9Z6I | pdb_00009z6i

Cryo-EM structure of the open state of cIL RNA at 4.3 A resolution

PDB DOI: https://doi.org/10.2210/pdb9Z6I/pdb
EM Map EMD-73840: EMDB EMDataResource

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

Deposited: 2025-11-14 Released: 2026-05-27
Deposition Author(s): Filippova, E.V., Kossiakoff, A.A.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 4.32 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

A universal Fab targeting a conserved U1A-RNA epitope for RNA structure determination by cryo-EM

Filippova, E.V., Krochmal, D., Mukherjee, S., Piccirilli, J.A., Kossiakoff, A.A.

(2026) Nucleic Acids Res 54

DOI: https://doi.org/10.1093/nar/gkag502

Macromolecule Content

Total Structure Weight: 49.84 kDa
Atom Count: 2,644
Modeled Residue Count: 124
Deposited Residue Count: 155
Unique nucleic acid chains: 1

Macromolecules

Find similar nucleic acids by:

(by identity cutoff)

Molecule	Chains	Length	Organism
Entity ID: 1
RNA (155-MER)	A	155	synthetic construct
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 4.32 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487
RECONSTRUCTION	cryoSPARC	3.3.1

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):

Filippova, E.V.

Kossiakoff, A.A.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	--

Revision History (Full details and data files)

Version 1.0: 2026-05-27
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.