2JLE

Novel indazole nnrtis created using molecular template hybridization based on crystallographic overlays

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.351 
  • R-Value Work: 0.261 
  • R-Value Observed: 0.267 

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This is version 1.2 of the entry. See complete history. 


Literature

Novel Indazole Non-Nucleoside Reverse Transcriptase Inhibitors Using Molecular Hybridization Based on Crystallographic Overlays.

Jones, L.H., Allan, G., Barba, O., Burt, C., Corbau, R., Dupont, T., Knochel, T., Irving, S., Middleton, D.S., Mowbray, C.E., Perros, M., Ringrose, H., Swain, N.A., Webster, R., Westby, M., Phillips, C.

(2009) J Med Chem 52: 1219

  • DOI: https://doi.org/10.1021/jm801322h
  • Primary Citation of Related Structures:  
    2JLE

  • PubMed Abstract: 

    • A major problem associated with non-nucleoside reverse transcriptase inhibitors (NNRTIs) for the treatment of HIV is their lack of resilience to mutations in the reverse transcriptase (RT) enzyme. Using structural overlays of the known inhibitors efavirenz and capravirine complexed in RT as a starting point, and structure-based drug design techniques, we have created a novel series of indazole NNRTIs that possess excellent metabolic stability and mutant resilience ...

    A major problem associated with non-nucleoside reverse transcriptase inhibitors (NNRTIs) for the treatment of HIV is their lack of resilience to mutations in the reverse transcriptase (RT) enzyme. Using structural overlays of the known inhibitors efavirenz and capravirine complexed in RT as a starting point, and structure-based drug design techniques, we have created a novel series of indazole NNRTIs that possess excellent metabolic stability and mutant resilience.

    Organizational Affiliation: 

    Discovery Chemistry, Sandwich Laboratories, Pfizer Global Research and Development, Ramsgate Road, Sandwich, Kent CT13 9NJ, United Kingdom. Lyn.Jones@pfizer.com



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
REVERSE TRANSCRIPTASE/RNASEH
A, B
566Human immunodeficiency virus 1Mutation(s): 0 
Gene Names: pol
UniProt
Find proteins for Q72547 (Human immunodeficiency virus 1)
Explore Q72547 
Go to UniProtKB:  Q72547
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ72547
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
I15
Query on I15
Download Ideal Coordinates CCD File 
C [auth A]5-[(5-fluoro-3-methyl-1H-indazol-4-yl)oxy]benzene-1,3-dicarbonitrile
C16 H9 F N4 O
JYAHFMKZJRVTDT-UHFFFAOYSA-N		 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
I15 PDBBind:  2JLE IC50: 384 (nM) from 1 assay(s)
BindingDB:  2JLE IC50: min: 50, max: 384 (nM) from 3 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.351 
  • R-Value Work: 0.261 
  • R-Value Observed: 0.267 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 117.2α = 90
b = 154.6β = 90
c = 155γ = 90
Software Package:
Software NamePurpose
BUSTER-TNTrefinement

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2009-08-04
    Type: Initial release
  • Version 1.1: 2011-05-07
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance