BMRB Entry 36422

Name: T-hairpin structure found in the RNA element involved in the piRNA biogenesis
Published: 2022-03-19

Click here to enlarge.

PDB ID: 7exy
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR36422
MolProbity Validation Chart

NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
XML gzip file.
RDF gzip file.
All files associated with the entry

Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

Select model:

I am color blind

Download raw data. Direct link to this display. Help

Title: T-hairpin structure found in the RNA element involved in the piRNA biogenesis PubMed: 34987083

Deposition date: 2021-05-29 Original release date: 2022-03-19

Authors: Takase, N.; Kawai, G.

Citation: Takase, N.; Otsu, M.; Hirakata, S.; Ishizu, H.; Siomi, M.; Kawai, G.. "T-hairpin structure found in the RNA element involved in piRNA biogenesis" RNA 28, 541-550 (2022).

Assembly members:
RNA (5'-R(*UP*UP*GP*GP*UP*UP*UP*GP*AP*UP*UP*CP*CP*AP*AP*G)-3'), polymer, 16 residues, 5077.007 Da.

Natural source: Common Name: fruit fly Taxonomy ID: 7227 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Drosophila melanogaster

Experimental source: Production method: chemical synthesis

Entity Sequences (FASTA):
RNA (5'-R(*UP*UP*GP*GP*UP*UP*UP*GP*AP*UP*UP*CP*CP*AP*AP*G)-3'): UUGGUUUGAUUCCAAG

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
1H chemical shifts	76

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	unit_1	1

Entities:

Entity 1, unit_1 16 residues - 5077.007 Da.

1

U

G

U

G

A

U

2

U

C

A

G

Samples:

sample_1: RNA (5'-R(*UP*UP*GP*GP*UP*UP*UP*GP*AP*UP*UP*CP*CP*AP*AP*G)-3') 0.3 mM; sodium phosphate 20 mM; sodium chloride 50 mM; H2O 95%; D2O, [U-2H], 5%

sample_conditions_1: ionic strength: 50 mM; pH: 6.5; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-1H HOHAHA	sample_1	isotropic	sample_conditions_1

Software:

CNS v1.3, Brunger, Adams, Clore, Gros, Nilges and Read - structure calculation

Sparky v3.114, Goddard - chemical shift assignment, peak picking

NMR spectrometers:

Bruker AVANCE III 600 MHz