BMRB Entry 31008

Title:
DENV1 SLA RNA (DenvSLATL)
Deposition date:
2022-04-06
Original release date:
2022-06-30
Authors:
Sun, Y.; Varani, G.; Seattle Structural Genomics Center for Infectious Disease (SSGCID), .
Citation:

Citation: Sun, Y.; Varani, G.. "Structure of the Dengue Virus RNA Promoter"  RNA 28, 1210-1223 (2022).
PubMed: 35750488

Assembly members:

Assembly members:
entity_1, polymer, 70 residues, 22614.471 Da.

Natural source:

Natural source:   Common Name: Dengue virus 1   Taxonomy ID: 11053   Superkingdom: Viruses   Kingdom: not available   Genus/species: Flavivirus Dengue virus 1

Experimental source:

Experimental source:   Production method: chemical synthesis

Entity Sequences (FASTA):

Data sets:
Data typeCount
1H chemical shifts185

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1unit_11

Entities:

Entity 1, unit_1 70 residues - 22614.471 Da.

1   GGAGUGGUUA
2   GUCUACGUGG
3   ACCGACAAGA
4   CUUCGGUCGA
5   AUCGGAAGGA
6   AACUUAACGU
7   AGUUCUAACC

Samples:

sample_1: RNA (70-MER) 1 mM; potassium phosphate 10 mM

sample_2: RNA (70-MER), [U-2H], 1 mM; potassium phosphate 10 mM

sample_3: RNA (70-MER) 1 mM; potassium phosphate 10 mM

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

Experiments:

NameSampleSample stateSample conditions
2D 1H-1H NOESYsample_1isotropicsample_conditions_1
2D 1H-1H TOCSYsample_1isotropicsample_conditions_1
2D 1H-1H NOESYsample_2isotropicsample_conditions_1
2D 1H-1H TOCSYsample_2isotropicsample_conditions_1
2D 1H-1H NOESYsample_3isotropicsample_conditions_1

Software:

TopSpin, Bruker Biospin - collection, processing

NMRFAM-SPARKY, Lee W, Tonelli M, Markley JL - peak picking

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

NMR spectrometers:

  • Bruker AVANCE III 600 MHz
  • Bruker AVANCE III 800 MHz