BMRB Entry 6509
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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR6509
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Title: Solution Structure of the ScYLV P1-P2 Frameshifting Pseudoknot PubMed: 16123125
Deposition date: 2005-02-17 Original release date: 2005-09-08
Authors: Cornish, P.; Hennig, M.; Giedroc, D.
Citation: Cornish, P.; Hennig, M.; Giedroc, D.. "A loop 2 cytidine-stem 1 minor groove interaction as a positive determinant for pseudoknot-stimulated -1 ribosomal frameshifting." Proc. Natl. Acad. Sci. U. S. A. 102, 12694-12699 (2005).
Assembly members:
ScYLV RNA pseudoknot, polymer, 31 residues, Formula weight is not available
Natural source: Common Name: Sugarcane Yellow Leaf Virus Taxonomy ID: 94290 Superkingdom: Viruses Kingdom: not available Genus/species: Polerovirus Sugarcane yellow leaf virus
Experimental source: Production method: enzymatic semi-synthesis
Entity Sequences (FASTA):
ScYLV RNA pseudoknot: AAAGUGGXGCCGACCACUUA
AAAACACCGGA
- assigned_chemical_shifts
| Data type | Count |
| 13C chemical shifts | 217 |
| 15N chemical shifts | 96 |
| 31P chemical shifts | 28 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | ScYLV RNA pseudoknot | 1 |
Entities:
Entity 1, ScYLV RNA pseudoknot 31 residues - Formula weight is not available
| 1 | A | A | A | G | U | G | G | CH | G | C | ||||
| 2 | C | G | A | C | C | A | C | U | U | A | ||||
| 3 | A | A | A | A | C | A | C | C | G | G | ||||
| 4 | A |
Samples:
sample_1: ScYLV RNA pseudoknot 2 mM; KCl 100 mM; MgCl2 5 mM; H2O 90%; D2O 10%
sample_2: ScYLV RNA pseudoknot 2 mM; KCl 100 mM; MgCl2 5 mM; D2O 100%
sample_3: ScYLV RNA pseudoknot 2 mM; KCl 100 mM; MgCl2 5 mM; PF1 phage 12.5 mg/ml; D2O 100%
sample_cond_1: ionic strength: 150 mM; pH: 6.0; pressure: 1 atm; temperature: 283 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D NOESY | not available | not available | sample_cond_1 |
| 3D 13C-separated NOESY | not available | not available | sample_cond_1 |
| CT-TROSY | not available | not available | sample_cond_1 |
| CT-antiTROSY | not available | not available | sample_cond_1 |
| J-modulated HSQC | not available | not available | sample_cond_1 |
| 2D TOCSY | not available | not available | sample_cond_1 |
Software:
NMRPipe v97.027.12.56 - processing
SPARKY v3.110 - data analysis
X-PLOR NIH v2.9.7 - structure solution, refinement
NMR spectrometers:
- Bruker AVANCE 900 MHz