9YH3 | pdb_00009yh3

Cis-azomorphine-3 bound mu opioid receptor Gi complex

• PDB DOI: https://doi.org/10.2210/pdb9YH3/pdb
• EM Map EMD-72952: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2025-09-30 Released: 2026-10-14 
• Deposition Author(s): Gati, C., Khan, S., Han, G.W.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Institutes of Health/National Center for Complementary and Integrative Health (NIH/NCCIH)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.29 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

An opioid efficacy switch for reversible optical control of peripheral analgesia

Posa, L., Romano, G., Ji, X., Khan, S., Paz, B., Han, G.W., Nazarova, A., Zaidi, S., Pleil, K., Katritch, V., Gati, C., Trauner, D., Levitz, J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A1B1C1D1 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 159.39 kDa 
• Atom Count: 7,089 
• Modeled Residue Count: 896 
• Deposited Residue Count: 1,408 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	A [auth B]	361	Homo sapiens	Mutation(s): 0  Gene Names: GNB1
UniProt & NIH Common Fund Data Resources
Find proteins for P62873 (Homo sapiens) Explore P62873  Go to UniProtKB:  P62873
PHAROS:  P62873 GTEx:  ENSG00000078369

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	B [auth C]	71	Homo sapiens	Mutation(s): 0  Gene Names: GNG2
UniProt & NIH Common Fund Data Resources
Find proteins for P59768 (Homo sapiens) Explore P59768  Go to UniProtKB:  P59768
PHAROS:  P59768 GTEx:  ENSG00000186469

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Mu-type opioid receptor	C [auth R]	622	Homo sapiens	Mutation(s): 0  Gene Names: OPRM1, MOR1
UniProt & NIH Common Fund Data Resources
Find proteins for P35372 (Homo sapiens) Explore P35372  Go to UniProtKB:  P35372
PHAROS:  P35372 GTEx:  ENSG00000112038

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(i) subunit alpha-1	D [auth A]	354	Homo sapiens	Mutation(s): 0  Gene Names: GNAI1 EC: 3.6.5
UniProt & NIH Common Fund Data Resources
Find proteins for P63096 (Homo sapiens) Explore P63096  Go to UniProtKB:  P63096
PHAROS:  P63096 GTEx:  ENSG00000127955

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1BK1( Subject of Investigation/LOI)	H [auth R]	N-[17-(cyclopropylmethyl)-3,14-dihydroxy-5alpha-4,5-epoxymorphinan-6beta-yl]-N-methyl-2-{4-[(Z)-phenyldiazenyl]phenyl}acetamide C35 H38 N4 O4 XGKBJXQRSROSEG-REVHYPMNSA-N
CLR	E [auth R], F [auth R], G [auth R]	CHOLESTEROL C27 H46 O HVYWMOMLDIMFJA-DPAQBDIFSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.29 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419
RECONSTRUCTION	cryoSPARC	v4.3.1

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-10-14 
Deposition Author(s): Gati, C., Khan, S., Han, G.W.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM144965
National Institutes of Health/National Center for Complementary and Integrative Health (NIH/NCCIH)	United States	AT012075

Revision History  

• Version 1.0: 2026-10-14
  Type: Initial release