9UIS | pdb_00009uis

Cryo-EM structure of the prostaglandin D2 receptor 1 (DP1) bound to the antagonist asapiprant resolved via the fusion/crosslinking strategy

• PDB DOI: https://doi.org/10.2210/pdb9UIS/pdb
• EM Map EMD-64203: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens, Aequorea victoria, synthetic construct
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2025-04-16 Released: 2026-10-28 
• Deposition Author(s): Han, S.C., Li, M.H.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.75 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure determination of GPCRs with disulfide-crosslinked fusion protein

Han, S.C., Li, M.H.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 95.07 kDa 
• Atom Count: 6,303 
• Modeled Residue Count: 804 
• Deposited Residue Count: 857 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Prostaglandin D2 receptor	A	367	Homo sapiens	Mutation(s): 0  Gene Names: PTGDR
UniProt & NIH Common Fund Data Resources
Find proteins for Q13258 (Homo sapiens) Explore Q13258  Go to UniProtKB:  Q13258
GTEx:  ENSG00000168229

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Green fluorescent protein	B	196	Aequorea victoria	Mutation(s): 0  Gene Names: gfp
UniProt
Find proteins for A0A059PIQ0 (Aequorea victoria) Explore A0A059PIQ0  Go to UniProtKB:  A0A059PIQ0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
GFP-clamp E186C	C	294	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1EPH (Subject of Investigation/LOI)	D [auth A]	2-[2-(1,3-oxazol-2-yl)-5-[4-(4-propan-2-yloxyphenyl)sulfonylpiperazin-1-yl]phenoxy]ethanoic acid C24 H27 N3 O7 S ZMZNWNTZRWXTJU-UHFFFAOYSA-N

Non-standard Monomers  1 Unique
ID	Chains	Type	Formula	2D Diagram
CRO	B	L-PEPTIDE LINKING	C15 H17 N3 O5

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.75 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.19.2_4158
RECONSTRUCTION	RELION

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-10-28 
Deposition Author(s): Han, S.C., Li, M.H.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2026-10-28
  Type: Initial release