9KFI image
Deposition Date 2024-11-06
Release Date 2025-08-13
Last Version Date 2025-08-13
Entry Detail
PDB ID:
9KFI
Title:
Cryo-EM structure of the human relaxin family peptide receptor 3 in complex with relaxin-3 and G protein
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.91 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Relaxin-3 A chain
Gene (Uniprot):RLN3
Chain IDs:G (auth: A)
Chain Length:24
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Relaxin-3 B chain
Gene (Uniprot):RLN3
Chain IDs:F (auth: B)
Chain Length:22
Number of Molecules:1
Biological Source:Homo sapiens
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Soluble cytochrome b562,Relaxin-3 receptor 1,LgBiT
Gene (Uniprot):cybC, RXFP3
Mutagens:M29W, H124I, R128L
Chain IDs:A (auth: C)
Chain Length:773
Number of Molecules:1
Biological Source:Escherichia coli, Homo sapiens, synthetic construct
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2
Gene (Uniprot):GNG2
Chain IDs:B (auth: G)
Chain Length:55
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Guanine nucleotide-binding protein G(i) subunit alpha-2
Gene (Uniprot):GNAI2
Mutagens:S47N,G204A,E246A,A327S
Chain IDs:C (auth: I)
Chain Length:355
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:scFv16
Chain IDs:D (auth: S)
Chain Length:248
Number of Molecules:1
Biological Source:synthetic construct
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1
Gene (Uniprot):GNB1
Chain IDs:E (auth: T)
Chain Length:338
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Molecular mechanism underlying non-discriminatory recognition of relaxin-3 by RXFP3 and RXFP4.
Commun Biol 8 794 794 (2025)
PMID: 40410443 DOI: 10.1038/s42003-025-08220-7

Abstact

The human relaxin family peptide receptors RXFP3 and RXFP4 play important physiological roles through interactions with endogenous hormones, relaxin-3 and insulin-like peptide 5 (INSL5). They are implicated in certain neurological and metabolic disorders. While INSL5 only activates RXFP4, relaxin-3 is recognized by both receptors. Here, we report the cryo-electron microscopy structures of RXFP3-Gi complexes bound by relaxin-3 or a small-molecule dual agonist (compound 4), and relaxin-3 in complex with RXFP4-Gi, with global resolutions of 2.91 Å, 2.95 Å, and 3.10 Å, respectively. It is found that relaxin-3 adopts a conserved binding conformation within the transmembrane domain (TMD) bundle of RXFP3 and RXFP4, where the C-terminal tip residues of its B chain, R26 and W27, make extensive contacts with conserved receptor residues, thereby activating RXFP3 and RXFP4. Compound 4 mimics these key interactions by binding to both receptors. In contrast, the C-terminal residues composition and TMD-binding angle of INSL5 in RXFP4 differ significantly from that of relaxin-3, ensuring its selectivity for RXFP4. These findings deepen our understanding about the structural basis of ligand recognition and selectivity in this G protein-coupled receptor subfamily.

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Primary Citation of related structures