2JXS
NMR structure of RNA duplex containing single adenosine bulge
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-1H NOESY | 0.5 mM RNA, 0.5 mM RNA | 100% D2O | 60 | 6.8 | ambient | 298 | |
2 | 2D 1H-1H NOESY | 0.5 mM RNA, 0.5 mM RNA | 100% D2O | 60 | 6.8 | ambient | 293 | |
3 | 2D DQF-COSY | 0.5 mM RNA, 0.5 mM RNA | 100% D2O | 60 | 6.8 | ambient | 298 | |
4 | 2D 1H-1H TOCSY | 0.5 mM RNA, 0.5 mM RNA | 100% D2O | 60 | 6.8 | ambient | 298 | |
5 | 2D 1H-13C HSQC | 0.5 mM RNA, 0.5 mM RNA | 100% D2O | 60 | 6.8 | ambient | 298 | |
6 | 2D 1H-31P HSQC | 0.5 mM RNA, 0.5 mM RNA | 100% D2O | 60 | 6.8 | ambient | 298 | |
7 | 2D 1H-1H NOESY | 0.5 mM RNA, 0.5 mM RNA | 90% H2O/10% D2O | 60 | 6.8 | ambient | 283 | |
8 | 1D NOE | 0.5 mM RNA, 0.5 mM RNA | 90% H2O/10% D2O | 60 | 6.8 | ambient | 283 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 600 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
torsion angle dynamics | XPLOR-NIH |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 50 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (closest to the average) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | structure solution | XPLOR-NIH | 2.18 | C.D. Schwieters, J.J. Kuszewski, N. Tjandra and G.M. Clore |
2 | refinement | XPLOR-NIH | 2.18 | C.D.Schwieters, J.J.Kuszewski, N.Tjandra, G.M.Clore |
3 | collection | TopSpin | 2.0 | Bruker Biospin |
4 | processing | TopSpin | 2.0 | Bruker Biospin |
5 | chemical shift assignment | Felix | 2000 | Accelrys Software Inc. |
6 | peak picking | Felix | 2000 | Accelrys Software Inc. |
7 | data analysis | Curves | 5.3 | Lavery and Sklenar |