BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 6509

Title: Solution Structure of the ScYLV P1-P2 Frameshifting Pseudoknot   PubMed: 16123125

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

Data sets:
Data typeCount
13C chemical shifts217
15N chemical shifts96
31P chemical shifts28

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1ScYLV RNA pseudoknot1

Entities:

Entity 1, ScYLV RNA pseudoknot 31 residues - Formula weight is not available

1   AAAGUGGCHGC
2   CGACCACUUA
3   AAAACACCGG
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:

NameSampleSample stateSample conditions
2D NOESYnot availablenot availablesample_cond_1
3D 13C-separated NOESYnot availablenot availablesample_cond_1
CT-TROSYnot availablenot availablesample_cond_1
CT-antiTROSYnot availablenot availablesample_cond_1
J-modulated HSQCnot availablenot availablesample_cond_1
2D TOCSYnot availablenot availablesample_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

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