BMRB Entry 30853

Name: Denv1 5'UTR Stem3
Published: 2022-02-04

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PDB ID: 7ume
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR30853
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title: Denv1 5'UTR Stem3 PubMed: 35750488

Deposition date: 2021-02-05 Original release date: 2022-02-04

Authors: Sun, Y.; Varani, G.

Citation: Sun, Y.; Varani, G.. "Structure of the Dengue Virus RNA Promoter" RNA 28, 1210-1223 (2022).

Assembly members:
entity_1, polymer, 28 residues, 9016.454 Da.

Natural source: Common Name: Escherichia phage T7 Taxonomy ID: 10760 Superkingdom: Viruses Kingdom: not available Genus/species: Teseptimavirus Escherichia phage T7

Experimental source: Production method: chemical synthesis

Entity Sequences (FASTA):
entity_1: GGCCGACAAGAACAGUUUCG AAUCGGCC

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
1H chemical shifts	119

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	unit_1	1

Entities:

Entity 1, unit_1 28 residues - 9016.454 Da.

1

G

C

G

A

C

A

G

2

A

C

A

G

U

C

G

3

A

U

C

G

C

Samples:

sample_1: Stem3 400 uM

sample_2: Stem3, [U-100% 13C; U-100% 15N], 400 uM

sample_3: Stem3, [U-100% 13C; U-100% 15N], 400 uM

sample_conditions_1: ionic strength: 40 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 TOCSY	sample_1	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_3	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_2	isotropic	sample_conditions_1

Software:

TopSpin, Bruker Biospin - processing

X-PLOR NIH, Schwieters, Kuszewski, Tjandra and Clore - refinement, structure calculation

NMRFAM-SPARKY, NMRFAM-SPARKY - chemical shift assignment

NMR spectrometers:

Bruker AVANCE II 600 MHz