8WVU | pdb_00008wvu

Cryo-EM structure of LGR4 in complex with Rspo1 and RNF43

• PDB DOI: https://doi.org/10.2210/pdb8WVU/pdb
• EM Map EMD-37869: EMDB EMDataResource

• Classification: STRUCTURAL PROTEIN
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 
• Membrane Protein: Yes  PDBTM


• Deposited: 2023-10-24 Released: 2024-10-30 
• Deposition Author(s): Chang, Z., Lin, C.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.61 Å
• Aggregation State: CELL 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of LGR4 in complex with Rspo1 and RNF43

Lin, C., Chang, Z.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 123.68 kDa 
• Atom Count: 7,427 
• Modeled Residue Count: 972 
• Deposited Residue Count: 1,119 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Leucine-rich repeat-containing G-protein coupled receptor 4	A	832	Homo sapiens	Mutation(s): 0  Gene Names: LGR4 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BXB1 (Homo sapiens) Explore Q9BXB1  Go to UniProtKB:  Q9BXB1
PHAROS:  Q9BXB1 GTEx:  ENSG00000205213

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
R-spondin-1	B	121	Homo sapiens	Mutation(s): 0  Gene Names: RSPO1 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q2MKA7 (Homo sapiens) Explore Q2MKA7  Go to UniProtKB:  Q2MKA7
PHAROS:  Q2MKA7 GTEx:  ENSG00000169218

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
E3 ubiquitin-protein ligase RNF43	C	166	Homo sapiens	Mutation(s): 0  Gene Names: RNF43 EC: 2.3.2.27 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q68DV7 (Homo sapiens) Explore Q68DV7  Go to UniProtKB:  Q68DV7
PHAROS:  Q68DV7 GTEx:  ENSG00000108375

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.61 Å
• Aggregation State: CELL 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-10-30 
Deposition Author(s): Chang, Z., Lin, C.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-10-30
  Type: Initial release
  
• Version 1.1: 2024-11-20
  Changes: Data collection
• Version 1.2: 2025-07-02
  Changes: Data collection