9BUB | pdb_00009bub

Human calcitonin Receptor in complex with Gs and cagrilintide in the bypass conformation


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural and dynamic features of cagrilintide binding to calcitonin and amylin receptors.

Cao, J.Belousoff, M.J.Johnson, R.M.Keov, P.Mariam, Z.Deganutti, G.Christopoulos, G.Hick, C.A.Reedtz-Runge, S.Glendorf, T.Ballarin-Gonzalez, B.Raun, K.Bayly-Jones, C.Wootten, D.Sexton, P.M.

(2025) Nat Commun 16: 3389-3389

  • DOI: https://doi.org/10.1038/s41467-025-58680-y
  • Primary Citation of Related Structures:  
    9BUB

  • PubMed Abstract: 

    Obesity is a major and increasingly prevalent chronic metabolic disease with numerous comorbidities. While recent incretin-based therapies have provided pharmaceutical inroads into treatment of obesity, there remains an ongoing need for additional medicines with distinct modes of action as independent or complementary therapeutics. Among the most promising candidates, supported by phase 1 and 2 clinical trials, is cagrilintide, a long-acting amylin and calcitonin receptor agonist. As such, understanding how cagrilintide functionally engages target receptors is critical for future development of this target class. Here, we determine structures of cagrilintide bound to Gs-coupled, active, amylin receptors (AMY 1 R, AMY 2 R, AMY 3 R) and calcitonin receptor (CTR) and compare cagrilintide interactions and the dynamics of receptor complexes with previously reported structures of receptors bound to rat amylin, salmon calcitonin or recently developed amylin-based peptides. These data reveal that cagrilintide has an amylin-like binding mode but, compared to other peptides, induces distinct conformational dynamics at calcitonin-family receptors that could contribute to its clinical efficacy.


  • Organizational Affiliation

    Drug Discovery Biology Theme, Monash Institute of Pharmaceutical Sciences, Monash University, Parkville, VIC, Australia.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
CagrilintideA [auth P]39Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P10997 (Homo sapiens)
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Go to UniProtKB:  P10997
PHAROS:  P10997
GTEx:  ENSG00000121351 
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UniProt GroupP10997
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Calcitonin receptorB [auth R]462Homo sapiensMutation(s): 0 
Gene Names: CALCR
UniProt & NIH Common Fund Data Resources
Find proteins for P30988 (Homo sapiens)
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PHAROS:  P30988
GTEx:  ENSG00000004948 
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UniProt GroupP30988
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(s) subunit alpha isoforms shortC [auth A]394Homo sapiensMutation(s): 9 
Gene Names: GNASGNAS1GSP
EC: 3.6.5
UniProt & NIH Common Fund Data Resources
Find proteins for P63092 (Homo sapiens)
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PHAROS:  P63092
GTEx:  ENSG00000087460 
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UniProt GroupP63092
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1D [auth B]350Homo sapiensMutation(s): 0 
Gene Names: GNB1
UniProt & NIH Common Fund Data Resources
Find proteins for P62873 (Homo sapiens)
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PHAROS:  P62873
GTEx:  ENSG00000078369 
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UniProt GroupP62873
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2E [auth G]71Homo sapiensMutation(s): 0 
Gene Names: GNG2
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Find proteins for P59768 (Homo sapiens)
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PHAROS:  P59768
GTEx:  ENSG00000186469 
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UniProt GroupP59768
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Nanobody 35F [auth N]138Lama glamaMutation(s): 0 
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Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
P42
Query on P42

Download Ideal Coordinates CCD File 
H [auth R](2S)-2-{[(1R)-1-hydroxyhexadecyl]oxy}-3-{[(1R)-1-hydroxyoctadecyl]oxy}propyl 2-(trimethylammonio)ethyl phosphate
C42 H88 N O8 P
LYKCEYRWVRQPBD-FEWNNGCESA-N
A1B90
Query on A1B90

Download Ideal Coordinates CCD File 
G [auth P]icosanedioic acid
C20 H38 O4
JJOJFIHJIRWASH-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Health and Medical Research Council (NHMRC, Australia)Australia1154434
National Health and Medical Research Council (NHMRC, Australia)Australia2025694
National Health and Medical Research Council (NHMRC, Australia)Australia1155302
National Health and Medical Research Council (NHMRC, Australia)Australia2026300
Australian Research Council (ARC)AustraliaIC200100052

Revision History  (Full details and data files)

  • Version 1.0: 2025-04-23
    Type: Initial release
  • Version 1.1: 2025-04-30
    Changes: Data collection, Database references