BMRB Entry 30701

Title:
61 nt human Hepatitis B virus epsilon pre-genomic RNA
Deposition date:
2019-12-17
Original release date:
2020-12-26
Authors:
LeBlanc, R.; Kasprzak, W.; Longhini, A.; Abulwerdi, F.; Ginocchio, S.; Shields, B.; Nyman, J.; Svirydava, M.; Del Vecchio, C.; Ivanic, J.; Schneekloth, J.; Dayie, T.; Shapiro, B.; Le Grice, S.
Citation:

Citation: LeBlanc, R.; Kasprzak, W.; Longhini, A.; Abulwerdi, F.; Ginocchio, S.; Shields, B.; Nyman, J.; Svirydava, M.; Del Vecchio, C.; Ivanic, J.; Schneekloth, J.; Dayie, T.; Shapiro, B.; Le Grice, S.. "Structural insights of the conserved 'priming loop' of Hepatitis B virus pre-genomic RNA and its therapeutic potential."  To be published ., .-..

Assembly members:

Assembly members:
entity_1, polymer, 61 residues, 19541.488 Da.

Natural source:

Natural source:   Common Name: HBV   Taxonomy ID: 10407   Superkingdom: Viruses   Kingdom: not available   Genus/species: Orthohepadnavirus HBV

Experimental source:   Production method: chemical synthesis

Experimental source:

Natural source:   Common Name: HBV   Taxonomy ID: 10407   Superkingdom: Viruses   Kingdom: not available   Genus/species: Orthohepadnavirus HBV

Experimental source:   Production method: chemical synthesis

Entity Sequences (FASTA):

Data sets:
Data typeCount
13C chemical shifts164
15N chemical shifts27
1H chemical shifts283

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1entity_11

Entities:

Entity 1, entity_1 61 residues - 19541.488 Da.

1   GGUUCAUGUC
2   CUACUGUUCA
3   AGCCUCCAAG
4   CUGUGCCUUG
5   GGUGGCUUUG
6   GGGCAUGGAC
7   C

Samples:

sample_1: RNA (61-MER), [U-13C; U-15N], 0.8 mM

sample_2: RNA (61-MER), [U-13C; U-15N], 0.8 mM

sample_3: RNA (61-MER), 13C-selective, 0.7 mM

sample_conditions_1: ionic strength: 10 mM; pH: 6.4; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_2isotropicsample_conditions_1
2D 1H-13C HSQC aliphaticsample_1isotropicsample_conditions_1
2D 1H-13C HSQC aromaticsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_2isotropicsample_conditions_1
3D 1H-13C NOESY aliphaticsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aromaticsample_1isotropicsample_conditions_1
2D 1H-1H NOESYsample_2isotropicsample_conditions_1
2D 1H-1H NOESYsample_1isotropicsample_conditions_1
3D HCNsample_1isotropicsample_conditions_1
2D HNCCNCHsample_2isotropicsample_conditions_1
Filter/Edit NOESYsample_3isotropicsample_conditions_1

Software:

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

NMRView, Johnson, One Moon Scientific - chemical shift assignment, peak picking

NMR spectrometers:

  • Bruker Ascend 800 MHz
  • Bruker Ultrashield Plus 600 MHz