8S5Z

Cryo-EM structure of hydroxychloroquine-bound human SLC19A3 in inward-open state

• PDB DOI: https://doi.org/10.2210/pdb8S5Z/pdb
• EM Map EMD-19753: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Lama glama, Homo sapiens
• Expression System: Escherichia coli, Homo sapiens
• Mutation(s): No 


• Deposited: 2024-02-26 Released: 2024-10-02 
• Deposition Author(s): Gabriel, F., Loew, C.
• Funding Organization(s): European Molecular Biology Organization (EMBO)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico

Literature

Structural basis of substrate transport and drug recognition by the human thiamine transporter SLC19A3

Gabriel, F., Loew, C.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 75.45 kDa 
• Atom Count: 4,063 
• Modelled Residue Count: 507 
• Deposited Residue Count: 671 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nb3.3	A [auth B]	136	Lama glama	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Thiamine transporter 2	B [auth A]	535	Homo sapiens	Mutation(s): 0  Gene Names: SLC19A3
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BZV2 (Homo sapiens) Explore Q9BZV2  Go to UniProtKB:  Q9BZV2
PHAROS:  Q9BZV2 GTEx:  ENSG00000135917
Glycosylation
Glycosylation Sites: 1		Go to GlyGen: Q9BZV2-1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1H5D (Subject of Investigation/LOI)	D [auth A]	Hydroxychloroquine C18 H26 Cl N3 O XXSMGPRMXLTPCZ-CQSZACIVSA-N
NAG	C [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-10-02 
Deposition Author(s): Gabriel, F., Loew, C.

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Funding Organization	Location	Grant Number
European Molecular Biology Organization (EMBO)	European Union	10251

Revision History  

• Version 1.0: 2024-10-02
  Type: Initial release