5UPF

Crystal structure of human NAMPT with isoindoline urea inhibitor compound 53


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.69 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.215 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

SAR and characterization of non-substrate isoindoline urea inhibitors of nicotinamide phosphoribosyltransferase (NAMPT).

Curtin, M.L.Heyman, H.R.Clark, R.F.Sorensen, B.K.Doherty, G.A.Hansen, T.M.Frey, R.R.Sarris, K.A.Aguirre, A.L.Shrestha, A.Tu, N.Woller, K.Pliushchev, M.A.Sweis, R.F.Cheng, M.Wilsbacher, J.L.Kovar, P.J.Guo, J.Cheng, D.Longenecker, K.L.Raich, D.Korepanova, A.V.Soni, N.B.Algire, M.A.Richardson, P.L.Marin, V.L.Badagnani, I.Vasudevan, A.Buchanan, F.G.Maag, D.Chiang, G.G.Tse, C.Michaelides, M.R.

(2017) Bioorg. Med. Chem. Lett. 27: 3317-3325

  • DOI: 10.1016/j.bmcl.2017.06.018
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Herein we disclose SAR studies that led to a series of isoindoline ureas which we recently reported were first-in-class, non-substrate nicotinamide phosphoribosyltransferase (NAMPT) inhibitors. Modification of the isoindoline and/or the terminal func ...

    Herein we disclose SAR studies that led to a series of isoindoline ureas which we recently reported were first-in-class, non-substrate nicotinamide phosphoribosyltransferase (NAMPT) inhibitors. Modification of the isoindoline and/or the terminal functionality of screening hit 5 provided inhibitors such as 52 and 58 with nanomolar antiproliferative activity and preclinical pharmacokinetics properties which enabled potent antitumor activity when dosed orally in mouse xenograft models. X-ray crystal structures of two inhibitors bound in the NAMPT active-site are discussed.


    Organizational Affiliation

    AbbVie Inc, 1 North Waukegan Rd., North Chicago, IL 60064, United States. Electronic address: mike.curtin@abbvie.com.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Nicotinamide phosphoribosyltransferase
A, B
499Homo sapiensMutation(s): 0 
Gene Names: NAMPT (PBEF, PBEF1)
EC: 2.4.2.12
Find proteins for P43490 (Homo sapiens)
Go to Gene View: NAMPT
Go to UniProtKB:  P43490
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
8HV
Query on 8HV

Download SDF File 
Download CCD File 
A, B
5-fluoro-N-{4-[1-(2-hydroxy-2-methylpropanoyl)piperidin-4-yl]phenyl}-2H-isoindole-2-carboxamide
C24 H26 F N3 O3
XZCZXZPDNUPSAB-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
8HVKi: 2.5 nM BINDINGMOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.69 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.215 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 61.104α = 90.00
b = 106.578β = 96.86
c = 83.337γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
BUSTERrefinement
Aimlessdata scaling
XDSdata reduction
2016data reduction
AutoPROCdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-06-28
    Type: Initial release
  • Version 1.1: 2017-07-19
    Type: Database references
  • Version 1.2: 2017-11-22
    Type: Refinement description
  • Version 1.3: 2018-03-21
    Type: Data collection