23CY | pdb_000023cy

Cryo-EM structure of the MRGPRX4-miniGsq complex bound to the inverse agonist cmpd54-4, local

PDB DOI: https://doi.org/10.2210/pdb23CY/pdb
EM Map EMD-68874: EMDB EMDataResource

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

Deposited: 2026-02-01 Released: 2026-10-14
Deposition Author(s): Cao, C., Wang, C., Zhang, M., Ji, Z.
Funding Organization(s): Ministry of Science and Technology (MoST, China), National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.84 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 23CY

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

Literature

Cryo-EM structure of the MRGPRX4-miniGsq complex bound to the inverse agonist cmpd54-4, local

Zhang, M.

To be published.

Macromolecule Content

Total Structure Weight: 53.8 kDa
Atom Count: 1,907
Modeled Residue Count: 244
Deposited Residue Count: 472
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Soluble cytochrome b562,Mas-related G-protein coupled receptor member X4	A	472	Escherichia coli, Homo sapiens This entity is chimeric	Mutation(s): 1 Gene Names: cybC, MRGPRX4, MRGX4, SNSR5, SNSR6
UniProt & NIH Common Fund Data Resources
Find proteins for P0ABE7 (Escherichia coli) Explore P0ABE7 Go to UniProtKB: P0ABE7
Find proteins for Q96LA9 (Homo sapiens) Explore Q96LA9 Go to UniProtKB: Q96LA9
PHAROS: Q96LA9 GTEx: ENSG00000179817
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Groups	P0ABE7 Q96LA9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1E43( Subject of Investigation/LOI) Query on A1E43 Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	(2~{S})-2-[[3-[[2-chloranyl-4-(trifluoromethyl)phenoxy]methyl]phenyl]carbonylamino]propanoic acid C₁₈ H₁₅ Cl F₃ N O₄ SJHHZIPCIDRJQR-JTQLQIEISA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.84 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2
RECONSTRUCTION	cryoSPARC	4.4.1

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-10-14

Deposition Author(s):

Funding Organization	Location	Grant Number
Ministry of Science and Technology (MoST, China)	China	2025YFA1309100
National Natural Science Foundation of China (NSFC)	China	82504820

Revision History (Full details and data files)

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