8Z9X

Cryo-EM structure of Phytanoyl-CoA-bound human very long-chain fatty acid ABC transporter ABCD3

• PDB DOI: https://doi.org/10.2210/pdb8Z9X/pdb
• EM Map EMD-39871: EMDB EMDataResource

• Classification: TRANSPORT PROTEIN
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2024-04-23 Released: 2024-09-18 
• Deposition Author(s): Li, Y., Chen, Y.X., Zhou, C.Z., Hou, W.T.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.96 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural insights into human ABCD3-mediated peroxisomal acyl-CoA translocation

Yang, L., Wen, T.H.

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.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 155.48 kDa 
• Atom Count: 9,344 
• Modelled Residue Count: 1,134 
• Deposited Residue Count: 1,336 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ATP-binding cassette sub-family D member 3	A [auth B], B [auth A]	668	Homo sapiens	Mutation(s): 0  Gene Names: ABCD3, PMP70, PXMP1 EC: 3.1.2 (PDB Primary Data), 7.6.2 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P28288 (Homo sapiens) Explore P28288  Go to UniProtKB:  P28288
PHAROS:  P28288 GTEx:  ENSG00000117528

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1L1A	C [auth B], D [auth A]	phytanoyl-CoA C41 H74 N7 O17 P3 S NRJQGHHZMSOUEN-SOYJUKJHSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.96 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-09-18 
Deposition Author(s): Li, Y., Chen, Y.X., Zhou, C.Z., Hou, W.T.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32071206

Revision History  

• Version 1.0: 2024-09-18
  Type: Initial release