5VF6

Crystal structure of single chain variable fragment (scFv45).


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.635 Å
  • R-Value Free: 0.196 
  • R-Value Work: 0.172 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Harnessing insulin- and leptin-induced oxidation of PTP1B for therapeutic development.

Krishnan, N.Bonham, C.A.Rus, I.A.Shrestha, O.K.Gauss, C.M.Haque, A.Tocilj, A.Joshua-Tor, L.Tonks, N.K.

(2018) Nat Commun 9: 283-283

  • DOI: 10.1038/s41467-017-02252-2

  • PubMed Abstract: 
  • The protein tyrosine phosphatase PTP1B is a major regulator of glucose homeostasis and energy metabolism, and a validated target for therapeutic intervention in diabetes and obesity. Nevertheless, it is a challenging target for inhibitor development. ...

    The protein tyrosine phosphatase PTP1B is a major regulator of glucose homeostasis and energy metabolism, and a validated target for therapeutic intervention in diabetes and obesity. Nevertheless, it is a challenging target for inhibitor development. Previously, we generated a recombinant antibody (scFv45) that recognizes selectively the oxidized, inactive conformation of PTP1B. Here, we provide a molecular basis for its interaction with reversibly oxidized PTP1B. Furthermore, we have identified a small molecule inhibitor that mimics the effects of scFv45. Our data provide proof-of-concept that stabilization of PTP1B in an inactive, oxidized conformation by small molecules can promote insulin and leptin signaling. This work illustrates a novel paradigm for inhibiting the signaling function of PTP1B that may be exploited for therapeutic intervention in diabetes and obesity.


    Organizational Affiliation

    W. M. Keck Structural Biology Laboratory, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA.,Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA. tonks@cshl.edu.,Howard Hughes Medical Institute, Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA.,Graduate Program in Genetics and Medical Scientist Training Program, Stony Brook University, 100 Nicolls Road, Stony Brook, NY, 11794, USA.,Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY, 11724, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
single chain variable fragment
A
250N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.635 Å
  • R-Value Free: 0.196 
  • R-Value Work: 0.172 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 97.232α = 90.00
b = 97.232β = 90.00
c = 61.260γ = 120.00
Software Package:
Software NamePurpose
PHASERphasing
XDSdata scaling
PHENIXrefinement
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM55989

Revision History 

  • Version 1.0: 2018-01-31
    Type: Initial release
  • Version 1.1: 2020-01-01
    Type: Author supporting evidence