26IO | pdb_000026io

Structure of recombinant RyR2 in the open state (Ca2+ dataset)

PDB DOI: https://doi.org/10.2210/pdb26IO/pdb
EM Map EMD-80683: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Mus musculus, Homo sapiens
Expression System: Homo sapiens, Escherichia coli
Mutation(s): No

Deposited: 2026-05-01 Released: 2026-11-04
Deposition Author(s): Otori, Y., Takeuchi, S., Ogawa, H.
Funding Organization(s): Japan Society for the Promotion of Science (JSPS), Japan Agency for Medical Research and Development (AMED)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.73 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

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

Literature

Structure of recombinant RyR2 in the open state (Ca2+ dataset)

Otori, Y., Takeuchi, S., Ogawa, H.

To be published.

Macromolecule Content

Total Structure Weight: 2,338.5 kDa
Atom Count: 138,260
Modeled Residue Count: 17,296
Deposited Residue Count: 20,568
Unique protein chains: 2

Macromolecules

Find similar proteins by:

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ryanodine receptor 2	A, B, C, D	4,966	Mus musculus	Mutation(s): 0 Gene Names: Ryr2
UniProt & NIH Common Fund Data Resources
Find proteins for E9Q401 (Mus musculus) Explore E9Q401 Go to UniProtKB: E9Q401
IMPC: MGI:99685
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	E9Q401
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Peptidyl-prolyl cis-trans isomerase FKBP1B	E [auth G], F [auth H], G [auth I], H [auth J]	176	Homo sapiens	Mutation(s): 0 Gene Names: FKBP1B EC: 5.2.1.8
UniProt & NIH Common Fund Data Resources
Find proteins for P68106 (Homo sapiens) Explore P68106 Go to UniProtKB: P68106
PHAROS: P68106 GTEx: ENSG00000119782
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P68106
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZN (Subject of Investigation/LOI) Query on ZN Download:Ideal Coordinates CCD File SDF format, chain I [auth A] SDF format, chain K [auth B] SDF format, chain M [auth C] SDF format, chain O [auth D] MOL2 format, chain I [auth A] MOL2 format, chain K [auth B] MOL2 format, chain M [auth C] MOL2 format, chain O [auth D] mmCIF format, chain I [auth A] mmCIF format, chain K [auth B] mmCIF format, chain M [auth C] mmCIF format, chain O [auth D]	I [auth A], K [auth B], M [auth C], O [auth D]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain I [auth A] Focus chain K [auth B] Focus chain M [auth C] Focus chain O [auth D] Interactions & Density Focus chain I [auth A] Focus chain K [auth B] Focus chain M [auth C] Focus chain O [auth D]
CA (Subject of Investigation/LOI) Query on CA Download:Ideal Coordinates CCD File SDF format, chain J [auth A] SDF format, chain L [auth B] SDF format, chain P [auth D] SDF format, chain N [auth C] MOL2 format, chain J [auth A] MOL2 format, chain L [auth B] MOL2 format, chain P [auth D] MOL2 format, chain N [auth C] mmCIF format, chain J [auth A] mmCIF format, chain L [auth B] mmCIF format, chain P [auth D] mmCIF format, chain N [auth C]	J [auth A], L [auth B], N [auth C], P [auth D]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain J [auth A] Focus chain L [auth B] Focus chain N [auth C] Focus chain P [auth D] Interactions & Density Focus chain J [auth A] Focus chain L [auth B] Focus chain N [auth C] Focus chain P [auth D]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.73 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC
MODEL REFINEMENT	PHENIX

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-11-04

Deposition Author(s):

Otori, Y.

Takeuchi, S.

Ogawa, H.

Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science (JSPS)	Japan	21H02411
Japan Society for the Promotion of Science (JSPS)	Japan	24K02164
Japan Agency for Medical Research and Development (AMED)	Japan	JP21am0101080