9HIO | pdb_00009hio

RKEC1 DNA aptamer bound to dopamine

• PDB DOI: https://doi.org/10.2210/pdb9HIO/pdb
• NAKB: 9HIO
• BMRB: 52690
• BMRB: 52689

• Classification: DNA
• Organism(s): synthetic construct
• Mutation(s): No 


• Deposited: 2024-11-26 Released: 2025-12-10 
• Deposition Author(s): Largy, E., Kaiyum, Y.A., Chao, E.H.P., Vialet, B., Johnson, P.E., Mackereth, C.D.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 15 
• Selection Criteria: structures with the lowest energy 

Literature

Unconventional DNA architecture in a dopamine–bound aptamer complex

Chao, E.H.P., Largy, E., Kaiyum, Y.A., Nguyen, M.D., Vialet, B., Dauphin-Ducharme, P., Johnson, P.E., Mackereth, C.D.

(2025) bioRxiv 

• DOI: https://doi.org/10.1101/2025.11.27.690961

Biological Assembly 1  

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

Biological Assembly Evidence: NMR Distance Restraints

Macromolecule Content 

• Total Structure Weight: 8.59 kDa 
• Atom Count: 571 
• Modeled Residue Count: 27 
• Deposited Residue Count: 27 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
RKEC1 DNA (27-MER)	A	27	synthetic construct

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
LDP (Subject of Investigation/LOI)	B [auth A]	L-DOPAMINE C8 H11 N O2 VYFYYTLLBUKUHU-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 15 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-12-10 
Deposition Author(s): Largy, E., Kaiyum, Y.A., Chao, E.H.P., Vialet, B., Johnson, P.E., Mackereth, C.D.

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Funding Organization	Location	Grant Number
Other government	Canada	France Canada Research Fund

Revision History  

• Version 1.0: 2025-12-10
  Type: Initial release