9NGM | pdb_00009ngm

CryoEM structure of human ABCD3

PDB DOI: https://doi.org/10.2210/pdb9NGM/pdb
EM Map EMD-49388: EMDB EMDataResource

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

Deposited: 2025-02-22 Released: 2025-12-17
Deposition Author(s): Gupta, M., Khandelwal, N.K., Stroud, R.M.
Funding Organization(s): National Institutes of Health/National Institute on Aging (NIH/NIA)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.33 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Structural analysis of a human peroxisomal fatty-acid transporter

Gupta, M., Khandelwal, N.K., Stroud, R.M.

To be published.

Macromolecule Content

Total Structure Weight: 156.49 kDa
Atom Count: 9,564
Modeled Residue Count: 1,180
Deposited Residue Count: 1,376
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ATP-binding cassette sub-family D member 3	A, B	688	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
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P28288
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.33 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC
MODEL REFINEMENT	PHENIX

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-12-17

Deposition Author(s):

Khandelwal, N.K.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute on Aging (NIH/NIA)	United States	--

Revision History (Full details and data files)

Version 1.0: 2025-12-17
Type: Initial release

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.