BMRB Entry 15656
BMRB Entry DOI: doi:10.13018/BMR15656
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Title: Apical Stem Loop Duck HBV PubMed: 19636894
Deposition date: 2008-02-13 Original release date: 2008-09-12
Authors: Ampt, Kirsten; Ottink, Otmar; Girard, Fred; Nelissen, Frank; Tessari, Marco; Wijmenga, Sybren
Citation: Ampt, Kirsten; Ottink, Otmar; Girard, Fred; Nelissen, Frank; Tessari, Marco; Wijmenga, Sybren. "1H, 13C and 15N NMR assignments of Duck HBV apical stem loop of the epsilon encapsidation signal" Biomol. NMR Assignments 2, 159-162 (2008).
Assembly members:
Duck_HBV_apical_loop, polymer, 29 residues, Formula weight is not available
Natural source: Common Name: Hepatitis B virus Taxonomy ID: 10407 Superkingdom: Viruses Kingdom: not available Genus/species: Orthohepadnavirus Hepatitis B virus
Experimental source: Production method: chemical synthesis
Entity Sequences (FASTA):
Duck_HBV_apical_loop: GGUCUACAUUGCUGUUGUCG
UGUGUGACC
- assigned_chemical_shifts
Data type | Count |
13C chemical shifts | 194 |
15N chemical shifts | 45 |
1H chemical shifts | 315 |
Additional metadata:
Assembly:
Entity Assembly ID | Entity Name | Entity ID |
---|---|---|
1 | APIC | 1 |
Entities:
Entity 1, APIC 29 residues - Formula weight is not available
1 | G | G | U | C | U | A | C | A | U | U | ||||
2 | G | C | U | G | U | U | G | U | C | G | ||||
3 | U | G | U | G | U | G | A | C | C |
Samples:
sample_1: Duck HBV apical loop 1.2 mM; sodium phosphate buffer 10 mM; EDTA 0.1 mM; H2O 95%; D2O 5%
sample_2: Duck HBV apical loop 1.2 mM; sodium phosphate buffer 10 mM; EDTA 0.1 mM; D2O 100%
sample_3: Duck HBV apical loop, [U-13C; U-15N]-Ura, 1 mM; sodium phosphate buffer 10 mM; EDTA 0.1 mM; D2O 5%; H2O 95%
sample_4: Duck HBV apical loop, [U-13C; U-15N]-Ura, 1 mM; sodium phosphate buffer 10 mM; EDTA 0.1 mM; D2O 100%
sample_5: Duck HBV apical loop, [U-13C; U-15N], 0.7 mM; sodium phosphate buffer 10 mM; EDTA 0.1 mM; D2O 5%; H2O 95%; DSS 1 mM
sample_6: Duck HBV apical loop, [U-13C; U-15N], 0.7 mM; sodium phosphate buffer 10 mM; EDTA 0.1 mM; D2O 5%; H2O 95%; Pf1 phage 15 mg/ml
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:
Name | Sample | Sample state | Sample conditions |
---|---|---|---|
2D 1H-1H NOESY | sample_1 | isotropic | sample_conditions_1 |
2D 1H-1H NOESY | sample_2 | isotropic | sample_conditions_3 |
3D 1H-13C NOESY | sample_5 | isotropic | sample_conditions_2 |
2D 1H-15N HSQC | sample_3 | isotropic | sample_conditions_1 |
2D 1H-15N HSQC | sample_5 | isotropic | sample_conditions_2 |
2D 1H-13C HSQC | sample_2 | isotropic | sample_conditions_3 |
2D 1H-13C HSQC | sample_4 | isotropic | sample_conditions_3 |
2D 1H-13C HSQC | sample_5 | isotropic | sample_conditions_2 |
2D DQF-COSY | sample_2 | isotropic | sample_conditions_3 |
2D 1H-1H COSY | sample_5 | isotropic | sample_conditions_2 |
3D HCCH-TOCSY | sample_5 | isotropic | sample_conditions_2 |
3D HCN | sample_5 | isotropic | sample_conditions_2 |
Software:
SPARKY, Goddard - chemical shift assignment, peak picking
NMRDraw, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing
NMR spectrometers:
- Varian INOVA 500 MHz
- Varian INOVA 600 MHz
- Varian INOVA 800 MHz