7T6S

Structure of the human FPR2-Gi complex with compound C43


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Molecular recognition of formylpeptides and diverse agonists by the formylpeptide receptors FPR1 and FPR2.

Zhuang, Y.Wang, L.Guo, J.Sun, D.Wang, Y.Liu, W.Xu, H.E.Zhang, C.

(2022) Nat Commun 13: 1054-1054

  • DOI: https://doi.org/10.1038/s41467-022-28586-0
  • Primary Citation of Related Structures:  
    7T6S, 7T6T, 7T6U, 7T6V

  • PubMed Abstract: 

    The formylpeptide receptors (FPRs) mediate pattern recognition of formylated peptides derived from invading pathogens or mitochondria from dead host cells. They can also sense other structurally distinct native peptides and even lipid mediators to either promote or resolve inflammation. Pharmacological targeting of FPRs represents a novel therapeutic approach in treating inflammatory diseases. However, the molecular mechanisms underlying FPR ligand recognition are elusive. We report cryo-EM structures of G i -coupled FPR1 and FPR2 bound to a formylpeptide and G i -coupled FPR2 bound to two synthetic peptide and small-molecule agonists. Together with mutagenesis data, our structures reveal the molecular mechanism of formylpeptide recognition by FPRs and structural variations of FPR1 and FPR2 leading to their different ligand preferences. Structural analysis also suggests that diverse FPR agonists sample a conserved activation chamber at the bottom of ligand-binding pockets to activate FPRs. Our results provide a basis for rational drug design on FPRs.


  • Organizational Affiliation

    The CAS Key Laboratory of Receptor Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, 201203, Shanghai, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(i) subunit alpha-1353Homo sapiensMutation(s): 0 
Gene Names: GNAI1
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P63096 (Homo sapiens)
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PHAROS:  P63096
GTEx:  ENSG00000127955 
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UniProt GroupP63096
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1353RattusMutation(s): 0 
Gene Names: Gnb1
UniProt
Find proteins for P54311 (Rattus norvegicus)
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UniProt GroupP54311
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-267Bos taurusMutation(s): 0 
Gene Names: GNG2
Membrane Entity: Yes 
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UniProt GroupP63212
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
scFv16D [auth E]247RattusMutation(s): 0 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
N-formyl peptide receptor 2E [auth R]390Homo sapiensMutation(s): 0 
Gene Names: FPR2FPRH1FPRL1LXA4R
Membrane Entity: Yes 
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Find proteins for P25090 (Homo sapiens)
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PHAROS:  P25090
GTEx:  ENSG00000171049 
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UniProt GroupP25090
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
FUI (Subject of Investigation/LOI)
Query on FUI

Download Ideal Coordinates CCD File 
F [auth R]N-(4-chlorophenyl)-N'-[1-methyl-3-oxo-2-phenyl-5-(propan-2-yl)-2,3-dihydro-1H-pyrazol-4-yl]urea
C20 H21 Cl N4 O2
PAEBEUZTAPIOIO-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Released Date: 2022-03-30 
  • Deposition Author(s): Zhuang, Y.W.

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR35GM128641

Revision History  (Full details and data files)

  • Version 1.0: 2022-03-30
    Type: Initial release
  • Version 1.1: 2022-10-19
    Changes: Database references, Structure summary