2MXK
Structural features of a 3' splice site influenza A: 19-nt duplex
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 | 4.0 mM RNA (19-MER) | 95% H2O/5% D2O | 101.12 | 6.0 | ambient atm | 273.15 | |
2 | 2D 1H-1H NOESY | 1.0 mM RNA (19-MER) | 100% D2O | 101.12 | 6.0 | ambient atm | 298.15 | |
3 | 2D 1H-1H NOESY | 1.0 mM RNA (19-MER) | 100% D2O | 101.12 | 6.0 | ambient atm | 271.15 | |
4 | 2D 1H-1H TOCSY | 1.0 mM RNA (19-MER) | 100% D2O | 101.12 | 6.0 | ambient atm | 298.15 | |
5 | 2D 1H-1H TOCSY | 1.0 mM RNA (19-MER) | 100% D2O | 101.12 | 6.0 | ambient atm | 271.15 | |
6 | 2D 1H-31P HETCOR | 1.0 mM RNA (19-MER) | 100% D2O | 101.12 | 6.0 | ambient atm | 298.15 | |
7 | 2D 1H-1H TOCSY | 4.0 mM RNA (19-MER) | 95% H2O/5% D2O | 101.12 | 6.0 | ambient atm | 273.15 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | INOVA | 600 |
2 | Varian | INOVA | 500 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
simulated annealing | Amber |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | lowest NOE restraint violation energy |
Conformers Calculated Total Number | 20 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest noe restraint violation energy) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | refinement | Amber | Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman | |
2 | chemical shift assignment | Sparky | Goddard | |
3 | peak picking | Sparky | Goddard | |
4 | data analysis | Sparky | Goddard | |
5 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
6 | collection | VNMR | Varian |