9PU5 | pdb_00009pu5

Cryo-EM structure of human MOR-Gi1 complex protein bound with DAMGO and BMS986187

PDB DOI: https://doi.org/10.2210/pdb9PU5/pdb
EM Map EMD-71869: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Homo sapiens
Expression System: Spodoptera frugiperda
Mutation(s): Yes

Deposited: 2025-07-30 Released: 2026-05-27
Deposition Author(s): Zhang, H., Zilberg, G., Parpounas, A., Warren, A.L., Wacker, D., Abraham, A.
Funding Organization(s): National Institutes of Health/National Institute on Drug Abuse (NIH/NIDA)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.50 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

cryo-EM structure of human MOR-Gi1 complex protein bound with DAMGO and BMS986187

Zhang, H., Zilberg, G., Parpounas, A., Warren, A.L., Wacker, D., Abraham, A.

To be published.

Macromolecule Content

Total Structure Weight: 265.18 kDa
Atom Count: 14,466
Modeled Residue Count: 1,818
Deposited Residue Count: 2,338
Unique protein chains: 5

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(i) subunit alpha-1	A, F [auth B]	354	Homo sapiens	Mutation(s): 4 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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P63096
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	B [auth D], G [auth C]	342	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 Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P62873
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	C [auth G], H [auth E]	80	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 Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P59768
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Mu-type opioid receptor	D [auth R], I [auth F]	388	Homo sapiens	Mutation(s): 1 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 Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P35372
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
DAMGO	E [auth S], J [auth H]	5	Homo sapiens	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1D6B (Subject of Investigation/LOI) Query on A1D6B Download:Ideal Coordinates CCD File SDF format, chain N [auth R] SDF format, chain T [auth F] MOL2 format, chain N [auth R] MOL2 format, chain T [auth F] mmCIF format, chain N [auth R] mmCIF format, chain T [auth F]	N [auth R], T [auth F]	3,3,6,6-tetramethyl-9-[4-[(2-methylphenyl)methoxy]phenyl]-4,5,7,9-tetrahydro-2~{H}-xanthene-1,8-dione C₃₁ H₃₄ O₄ UEKIYVKPQNKSDI-UHFFFAOYSA-N		Interactions Focus chain N [auth R] Focus chain T [auth F] Interactions & Density Focus chain N [auth R] Focus chain T [auth F]
CLR Query on CLR Download:Ideal Coordinates CCD File SDF format, chain K [auth R] SDF format, chain L [auth R] SDF format, chain M [auth R] SDF format, chain O [auth F] SDF format, chain P [auth F] SDF format, chain Q [auth F] SDF format, chain R [auth F] SDF format, chain S [auth F] MOL2 format, chain K [auth R] MOL2 format, chain L [auth R] MOL2 format, chain M [auth R] MOL2 format, chain O [auth F] MOL2 format, chain P [auth F] MOL2 format, chain Q [auth F] MOL2 format, chain R [auth F] MOL2 format, chain S [auth F] mmCIF format, chain K [auth R] mmCIF format, chain L [auth R] mmCIF format, chain M [auth R] mmCIF format, chain O [auth F] mmCIF format, chain P [auth F] mmCIF format, chain Q [auth F] mmCIF format, chain R [auth F] mmCIF format, chain S [auth F]	K [auth R] L [auth R] M [auth R] O [auth F] P [auth F] K [auth R], L [auth R], M [auth R], O [auth F], P [auth F], Q [auth F], R [auth F], S [auth F]	CHOLESTEROL C₂₇ H₄₆ O HVYWMOMLDIMFJA-DPAQBDIFSA-N		Interactions Focus chain K [auth R] Focus chain L [auth R] Focus chain M [auth R] Focus chain O [auth F] Focus chain P [auth F] Focus chain Q [auth F] Focus chain R [auth F] Focus chain S [auth F] Interactions & Density Focus chain K [auth R] Focus chain L [auth R] Focus chain M [auth R] Focus chain O [auth F] Focus chain P [auth F] Focus chain Q [auth F] Focus chain R [auth F] Focus chain S [auth F]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
DAL Query on DAL	E [auth S], J [auth H]	D-PEPTIDE LINKING	C₃ H₇ N O₂		--
MEA Query on MEA	E [auth S], J [auth H]	L-PEPTIDE LINKING	C₁₀ H₁₃ N O₂		PHE

Biologically Interesting Molecules (External Reference)

1 Unique

Entity ID: 5
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_002308 Query on PRD_002308	E [auth H], J [auth S]	DAMGO	Peptide-like / Synthetic opioid		Interactions Focus chain E [auth S] Focus chain J [auth H] Interactions & Density Focus chain E [auth S] Focus chain J [auth H]