5W96 | pdb_00005w96

Solution structure of phage derived peptide inhibitor of frizzled 7 receptor


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report

Validation slider image for 5W96

This is version 1.4 of the entry. See complete history

Literature

A selective peptide inhibitor of Frizzled 7 receptors disrupts intestinal stem cells.

Nile, A.H.de Sousa E Melo, F.Mukund, S.Piskol, R.Hansen, S.Zhou, L.Zhang, Y.Fu, Y.Gogol, E.B.Komuves, L.G.Modrusan, Z.Angers, S.Franke, Y.Koth, C.Fairbrother, W.J.Wang, W.de Sauvage, F.J.Hannoush, R.N.

(2018) Nat Chem Biol 14: 582-590

  • DOI: https://doi.org/10.1038/s41589-018-0035-2
  • Primary Citation Related Structures: 
    5W96, 5WBS

  • PubMed Abstract: 

    Regeneration of the adult intestinal epithelium is mediated by a pool of cycling stem cells, which are located at the base of the crypt, that express leucine-rich-repeat-containing G-protein-coupled receptor 5 (LGR5). The Frizzled (FZD) 7 receptor (FZD7) is enriched in LGR5 + intestinal stem cells and plays a critical role in their self-renewal. Yet, drug discovery approaches and structural bases for targeting specific FZD isoforms remain poorly defined. FZD proteins interact with Wnt signaling proteins via, in part, a lipid-binding groove on the extracellular cysteine-rich domain (CRD) of the FZD receptor. Here we report the identification of a potent peptide that selectively binds to the FZD7 CRD at a previously uncharacterized site and alters the conformation of the CRD and the architecture of its lipid-binding groove. Treatment with the FZD7-binding peptide impaired Wnt signaling in cultured cells and stem cell function in intestinal organoids. Together, our data illustrate that targeting the lipid-binding groove holds promise as an approach for achieving isoform-selective FZD receptor inhibition.


  • Organizational Affiliation
    • Department of Early Discovery Biochemistry, Genentech, South San Francisco, CA, USA.

Macromolecule Content 

  • Total Structure Weight: 3.51 kDa 
  • Atom Count: 246 
  • Modeled Residue Count: 28 
  • Deposited Residue Count: 28 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Fz7 binding peptide
A, B
14unidentifiedMutation(s): 0 

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report



Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2018-04-18
    Type: Initial release
  • Version 1.1: 2018-04-25
    Changes: Data collection, Database references
  • Version 1.2: 2018-05-30
    Changes: Data collection, Database references
  • Version 1.3: 2023-06-14
    Changes: Database references, Other
  • Version 1.4: 2024-11-06
    Changes: Data collection, Database references, Structure summary