8ZOY | pdb_00008zoy

Cryo-EM structure of human norepinephrine transporter NET bound with norepinephrine in an inward open state at a resolution of 2.5 angstrom

PDB DOI: https://doi.org/10.2210/pdb8ZOY/pdb
EM Map EMD-60322: EMDB EMDataResource

Classification: TRANSPORT PROTEIN/IMMUNE SYSTEM
Organism(s): Homo sapiens, Lama glama
Expression System: Homo sapiens, Escherichia coli
Mutation(s): No
Membrane Protein: Yes PDBTM

Deposited: 2024-05-29 Released: 2024-09-11
Deposition Author(s): Song, A.L., Wu, X.D.
Funding Organization(s): Other private

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.50 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 8ZOY

This is version 1.4 of the entry. See complete history.

Literature

Mechanistic insights of substrate transport and inhibitor binding revealed by high-resolution structures of human norepinephrine transporter.

Song, A., Wu, X.

(2024) Cell Res 34: 810-813

PubMed: 39223283 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.1038/s41422-024-01024-0
Primary Citation Related Structures:
8ZOY, 8ZP1, 8ZP2, 8ZPB

Organizational Affiliation

Key Laboratory of Structural Biology of Zhejiang Province, School of Life Sciences, Westlake University, Hangzhou, Zhejiang, China.

Macromolecule Content

Total Structure Weight: 78.63 kDa
Atom Count: 5,441
Modeled Residue Count: 666
Deposited Residue Count: 691
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sodium-dependent noradrenaline transporter	A	571	Homo sapiens	Mutation(s): 0 Gene Names: SLC6A2, NAT1, NET1, SLC6A5 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P23975 (Homo sapiens) Explore P23975 Go to UniProtKB: P23975
PHAROS: P23975 GTEx: ENSG00000103546
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P23975
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Nb_BF9	B	120	Lama glama	Mutation(s): 0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PTY Query on PTY Download:Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A] mmCIF format, chain E [auth A]	E [auth A]	PHOSPHATIDYLETHANOLAMINE C₄₀ H₈₀ N O₈ P NJGIRBISCGPRPF-KXQOOQHDSA-N		Interactions Focus chain E [auth A] Interactions & Density Focus chain E [auth A]
LNR Query on LNR Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	L-NOREPINEPHRINE C₈ H₁₁ N O₃ SFLSHLFXELFNJZ-QMMMGPOBSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.50 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: 2024-09-11

Deposition Author(s):

Funding Organization	Location	Grant Number
Other private	China	--

Revision History (Full details and data files)

Version 1.0: 2024-09-11
Type: Initial release
Version 1.1: 2024-09-18
Changes: Data collection, Database references
Version 1.2: 2024-10-16
Changes: Data collection, Structure summary
Version 1.3: 2024-11-13
Changes: Data collection, Database references
Version 1.4: 2025-07-23
Changes: Data collection

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.