5AJX

Human PFKFB3 in complex with an indole inhibitor 3


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.58 Å
  • R-Value Free: 0.206 
  • R-Value Work: 0.198 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure-Based Design of Potent and Selective Inhibitors of the Metabolic Kinase Pfkfb3.

Boyd, S.Brookfield, J.L.Critchlow, S.E.Cumming, I.A.Curtis, N.J.Debreczeni, J.Degorce, S.L.Donald, C.Evans, N.J.Groombridge, S.Hopcroft, P.Jones, N.P.Kettle, J.G.Lamont, S.Lewis, H.J.Macfaull, P.Mcloughlin, S.B.Rigoreau, L.J.M.Smith, J.M.St-Gallay, S.Stock, J.K.Turnbull, A.P.Wheatley, E.R.Winter, J.Wingfield, J.

(2015) J.Med.Chem. 58: 3611

  • DOI: 10.1021/acs.jmedchem.5b00352
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A weak screening hit with suboptimal physicochemical properties was optimized against PFKFB3 kinase using critical structure-guided insights. The resulting compounds demonstrated high selectivity over related PFKFB isoforms and modulation of the targ ...

    A weak screening hit with suboptimal physicochemical properties was optimized against PFKFB3 kinase using critical structure-guided insights. The resulting compounds demonstrated high selectivity over related PFKFB isoforms and modulation of the target in a cellular context. A selected example demonstrated exposure in animals following oral dosing. Examples from this series may serve as useful probes to understand the emerging biology of this metabolic target.


    Organizational Affiliation

    †Oncology Innovative Medicines Unit, AstraZeneca, 35S47 Mereside, Alderley Park, Macclesfield, Cheshire SK10 4TG, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
6-PHOSPHOFRUCTO-2-KINASE/FRUCTOSE-2,6-BISPHOSPHATASE 3
A
520Homo sapiensMutation(s): 0 
Gene Names: PFKFB3
Find proteins for Q16875 (Homo sapiens)
Go to Gene View: PFKFB3
Go to UniProtKB:  Q16875
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download SDF File 
Download CCD File 
A
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
FD9
Query on FD9

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Download CCD File 
A
(2S)-N-[4-[3-cyano-1-[(3,5-dimethyl-1,2-oxazol-4-yl)methyl]indol-5-yl]oxyphenyl]pyrrolidine-2-carboxamide
C26 H25 N5 O3
NDIKFKQBWGMLCA-DEOSSOPVSA-N
 Ligand Interaction
PHS
Query on PHS

Download SDF File 
Download CCD File 
A
PHOSPHONIC ACID
H3 O3 P
ABLZXFCXXLZCGV-UHFFFAOYSA-N
 Ligand Interaction
F6P
Query on F6P

Download SDF File 
Download CCD File 
A
FRUCTOSE-6-PHOSPHATE
C6 H13 O9 P
BGWGXPAPYGQALX-ARQDHWQXSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
FD9IC50: 11 - >30000 nM (100) BINDINGDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.58 Å
  • R-Value Free: 0.206 
  • R-Value Work: 0.198 
  • Space Group: P 65 2 2
Unit Cell:
Length (Å)Angle (°)
a = 102.282α = 90.00
b = 102.282β = 90.00
c = 259.716γ = 120.00
Software Package:
Software NamePurpose
XDSdata reduction
SCALAdata scaling
BUSTERrefinement
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2015-04-22
    Type: Initial release
  • Version 1.1: 2015-05-13
    Type: Database references