9JJ3 | pdb_00009jj3

Cryo-EM structure of human ZnT4 D150N/D281N

• PDB DOI: https://doi.org/10.2210/pdb9JJ3/pdb
• EM Map EMD-61516: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): Yes 
• Membrane Protein: Yes  MemProtMD


• Deposited: 2024-09-12 Released: 2025-06-04 
• Deposition Author(s): Ishida, H., Yo, R., Zhnag, Z., Shimizu, T., Ohto, U.
• Funding Organization(s): Ministry of Education, Culture, Sports, Science and Technology (Japan)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.03 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural basis for the zinc transporters, ZnT3 and ZnT4

Ishida, H., Yo, R., Zhang, Z., Shimizu, T., Ohto, U.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 98.94 kDa 
• Atom Count: 4,586 
• Modeled Residue Count: 582 
• Deposited Residue Count: 892 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable proton-coupled zinc antiporter SLC30A4	A [auth B], B [auth A]	446	Homo sapiens	Mutation(s): 2  Gene Names: SLC30A4, ZNT4 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for O14863 (Homo sapiens) Explore O14863  Go to UniProtKB:  O14863
PHAROS:  O14863 GTEx:  ENSG00000104154

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.03 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487:

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-06-04 
Deposition Author(s): Ishida, H., Yo, R., Zhnag, Z., Shimizu, T., Ohto, U.

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Funding Organization	Location	Grant Number
Ministry of Education, Culture, Sports, Science and Technology (Japan)	Japan	20K16274 and 22K07131 (H.I.); 22K15046 and 24K09349 (Z.Z.); 19H00976, 22H05184, and 23H00366 (T.S.); and 19H03164 and 22H02556 [U.O.)

Revision History  

• Version 1.0: 2025-06-04
  Type: Initial release