2RQJ

Quadruplex structure of an RNA aptamer against bovine prion protein


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D 1H-1H NOESY1mM RNA-1, 10mM potassium phosphate-2, 100mM potassium chloride-3, 0.01mM DSS-4, 3mM sodium azide-595% H2O/5% D2O0.16.2ambient atm278
22D 1H-1H NOESY1mM RNA-1, 10mM potassium phosphate-2, 100mM potassium chloride-3, 0.01mM DSS-4, 3mM sodium azide-595% H2O/5% D2O0.16.2ambient atm303
32D 1H-1H NOESY1mM RNA-6, 10mM potassium phosphate-7, 100mM potassium chloride-8, 0.01mM DSS-9, 3mM sodium azide-10, 95% H2O/5% D2O100% D2O0.16.2ambient atm303
42D 1H-1H TOCSY1mM RNA-1, 10mM potassium phosphate-2, 100mM potassium chloride-3, 0.01mM DSS-4, 3mM sodium azide-595% H2O/5% D2O0.16.2ambient atm303
52D 1H-1H TOCSY1mM RNA-6, 10mM potassium phosphate-7, 100mM potassium chloride-8, 0.01mM DSS-9, 3mM sodium azide-10, 95% H2O/5% D2O100% D2O0.16.2ambient atm303
62D DQF-COSY1mM RNA-6, 10mM potassium phosphate-7, 100mM potassium chloride-8, 0.01mM DSS-9, 3mM sodium azide-10, 95% H2O/5% D2O100% D2O0.16.2ambient atm303
72D 1H-13C HSQC1mM RNA-6, 10mM potassium phosphate-7, 100mM potassium chloride-8, 0.01mM DSS-9, 3mM sodium azide-10, 95% H2O/5% D2O100% D2O0.16.2ambient atm303
8JRHMBC1mM RNA-1, 10mM potassium phosphate-2, 100mM potassium chloride-3, 0.01mM DSS-4, 3mM sodium azide-595% H2O/5% D2O0.16.2ambient atm303
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerDRX800
2BrukerDRX600
NMR Refinement
MethodDetailsSoftware
simulated annealingX-PLOR NIH
NMR Ensemble Information
Conformer Selection Criteriastructures with the lowest energy
Conformers Calculated Total Number200
Conformers Submitted Total Number9
Representative Model1 (lowest energy)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1structure solutionX-PLOR NIH2.20Schwieters, Kuszewski, Tjandra and Clore
2collectionXwinNMRBruker Biospin
3collectionTopSpinBruker Biospin
4chemical shift assignmentSparkyGoddard
5peak pickingSparkyGoddard
6processingNMRPipeDelaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
7chemical shift assignmentPIPPGarrett
8peak pickingPIPPGarrett
9refinementX-PLOR NIH2.20Schwieters, Kuszewski, Tjandra and Clore