File
B [auth AAA]SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free:  0.289 (Depositor), 0.293 (DCC) 
  • R-Value Work:  0.239 (Depositor), 0.244 (DCC) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 142.01α = 90
b = 64.75β = 103.39
c = 116.38γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
Aimlessdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Deposition Data

  • Released Date: 2021-07-14 
  • Deposition Author(s): Petersen, J.

Revision History  (Full details and data files)

  • Version 1.0: 2021-07-14
    Type: Initial release
  • Version 1.1: 2021-09-29
    Changes: Advisory, Database references, Structure summary
  • Version 1.2: 2024-05-01
    Changes: Data collection, Derived calculations, Refinement description