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

Validation slider image for 8ZAT

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:

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% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% 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

View more in-depth experimental data

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

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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.