7UMO | pdb_00007umo

Structure of Unc119-inhibitor complex.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 
    0.242 (Depositor), 0.242 (DCC) 
  • R-Value Work: 
    0.197 (Depositor), 0.196 (DCC) 
  • R-Value Observed: 
    0.199 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 7UMO

Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history

Literature

Insulin sensitization by small molecules enhancing GLUT4 translocation.

Yin, T.C.Van Vranken, J.G.Srivastava, D.Mittal, A.Buscaglia, P.Moore, A.E.Verdinez, J.A.Graham, A.E.Walsh, S.A.Acevedo, M.A.Kerns, R.J.Artemyev, N.O.Gygi, S.P.Sebag, J.A.

(2023) Cell Chem Biol 30: 933-942.e6

  • DOI: https://doi.org/10.1016/j.chembiol.2023.06.012
  • Primary Citation Related Structures: 
    7UMO

  • PubMed Abstract: 

    Insulin resistance (IR) is the root cause of type II diabetes, yet no safe treatment is available to address it. Using a high throughput compatible assay that measures real-time translocation of the glucose transporter glucose transporter 4 (GLUT4), we identified small molecules that potentiate insulin action. In vivo, these insulin sensitizers improve insulin-stimulated GLUT4 translocation, glucose tolerance, and glucose uptake in a model of IR. Using proteomic and CRISPR-based approaches, we identified the targets of those compounds as Unc119 proteins and solved the structure of Unc119 bound to the insulin sensitizer. This study identifies compounds that have the potential to be developed into diabetes treatment and establishes Unc119 proteins as targets for improving insulin sensitivity.


  • Organizational Affiliation
    • Department of Molecular Physiology and Biophysics, University of Iowa, Iowa City, IA 52242, USA; Fraternal Order of Eagle Diabetes Research Center, University of Iowa, Iowa City, IA 52242, USA; Pappajohn Biomedical Institute, University of Iowa, Iowa City, IA 52242, USA.

Macromolecule Content 

  • Total Structure Weight: 140.38 kDa 
  • Atom Count: 8,657 
  • Modeled Residue Count: 996 
  • Deposited Residue Count: 1,176 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Protein unc-119 homolog A
A, B, C, D, E
A, B, C, D, E, F
196Homo sapiensMutation(s): 0 
Gene Names: UNC119RG4
UniProt & NIH Common Fund Data Resources
Find proteins for Q13432 (Homo sapiens)
Explore Q13432 
Go to UniProtKB:  Q13432
PHAROS:  Q13432
GTEx:  ENSG00000109103 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13432
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NT6
(Subject of Investigation/LOI)

Query on NT6



Download:Ideal Coordinates CCD File
G [auth A]
J [auth B]
K [auth C]
L [auth D]
M [auth E]
G [auth A],
J [auth B],
K [auth C],
L [auth D],
M [auth E],
O [auth F]
(3s,5s,7s)-N-(4,5-dichloropyridin-2-yl)adamantane-1-carboxamide
C16 H18 Cl2 N2 O
RBBBMHRIAFVEFR-XMEMTASGSA-N
GOL

Query on GOL



Download:Ideal Coordinates CCD File
H [auth A],
I [auth A],
N [auth E]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free:  0.242 (Depositor), 0.242 (DCC) 
  • R-Value Work:  0.197 (Depositor), 0.196 (DCC) 
  • R-Value Observed: 0.199 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 75.82α = 90
b = 78.13β = 90
c = 187.07γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other privateUnited States--

Revision History  (Full details and data files)

  • Version 1.0: 2023-07-26
    Type: Initial release
  • Version 1.1: 2023-08-30
    Changes: Data collection, Database references
  • Version 1.2: 2026-03-04
    Changes: Refinement description, Structure summary