8JHC | pdb_00008jhc

FZD3 in inactive state

• PDB DOI: https://doi.org/10.2210/pdb8JHC/pdb
• EM Map EMD-36262: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens, Escherichia coli, synthetic construct
• Expression System: Spodoptera frugiperda, Trichoplusia ni, Escherichia coli
• Mutation(s): No 
• Membrane Protein: Yes  PDBTMmpstruc


• Deposited: 2023-05-23 Released: 2024-01-17 
• Deposition Author(s): Xu, F., Zhang, Z.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

A framework for Frizzled-G protein coupling and implications to the PCP signaling pathways.

Zhang, Z., Lin, X., Wei, L., Wu, Y., Xu, L., Wu, L., Wei, X., Zhao, S., Zhu, X., Xu, F.

(2024) Cell Discov 10: 3-3

• PubMed: 38182578 
• DOI: https://doi.org/10.1038/s41421-023-00627-y
• Primary Citation Related Structures: 
  8J9N, 8J9O, 8JH7, 8JHB, 8JHC, 8JHI


• PubMed Abstract: 
  

  The ten Frizzled receptors (FZDs) are essential in Wnt signaling and play important roles in embryonic development and tumorigenesis. Among these, FZD6 is closely associated with lens development. Understanding FZD activation mechanism is key to unlock these emerging targets. Here we present the cryo-EM structures of FZD6 and FZD3 which are known to relay non-canonical planar cell polarity (PCP) signaling pathways as well as FZD1 in their G protein-coupled states and in the apo inactive states, respectively. Comparison of the three inactive/active pairs unveiled a shared activation framework among all ten FZDs. Mutagenesis along with imaging and functional analysis on the human lens epithelial tissues suggested potential crosstalk between the G-protein coupling of FZD6 and the PCP signaling pathways. Together, this study provides an integrated understanding of FZD structure and function, and lays the foundation for developing therapeutic modulators to activate or inhibit FZD signaling for a range of disorders including cancers and cataracts.

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Organizational Affiliation: 
• iHuman Institute, ShanghaiTech University, Shanghai, China.
School of Life Science and Technology, ShanghaiTech University, Shanghai, China.
Eye Institute and Department of Ophthalmology, Eye & ENT Hospital, Fudan University, Shanghai, China.
Eye Institute and Department of Ophthalmology, Eye & ENT Hospital, Fudan University, Shanghai, China. [e-mail].
iHuman Institute, ShanghaiTech University, Shanghai, China. [e-mail].
School of Life Science and Technology, ShanghaiTech University, Shanghai, China. [e-mail].
Shanghai Clinical Research and Trial Center, Shanghai, China. [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A1B1C1D1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 4-mer - A2B1C1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 137.94 kDa 
• Atom Count: 7,563 
• Modeled Residue Count: 986 
• Deposited Residue Count: 1,229 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Frizzled-3,Soluble cytochrome b562	A [auth R]	643	Homo sapiens, Escherichia coli	Mutation(s): 0  Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P0ABE7 (Escherichia coli) Explore P0ABE7  Go to UniProtKB:  P0ABE7
Find proteins for Q9NPG1 (Homo sapiens) Explore Q9NPG1  Go to UniProtKB:  Q9NPG1
PHAROS:  Q9NPG1 GTEx:  ENSG00000104290
UniProt Groups	P0ABE7Q9NPG1

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
anti-BRIL Fab Heavy chain	B [auth H]	240	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
anti-Fab Nanobody	C [auth K]	134	synthetic construct	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
anti-BRIL Fab Light chain	D [auth L]	212	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2024-01-17 
Deposition Author(s): Xu, F., Zhang, Z.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-01-17
  Type: Initial release
  
• Version 1.1: 2024-11-13
  Changes: Data collection, Structure summary