9W7X | pdb_00009w7x

Cryo-EM structure of dPIEZO channel

PDB DOI: https://doi.org/10.2210/pdb9W7X/pdb
EM Map EMD-65735: EMDB EMDataResource

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

Deposited: 2025-08-07 Released: 2026-05-06
Deposition Author(s): Liu, S., Li, X., Xiao, B.
Funding Organization(s): Other government, National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.95 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9W7X

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

Literature

Cryo-EM structure of dPIEZO channel

Liu, S., Yang, X., Chen, X., Li, X., Xiao, B.

To be published.

Macromolecule Content

Total Structure Weight: 883.05 kDa
Atom Count: 31,971
Modeled Residue Count: 3,915
Deposited Residue Count: 7,653
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Piezo-type mechanosensitive ion channel component	A [auth B], B [auth A], C	2,551	Drosophila	Mutation(s): 0 Gene Names: Piezo, CG18103
UniProt
Find proteins for M9MSG8 (Drosophila melanogaster) Explore M9MSG8 Go to UniProtKB: M9MSG8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	M9MSG8
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
P5S (Subject of Investigation/LOI) Query on P5S Download:Ideal Coordinates CCD File SDF format, chain U [auth C] SDF format, chain O [auth A] SDF format, chain H [auth B] MOL2 format, chain U [auth C] MOL2 format, chain O [auth A] MOL2 format, chain H [auth B] mmCIF format, chain U [auth C] mmCIF format, chain O [auth A] mmCIF format, chain H [auth B]	H [auth B], O [auth A], U [auth C]	O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine C₄₂ H₈₂ N O₁₀ P TZCPCKNHXULUIY-RGULYWFUSA-N		Interactions Focus chain H [auth B] Focus chain O [auth A] Focus chain U [auth C] Interactions & Density Focus chain H [auth B] Focus chain O [auth A] Focus chain U [auth C]
PLX (Subject of Investigation/LOI) Query on PLX Download:Ideal Coordinates CCD File SDF format, chain S [auth C] SDF format, chain R [auth C] SDF format, chain Q [auth C] SDF format, chain P [auth C] SDF format, chain M [auth A] SDF format, chain L [auth A] SDF format, chain K [auth A] SDF format, chain J [auth A] SDF format, chain I [auth A] SDF format, chain F [auth B] SDF format, chain E [auth B] SDF format, chain D [auth B] MOL2 format, chain S [auth C] MOL2 format, chain R [auth C] MOL2 format, chain Q [auth C] MOL2 format, chain P [auth C] MOL2 format, chain M [auth A] MOL2 format, chain L [auth A] MOL2 format, chain K [auth A] MOL2 format, chain J [auth A] MOL2 format, chain I [auth A] MOL2 format, chain F [auth B] MOL2 format, chain E [auth B] MOL2 format, chain D [auth B] mmCIF format, chain S [auth C] mmCIF format, chain R [auth C] mmCIF format, chain Q [auth C] mmCIF format, chain P [auth C] mmCIF format, chain M [auth A] mmCIF format, chain L [auth A] mmCIF format, chain K [auth A] mmCIF format, chain J [auth A] mmCIF format, chain I [auth A] mmCIF format, chain F [auth B] mmCIF format, chain E [auth B] mmCIF format, chain D [auth B]	D [auth B] E [auth B] F [auth B] I [auth A] J [auth A] D [auth B], E [auth B], F [auth B], I [auth A], J [auth A], K [auth A], L [auth A], M [auth A], P [auth C], Q [auth C], R [auth C], S [auth C]	(9R,11S)-9-({[(1S)-1-HYDROXYHEXADECYL]OXY}METHYL)-2,2-DIMETHYL-5,7,10-TRIOXA-2LAMBDA~5~-AZA-6LAMBDA~5~-PHOSPHAOCTACOSANE-6,6,11-TRIOL C₄₂ H₈₉ N O₈ P YVNJQRQLQPWVSQ-IWSHAHEXSA-O		Interactions Focus chain D [auth B] Focus chain E [auth B] Focus chain F [auth B] Focus chain I [auth A] Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth A] Focus chain P [auth C] Focus chain Q [auth C] Focus chain R [auth C] Focus chain S [auth C] Interactions & Density Focus chain D [auth B] Focus chain E [auth B] Focus chain F [auth B] Focus chain I [auth A] Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth A] Focus chain P [auth C] Focus chain Q [auth C] Focus chain R [auth C] Focus chain S [auth C]
PEE (Subject of Investigation/LOI) Query on PEE Download:Ideal Coordinates CCD File SDF format, chain T [auth C] SDF format, chain N [auth A] SDF format, chain G [auth B] MOL2 format, chain T [auth C] MOL2 format, chain N [auth A] MOL2 format, chain G [auth B] mmCIF format, chain T [auth C] mmCIF format, chain N [auth A] mmCIF format, chain G [auth B]	G [auth B], N [auth A], T [auth C]	1,2-dioleoyl-sn-glycero-3-phosphoethanolamine C₄₁ H₇₈ N O₈ P MWRBNPKJOOWZPW-NYVOMTAGSA-N		Interactions Focus chain G [auth B] Focus chain N [auth A] Focus chain T [auth C] Interactions & Density Focus chain G [auth B] Focus chain N [auth A] Focus chain T [auth C]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.95 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX
RECONSTRUCTION	RELION	3.1

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-05-06

Deposition Author(s):

Funding Organization	Location	Grant Number
Other government	China	2016YFA0500402
National Natural Science Foundation of China (NSFC)	China	31825014
National Natural Science Foundation of China (NSFC)	China	32130049
National Natural Science Foundation of China (NSFC)	China	32021002
National Natural Science Foundation of China (NSFC)	China	31630090

Revision History (Full details and data files)

Version 1.0: 2026-05-06
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.