9ZC8 | pdb_00009zc8

5-methyl-cytidine RNA origami 6-helix bundle type-1 dimer

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

  • Deposited: 2025-11-22 Released: 2025-12-03 
  • Deposition Author(s): McRae, E.K.S.
  • Funding Organization(s): Cancer Prevention and Research Institute of Texas (CPRIT)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 12.1 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9ZC8

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

Literature

Base modifications reshape RNA folding landscapes and structure function relationships in synthetic and natural RNAs

Kumar, D.Y., Yang, H., Lee, S., McRae, E.K.S.

To be published.

Macromolecule Content 

  • Total Structure Weight: 468.94 kDa 
  • Atom Count: 31,034 
  • Modeled Residue Count: 1,440 
  • Deposited Residue Count: 1,440 
  • Unique nucleic acid chains: 1

Macromolecules

Find similar nucleic acids by: 
(by identity cutoff) 
Entity ID: 1
MoleculeChains LengthOrganismImage
5-methyl-cytidine RNA origami 6-helix bundleA [auth B],
B [auth A]		720synthetic construct
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 12.1 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC

Structure Validation

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View more in-depth experimental data

Entry History 

& Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Cancer Prevention and Research Institute of Texas (CPRIT)United StatesRR230015

Revision History  (Full details and data files)

  • Version 1.0: 2025-12-03
    Type: Initial release