BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
Member of WWPDB

BMRB Entry 15157

Title: NMR structure of the UGUU tetraloop of Duck Epsilon apical stem loop of the Hepatitis B virus   PubMed: 17430968

Authors: Girard, F.; Ottink, O.; Ampt, K.; Tessari, M.; Wijmenga, S.

Citation: Girard, F.; Ottink, O.; Ampt, K.; Tessari, M.; Wijmenga, S.. "Thermodynamics and NMR studies on Duck, Heron and Human HBV encapsidation signals"  Nucleic Acids Res. 35, 2800-2811 (2007).

Assembly members:
GCUGUUGU, polymer, 8 residues, Formula weight is not available

Natural source:   Common Name: not available   Taxonomy ID: not available   Superkingdom: not available   Kingdom: not available   Genus/species: not available not available

Experimental source:   Production method: chemical synthesis

Entity Sequences (FASTA):
GCUGUUGU: GCUGUUGU

Data sets:
Data typeCount
15N chemical shifts2
1H chemical shifts27

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
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Assembly:

Entity Assembly IDEntity NameEntity ID
1RNA1

Entities:

Entity 1, RNA 8 residues - Formula weight is not available

1   GCUGUUGU

Samples:

sample_1: 5'-R(P*GP*CP*UP*GP*UP*UP*GP*U)-3' 1.2 mM; sodium phosphate 10 mM; EDTA 0.1 mM; H2O 95%; D2O 5%

sample_2: 5'-R(P*GP*CP*UP*GP*UP*UP*GP*U)-3', [U-13C; U-15N; U-2H], 1 mM; sodium phosphate 10 mM; EDTA 0.1 mM; H2O 95%; D2O 5%

sample_3: 5'-R(P*GP*CP*UP*GP*UP*UP*GP*U)-3' 1.2 mM; sodium phosphate 10 mM; EDTA 0.1 mM; D2O 100%

sample_4: 5'-R(P*GP*CP*UP*GP*UP*UP*GP*U)-3', [U-13C; U-15N; U-2H], 1.0 mM; sodium phosphate 10 mM; EDTA 0.1 mM; D2O 100%

sample_conditions_1: ionic strength: 10 mM; pH: 6.7; pressure: 1 atm; temperature: 278 K

sample_conditions_2: ionic strength: 10 mM; pH: 6.7; pressure: 1 atm; temperature: 288 K

sample_conditions_3: ionic strength: 10 mM; pH: 6.7; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D NOESYsample_1isotropicsample_conditions_1
2D NOESYsample_1isotropicsample_conditions_2
HMQC-15N/1Hsample_2isotropicsample_conditions_1
DQF-COSYsample_3isotropicsample_conditions_3
HMQC-13C/1Hsample_4isotropicsample_conditions_3
2D NOESYsample_3isotropicsample_conditions_3

Software:

X-PLOR v3.851*, Brunger - refinement

NMR spectrometers:

  • Varian INOVA 500 MHz
  • Varian INOVA 800 MHz

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