Allosteric Inhibition of Protein Tyrosine Phosphatase 1B

Experimental Data Snapshot

  • Resolution: 2.70 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.228 
  • R-Value Observed: 0.229 

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This is version 1.4 of the entry. See complete history


Allosteric inhibition of protein tyrosine phosphatase 1B

Wiesmann, C.Barr, K.J.Kung, J.Zhu, J.Erlanson, D.A.Shen, W.Fahr, B.J.Zhong, M.Taylor, L.Randal, M.McDowell, R.S.Hansen, S.K.

(2004) Nat Struct Mol Biol 11: 730-737

  • DOI: https://doi.org/10.1038/nsmb803
  • Primary Citation of Related Structures:  
    1T48, 1T49, 1T4J

  • PubMed Abstract: 

    Obesity and type II diabetes are closely linked metabolic syndromes that afflict >100 million people worldwide. Although protein tyrosine phosphatase 1B (PTP1B) has emerged as a promising target for the treatment of both syndromes, the discovery of pharmaceutically acceptable inhibitors that bind at the active site remains a substantial challenge. Here we describe the discovery of an allosteric site in PTP1B. Crystal structures of PTP1B in complex with allosteric inhibitors reveal a novel site located approximately 20 A from the catalytic site. We show that allosteric inhibitors prevent formation of the active form of the enzyme by blocking mobility of the catalytic loop, thereby exploiting a general mechanism used by tyrosine phosphatases. Notably, these inhibitors exhibit selectivity for PTP1B and enhance insulin signaling in cells. Allosteric inhibition is a promising strategy for targeting PTP1B and constitutes a mechanism that may be applicable to other tyrosine phosphatases.

  • Organizational Affiliation

    Sunesis Pharmaceuticals, 341 Oyster Point Boulevard, South San Francisco, California 94080, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Protein-tyrosine phosphatase, non-receptor type 1298Homo sapiensMutation(s): 0 
Gene Names: PTPN1PTP1B
UniProt & NIH Common Fund Data Resources
Find proteins for P18031 (Homo sapiens)
Explore P18031 
Go to UniProtKB:  P18031
PHAROS:  P18031
GTEx:  ENSG00000196396 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP18031
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on FRJ

Download Ideal Coordinates CCD File 
C26 H19 Br2 N3 O7 S3
Binding Affinity Annotations 
IDSourceBinding Affinity
FRJ BindingDB:  1T4J IC50: min: 2000, max: 8000 (nM) from 3 assay(s)
PDBBind:  1T4J IC50: 8000 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 2.70 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.228 
  • R-Value Observed: 0.229 
  • Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 88.544α = 90
b = 88.544β = 90
c = 104.828γ = 120
Software Package:
Software NamePurpose
d*TREKdata scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-07-20
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-10-11
    Changes: Refinement description
  • Version 1.4: 2024-02-14
    Changes: Data collection, Database references, Derived calculations