10ZT | pdb_000010zt

gRNAde designed RNA molecule

PDB DOI: https://doi.org/10.2210/pdb10ZT/pdb
EM Map EMD-75574: EMDB EMDataResource

Classification: RNA
Organism(s): synthetic construct
Expression System: Escherichia phage T7
Mutation(s): No

Deposited: 2026-02-13 Released: 2026-05-27
Deposition Author(s): Spellmon, N., Haack, D.B., Joshi, C.K., Rudolfs, B., Hingey, J., Mancino, A., Yu, Z., Toor, N., Das, R.
Funding Organization(s): Howard Hughes Medical Institute (HHMI)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.90 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

De novo design of RNA pseudoknots with deep learning

Joshi, C.K., Spellmon, N., Haack, D.B., Das, R.

To be published.

Macromolecule Content

Total Structure Weight: 168.28 kDa
Atom Count: 2,058
Modeled Residue Count: 96
Deposited Residue Count: 519
Unique nucleic acid chains: 1

Macromolecules

Find similar nucleic acids by:

(by identity cutoff)

Molecule	Chains	Length	Organism
Entity ID: 1
RNA (519-MER)	A	519	synthetic construct
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.90 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.1_5286
RECONSTRUCTION	cryoSPARC
RECONSTRUCTION	PHENIX

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-05-27

Deposition Author(s):

Funding Organization	Location	Grant Number
Howard Hughes Medical Institute (HHMI)	United States	--

Revision History (Full details and data files)

Version 1.0: 2026-05-27
Type: Initial release