Substituted 2-Naphthamadine inhibitors of Urokinase

Experimental Data Snapshot

  • Resolution: 2.02 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.270 
  • R-Value Observed: 0.270 

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Ligand Structure Quality Assessment 

This is version 1.2 of the entry. See complete history


Naphthamidine urokinase plasminogen activator inhibitors with improved pharmacokinetic properties.

Bruncko, M.McClellan, W.J.Wendt, M.D.Sauer, D.R.Geyer, A.Dalton, C.R.Kaminski, M.A.Weitzberg, M.Gong, J.Dellaria, J.F.Mantei, R.Zhao, X.Nienaber, V.L.Stewart, K.Klinghofer, V.Bouska, J.Rockway, T.W.Giranda, V.L.

(2005) Bioorg Med Chem Lett 15: 93-98

  • DOI: https://doi.org/10.1016/j.bmcl.2004.10.026
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    A series of non-amide-linked 6-substituted-2-naphthamidine urokinase plasminogen activator (uPA) inhibitors are described. These compounds possess excellent binding activities and selectivities with significantly improved pharmacokinetic profiles versus previously described amide-linked inhibitors.

  • Organizational Affiliation

    Cancer Research, Global Pharmaceutical R&D, Abbott Laboratories, 100 Abbott Park Road, Abbott Park, IL 60064-6101, USA. milan.bruncko@abbott.com

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Urokinase-type plasminogen activator245Homo sapiensMutation(s): 0 
Gene Names: PLAU
UniProt & NIH Common Fund Data Resources
Find proteins for P00749 (Homo sapiens)
Explore P00749 
Go to UniProtKB:  P00749
PHAROS:  P00749
GTEx:  ENSG00000122861 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP00749
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on 745

Download Ideal Coordinates CCD File 
C20 H18 N2
Binding Affinity Annotations 
IDSourceBinding Affinity
745 PDBBind:  1U6Q Ki: 1310 (nM) from 1 assay(s)
BindingDB:  1U6Q Ki: min: 1259, max: 1310 (nM) from 2 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 2.02 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.270 
  • R-Value Observed: 0.270 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 55.16α = 90
b = 53β = 90
c = 82.3γ = 90

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-10-19
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance