8ZAT | pdb_00008zat

Cryo-EM structure of human SLC15A3 (apo)

PDB DOI: https://doi.org/10.2210/pdb8ZAT/pdb
EM Map EMD-39888: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Homo sapiens
Expression System: Spodoptera frugiperda
Mutation(s): No
Membrane Protein: Yes MemProtMD

Deposited: 2024-04-25 Released: 2025-04-30
Deposition Author(s): Kasai, S., Zhang, Z., Ohto, U., Shimizu, T.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.54 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 human SLC15A3 (apo)

Zhang, Z., Kasai, S., Sakaniwa, K., Fujimura, A., Ohto, U., Shimizu, T.

To be published.

Macromolecule Content

Total Structure Weight: 134.28 kDa
Atom Count: 6,800
Modeled Residue Count: 880
Deposited Residue Count: 1,218
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Solute carrier family 15 member 3	A, B	609	Homo sapiens	Mutation(s): 0 Gene Names: SLC15A3 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q8IY34 (Homo sapiens) Explore Q8IY34 Go to UniProtKB: Q8IY34
PHAROS: Q8IY34 GTEx: ENSG00000110446
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8IY34
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.54 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-04-30

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2025-04-30
Type: Initial release
Version 1.1: 2025-07-02
Changes: Data collection

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.