9K6X | pdb_00009k6x

Structural and functional basis of antinociceptive action of conotoxin AoIA at the noradrenaline transporter

PDB DOI: https://doi.org/10.2210/pdb9K6X/pdb
EM Map EMD-62139: EMDB EMDataResource

Classification: TRANSPORT PROTEIN
Organism(s): Conus marmoreus, Homo sapiens
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2024-10-22 Released: 2026-05-06
Deposition Author(s): Zhang, H., Harald, S., Oliver, B., Xu, E.H.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.77 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9K6X

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

Literature

Structural and functional basis of antinociceptive action of conotoxin AoIA at the noradrenaline transporter

Zhang, H., Harald, S., Oliver, B., Xu, E.H.

To be published.

Macromolecule Content

Total Structure Weight: 150.66 kDa
Atom Count: 9,446
Modeled Residue Count: 1,122
Deposited Residue Count: 1,280
Unique protein chains: 2

Macromolecules

Find similar proteins by: Sequence | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
conotoxin AoIA	A [auth C], D	11	Conus marmoreus	Mutation(s): 0

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Sodium-dependent noradrenaline transporter	B [auth A], C [auth B]	629	Homo sapiens	Mutation(s): 0 Gene Names: SLC6A2, NAT1, NET1, SLC6A5
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

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1EET (Subject of Investigation/LOI) Query on A1EET Download:Ideal Coordinates CCD File SDF format, chain S [auth B] SDF format, chain E [auth A] MOL2 format, chain S [auth B] MOL2 format, chain E [auth A] mmCIF format, chain S [auth B] mmCIF format, chain E [auth A]	E [auth A], S [auth B]	[(2~{R})-3-[[(2~{S})-2,3-bis(oxidanyl)propoxy]-oxidanyl-phosphoryl]oxy-2-oxidanyl-propyl] (9~{Z},12~{Z})-octadeca-9,12-dienoate C₂₄ H₄₅ O₉ P VEEHTGYBVMTAAF-RFFZIGDUSA-N		Interactions Focus chain E [auth A] Focus chain S [auth B] Interactions & Density Focus chain E [auth A] Focus chain S [auth B]
CLR Query on CLR Download:Ideal Coordinates CCD File SDF format, chain I [auth A] SDF format, chain K [auth A] SDF format, chain M [auth A] SDF format, chain P [auth B] SDF format, chain Z [auth B] SDF format, chain Y [auth B] SDF format, chain X [auth B] SDF format, chain W [auth B] SDF format, chain R [auth B] SDF format, chain Q [auth B] SDF format, chain O [auth A] SDF format, chain N [auth A] SDF format, chain L [auth A] SDF format, chain J [auth A] MOL2 format, chain I [auth A] MOL2 format, chain K [auth A] MOL2 format, chain M [auth A] MOL2 format, chain P [auth B] MOL2 format, chain Z [auth B] MOL2 format, chain Y [auth B] MOL2 format, chain X [auth B] MOL2 format, chain W [auth B] MOL2 format, chain R [auth B] MOL2 format, chain Q [auth B] MOL2 format, chain O [auth A] MOL2 format, chain N [auth A] MOL2 format, chain L [auth A] MOL2 format, chain J [auth A] mmCIF format, chain I [auth A] mmCIF format, chain K [auth A] mmCIF format, chain M [auth A] mmCIF format, chain P [auth B] mmCIF format, chain Z [auth B] mmCIF format, chain Y [auth B] mmCIF format, chain X [auth B] mmCIF format, chain W [auth B] mmCIF format, chain R [auth B] mmCIF format, chain Q [auth B] mmCIF format, chain O [auth A] mmCIF format, chain N [auth A] mmCIF format, chain L [auth A] mmCIF format, chain J [auth A]	I [auth A] J [auth A] K [auth A] L [auth A] M [auth A] I [auth A], J [auth A], K [auth A], L [auth A], M [auth A], N [auth A], O [auth A], P [auth B], Q [auth B], R [auth B], W [auth B], X [auth B], Y [auth B], Z [auth B]	CHOLESTEROL C₂₇ H₄₆ O HVYWMOMLDIMFJA-DPAQBDIFSA-N		Interactions Focus chain I [auth A] Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth B] Focus chain Q [auth B] Focus chain R [auth B] Focus chain W [auth B] Focus chain X [auth B] Focus chain Y [auth B] Focus chain Z [auth B] Interactions & Density Focus chain I [auth A] Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth B] Focus chain Q [auth B] Focus chain R [auth B] Focus chain W [auth B] Focus chain X [auth B] Focus chain Y [auth B] Focus chain Z [auth B]
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain V [auth B] SDF format, chain H [auth A] MOL2 format, chain V [auth B] MOL2 format, chain H [auth A] mmCIF format, chain V [auth B] mmCIF format, chain H [auth A]	H [auth A], V [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain H [auth A] Focus chain V [auth B] Interactions & Density Focus chain H [auth A] Focus chain V [auth B]
NA Query on NA Download:Ideal Coordinates CCD File SDF format, chain T [auth B] SDF format, chain U [auth B] SDF format, chain G [auth A] SDF format, chain F [auth A] MOL2 format, chain T [auth B] MOL2 format, chain U [auth B] MOL2 format, chain G [auth A] MOL2 format, chain F [auth A] mmCIF format, chain T [auth B] mmCIF format, chain U [auth B] mmCIF format, chain G [auth A] mmCIF format, chain F [auth A]	F [auth A], G [auth A], T [auth B], U [auth B]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain G [auth A] Focus chain T [auth B] Focus chain U [auth B] Interactions & Density Focus chain F [auth A] Focus chain G [auth A] Focus chain T [auth B] Focus chain U [auth B]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
HYP Query on HYP	A [auth C], D	L-PEPTIDE LINKING	C₅ H₉ N O₃		PRO

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.77 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-05-06

Deposition Author(s):

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

Revision History (Full details and data files)

Version 1.0: 2026-05-06
Type: Initial release

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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.