7YNZ | pdb_00007ynz

Cryo-EM structure of human Slo1-LRRC26 complex with C1 symmetry

PDB DOI: https://doi.org/10.2210/pdb7YNZ/pdb
EM Map EMD-33976: EMDB EMDataResource

Classification: TRANSPORT PROTEIN
Organism(s): Homo sapiens
Expression System: Homo sapiens
Mutation(s): Yes
Membrane Protein: Yes PDBTM

Deposited: 2022-08-01 Released: 2024-03-06
Deposition Author(s): Yamanouchi, D., Nureki, O.
Funding Organization(s): Japan Society for the Promotion of Science (JSPS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.50 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 7YNZ

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

Literature

Structural basis for dual allosteric gating modulation of Slo1-LRRC channel complex

Yamanouchi, D.

To be published.

Macromolecule Content

Total Structure Weight: 617.83 kDa
Atom Count: 35,844
Modeled Residue Count: 4,576
Deposited Residue Count: 5,576
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Calcium-activated potassium channel subunit alpha-1	A, C, E, G	1,060	Homo sapiens	Mutation(s): 1 Gene Names: KCNMA1 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q12791 (Homo sapiens) Explore Q12791 Go to UniProtKB: Q12791
PHAROS: Q12791 GTEx: ENSG00000156113
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q12791
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Leucine-rich repeat-containing protein 26	B, D, F, H	334	Homo sapiens	Mutation(s): 0 Gene Names: LRRC26, CAPC Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q2I0M4 (Homo sapiens) Explore Q2I0M4 Go to UniProtKB: Q2I0M4
PHAROS: Q2I0M4 GTEx: ENSG00000184709
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q2I0M4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CA (Subject of Investigation/LOI) Query on CA Download:Ideal Coordinates CCD File SDF format, chain T [auth G] SDF format, chain R [auth E] SDF format, chain Q [auth E] SDF format, chain P [auth E] SDF format, chain N [auth C] SDF format, chain L [auth A] SDF format, chain K [auth A] SDF format, chain J [auth A] MOL2 format, chain T [auth G] MOL2 format, chain R [auth E] MOL2 format, chain Q [auth E] MOL2 format, chain P [auth E] MOL2 format, chain N [auth C] MOL2 format, chain L [auth A] MOL2 format, chain K [auth A] MOL2 format, chain J [auth A] mmCIF format, chain T [auth G] mmCIF format, chain R [auth E] mmCIF format, chain Q [auth E] mmCIF format, chain P [auth E] mmCIF format, chain N [auth C] mmCIF format, chain L [auth A] mmCIF format, chain K [auth A] mmCIF format, chain J [auth A]	J [auth A] K [auth A] L [auth A] N [auth C] P [auth E] J [auth A], K [auth A], L [auth A], N [auth C], P [auth E], Q [auth E], R [auth E], T [auth G]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain N [auth C] Focus chain P [auth E] Focus chain Q [auth E] Focus chain R [auth E] Focus chain T [auth G] Interactions & Density Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain N [auth C] Focus chain P [auth E] Focus chain Q [auth E] Focus chain R [auth E] Focus chain T [auth G]
MG (Subject of Investigation/LOI) Query on MG Download:Ideal Coordinates CCD File SDF format, chain S [auth G] SDF format, chain O [auth E] SDF format, chain M [auth C] SDF format, chain I [auth A] MOL2 format, chain S [auth G] MOL2 format, chain O [auth E] MOL2 format, chain M [auth C] MOL2 format, chain I [auth A] mmCIF format, chain S [auth G] mmCIF format, chain O [auth E] mmCIF format, chain M [auth C] mmCIF format, chain I [auth A]	I [auth A], M [auth C], O [auth E], S [auth G]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain I [auth A] Focus chain M [auth C] Focus chain O [auth E] Focus chain S [auth G] Interactions & Density Focus chain I [auth A] Focus chain M [auth C] Focus chain O [auth E] Focus chain S [auth G]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.50 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2024-03-06

Deposition Author(s):

Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science (JSPS)	Japan	--

Revision History (Full details and data files)

Version 1.0: 2024-03-06
Type: Initial release
Version 1.1: 2024-10-23
Changes: Data collection, Structure summary

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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.