8ZX4

LPI-bound GPR55 in complex with G13

PDB DOI: https://doi.org/10.2210/pdb8ZX4/pdb
EM Map EMD-60537: EMDB EMDataResource

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

Deposited: 2024-06-13 Released: 2024-11-13
Deposition Author(s): He, Y., Xia, R.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.85 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Structural insight into GPR55 ligand recognition and G-protein coupling.

Xia, R., Yuan, Q., Wang, N., Hou, L., Abe, J., Song, J., Ito, Y., Xu, H.E., He, Y.

(2025) Cell Res 35: 76-79

PubMed: 39482404 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1038/s41422-024-01044-w
Primary Citation of Related Structures:
8ZX4, 8ZX5

Organizational Affiliation

Laboratory of Receptor Structure and Signaling, HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, Heilongjiang, China.

Macromolecule Content

Total Structure Weight: 107.09 kDa
Atom Count: 6,753
Modelled Residue Count: 882
Deposited Residue Count: 943
Unique protein chains: 4

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
engineered miniGalpha 13	A	230	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q14344 (Homo sapiens) Explore Q14344 Go to UniProtKB: Q14344
PHAROS: Q14344 GTEx: ENSG00000120063
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q14344
Sequence Annotations Expand
Reference Sequence LOADING

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(by identity cutoff) | 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	345	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% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P62873
Sequence Annotations Expand
Reference Sequence LOADING

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(by identity cutoff) | 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]	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 Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P59768
Sequence Annotations Expand
Reference Sequence LOADING

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(by identity cutoff) | 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
G-protein coupled receptor 55	D [auth R]	297	Homo sapiens	Mutation(s): 0 Gene Names: GPR55
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y2T6 (Homo sapiens) Explore Q9Y2T6 Go to UniProtKB: Q9Y2T6
PHAROS: Q9Y2T6 GTEx: ENSG00000135898
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9Y2T6
Sequence Annotations Expand
Reference Sequence LOADING

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1D9E Query on A1D9E Download Ideal Coordinates CCD File SDF format, chain E [auth R] MOL2 format, chain E [auth R] mmCIF format, chain E [auth R]	E [auth R]	[(2~{R})-2-oxidanyl-3-[oxidanyl-[(2~{S},3~{R},5~{R},6~{R})-2,3,4,5,6-pentakis(oxidanyl)cyclohexyl]oxy-phosphoryl]oxy-propyl] hexadecanoate C₂₅ H₄₉ O₁₂ P UOXRPRZMAROFPH-LGNGRQRGSA-N		Interactions Focus chain E [auth R] Interactions & Density Focus chain E [auth R]