9E51 | pdb_00009e51

Cryo-EM structure of human LPHN2 (ADGRL2)/G13 complex in lipid nanodiscs


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 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

The adhesion GPCR ADGRL2 engages G alpha 13 to enable epidermal differentiation.

Yang, X.He, F.Lopez-Pajares, V.Porter, D.F.Garbett, K.Siprashvili, Z.Ducoli, L.Meyers, R.M.Reynolds, D.L.Lan Huong Bui, D.Hong, A.Nguyen, D.T.Jing, Y.Mondal, S.Ko, L.Tao, S.Singal, B.Sando, R.Skiniotis, G.Khavari, P.A.

(2025) Proc Natl Acad Sci U S A 122: e2508436122-e2508436122

  • DOI: https://doi.org/10.1073/pnas.2508436122
  • Primary Citation of Related Structures:  
    9E51

  • PubMed Abstract: 

    Homeostasis relies on signaling networks controlled by cell membrane receptors. Although G-protein-coupled receptors (GPCRs) are the largest family of transmembrane receptors, their specific roles in the epidermis are not fully understood. Dual CRISPR-Flow and single cell Perturb RNA-sequencing knockout screens of all epidermal GPCRs were thus performed, uncovering an essential requirement for adhesion GPCR ADGRL2 (latrophilin 2) in epidermal differentiation. Among potential downstream guanine nucleotide-binding G proteins, ADGRL2 selectively activated Gα13. Follow-up tissue knockouts verified that Gα13 is also required for epidermal differentiation. A cryoelectron microscopy structure in lipid nanodiscs showed that ADGRL2 engages with Gα13 at multiple interfaces, including via an interaction between ADGRL2 intracellular loop 3 and a Gα13-specific QQQ glutamine triplet sequence in its GTPase domain. In situ gene mutation of this interface sequence impaired epidermal differentiation, highlighting an essential new role for an ADGRL2-Gα13 axis in epidermal differentiation.


  • Organizational Affiliation
    • Program in Epithelial Biology, Stanford University School of Medicine, Stanford, CA 94305.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Isoform 2 of Guanine nucleotide-binding protein subunit alpha-13A [auth B]230Homo sapiensMutation(s): 0 
Gene Names: GNA13
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Find proteins for Q14344 (Homo sapiens)
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Go to UniProtKB:  Q14344
PHAROS:  Q14344
GTEx:  ENSG00000120063 
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UniProt GroupQ14344
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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-1B [auth C]340Homo sapiensMutation(s): 0 
Gene Names: GNB1
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Find proteins for P62873 (Homo sapiens)
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PHAROS:  P62873
GTEx:  ENSG00000078369 
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UniProt GroupP62873
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2C [auth D]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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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Adhesion G protein-coupled receptor L2D [auth A]325Homo sapiensMutation(s): 0 
Gene Names: ADGRL2KIAA0786LEC1LPHH1LPHN2
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Find proteins for O95490 (Homo sapiens)
Explore O95490 
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PHAROS:  O95490
GTEx:  ENSG00000117114 
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UniProt GroupO95490
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.20.1_4487:

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)United States5R01DK132902-02

Revision History  (Full details and data files)

  • Version 1.0: 2025-11-12
    Type: Initial release
  • Version 1.1: 2026-03-04
    Changes: Data collection, Database references