8Z1D | pdb_00008z1d

Cryo-EM structure of the panda P2X7 receptor in complex with PSFL1191

PDB DOI: https://doi.org/10.2210/pdb8Z1D/pdb
EM Map EMD-39723: EMDB EMDataResource

Classification: TRANSPORT PROTEIN
Organism(s): Ailuropoda melanoleuca
Expression System: Spodoptera frugiperda
Mutation(s): No

Deposited: 2024-04-11 Released: 2025-04-16
Deposition Author(s): Sheng, D., Hattori, M.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 4.00 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Cryo-EM structure of the panda P2X7 receptor in complex with PSFL1191

Sheng, D., Hattori, M.

To be published.

Macromolecule Content

Total Structure Weight: 118.61 kDa
Atom Count: 7,464
Modeled Residue Count: 960
Deposited Residue Count: 1,026
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
P2X purinoceptor	A, B, C	342	Ailuropoda melanoleuca	Mutation(s): 0 Gene Names: PANDA_000894
UniProt
Find proteins for G1M6C4 (Ailuropoda melanoleuca) Explore G1M6C4 Go to UniProtKB: G1M6C4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	G1M6C4
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A Focus chain B Focus chain C
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1L0P (Subject of Investigation/LOI) Query on A1L0P Download Ideal Coordinates CCD File SDF format, chain L [auth C] SDF format, chain I [auth B] SDF format, chain F [auth A] MOL2 format, chain L [auth C] MOL2 format, chain I [auth B] MOL2 format, chain F [auth A] mmCIF format, chain L [auth C] mmCIF format, chain I [auth B] mmCIF format, chain F [auth A]	F [auth A], I [auth B], L [auth C]	PSFL1191 C₂₃ H₂₅ N O₄ GDEMFXCLPBLWJW-ZHRRBRCNSA-N		Interactions Focus chain F [auth A] Focus chain I [auth B] Focus chain L [auth C] Interactions & Density Focus chain F [auth A] Focus chain I [auth B] Focus chain L [auth C]
NAG Query on NAG Download Ideal Coordinates CCD File SDF format, chain K [auth C] SDF format, chain J [auth C] SDF format, chain H [auth B] SDF format, chain G [auth B] SDF format, chain E [auth A] SDF format, chain D [auth A] MOL2 format, chain K [auth C] MOL2 format, chain J [auth C] MOL2 format, chain H [auth B] MOL2 format, chain G [auth B] MOL2 format, chain E [auth A] MOL2 format, chain D [auth A] mmCIF format, chain K [auth C] mmCIF format, chain J [auth C] mmCIF format, chain H [auth B] mmCIF format, chain G [auth B] mmCIF format, chain E [auth A] mmCIF format, chain D [auth A]	D [auth A] E [auth A] G [auth B] H [auth B] J [auth C] D [auth A], E [auth A], G [auth B], H [auth B], J [auth C], K [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain D [auth A] Focus chain E [auth A] Focus chain G [auth B] Focus chain H [auth B] Focus chain J [auth C] Focus chain K [auth C] Interactions & Density Focus chain D [auth A] Focus chain E [auth A] Focus chain G [auth B] Focus chain H [auth B] Focus chain J [auth C] Focus chain K [auth C]