Macromolecule Content

Total Structure Weight: 17.07 kDa
Atom Count: 1161
Modelled Residue Count: 51
Deposited Residue Count: 51
Unique nucleic acid chains: 1

7JRR

Crystal structures of artificially designed homomeric RNA nanoarchitectures

PDB DOI: 10.2210/pdb7JRR/pdb
NDB: 7JRR

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

Deposited: 2020-08-12 Released: 2021-09-08
Deposition Author(s): Liu, D., Shao, Y., Piccirilli, J.A., Weizmann, Y.
Funding Organization(s): National Science Foundation (NSF, United States)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.16 Å
R-Value Free: 0.260
R-Value Work: 0.226
R-Value Observed: 0.230

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Structures of artificially designed discrete RNA nanoarchitectures at near-atomic resolution.

Liu, D., Shao, Y., Piccirilli, J.A., Weizmann, Y.

(2021) Sci Adv 7: eabf4459-eabf4459

PubMed: 34550747 Search on PubMedSearch on PubMed Central
DOI: 10.1126/sciadv.abf4459
Primary Citation of Related Structures:
7JRR, 7JRS, 7JRT

PubMed Abstract:

Macromolecules

Find similar nucleic acids by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Length	Organism	Image
RNA (50-MER)	A	51	synthetic construct
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MN Query on MN Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth A] SDF format, chain E [auth A] SDF format, chain F [auth A] SDF format, chain G [auth A] SDF format, chain H [auth A] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] MOL2 format, chain G [auth A] MOL2 format, chain H [auth A]	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N		Ligand Interaction
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain I [auth A] MOL2 format, chain B [auth A] MOL2 format, chain I [auth A]	B [auth A], I [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.16 Å
R-Value Free: 0.260
R-Value Work: 0.226
R-Value Observed: 0.230
Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.219	α = 90
b = 40.219	β = 90
c = 202.43	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Deposited Date: 2020-08-12
Released Date: 2021-09-08

Deposition Author(s):

Piccirilli, J.A.

Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	1555361

Revision History (Full details and data files)

Version 1.0: 2021-09-08
Type: Initial release
Version 1.1: 2021-10-06
Changes: Database references

RCSB PDB is 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.