7ZJ5

Unbound state of a brocolli-pepper aptamer FRET tile.

PDB DOI: https://doi.org/10.2210/pdb7ZJ5/pdb
NAKB: 7ZJ5
EM Map EMD-14741: EMDB EMDataResource

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

Deposited: 2022-04-08 Released: 2023-04-19
Deposition Author(s): McRae, E.K.S., Vallina, N.S., Hansen, B.K., Boussebayle, A., Andersen, E.S.
Funding Organization(s): Danish Council for Independent Research

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 4.55 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Structure determination of Pepper-Broccoli FRET pair by RNA origami scaffolding

McRae, E.K.S., Vallina, N.S., Hansen, B.K., Boussebayle, A., Andersen, E.S.

To be published.

Macromolecule Content

Total Structure Weight: 120.74 kDa
Atom Count: 7,984
Modelled Residue Count: 374
Deposited Residue Count: 374
Unique nucleic acid chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Length	Organism	Image
brocolli-pepper aptamer	A [auth E]	374	synthetic construct
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
K Query on K Download Ideal Coordinates CCD File SDF format, chain B [auth E] MOL2 format, chain B [auth E]	B [auth E]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Interactions Focus chain B [auth E] Interactions & Density Focus chain B [auth E]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 4.55 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX
MODEL REFINEMENT	ISOLDE
RECONSTRUCTION	cryoSPARC	3

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-04-19

Deposition Author(s):

Boussebayle, A.

Funding Organization	Location	Grant Number
Danish Council for Independent Research	Denmark	--

Revision History (Full details and data files)

Version 1.0: 2023-04-19
Type: Initial release
Version 1.1: 2023-05-24
Changes: Structure summary
Version 1.2: 2023-07-26
Changes: Other

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.