2AP0
Solution Structure of the C27A ScYLV P1-P2 Frameshifting Pseudoknot, 20 Lowest Energy Structures
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | 2.7mM C27A ScYLV; 100mM KCl; 5mM MgCl2 | 90% H2O/10% D2O | 100mM KCl, 5mM MgCl2 | 6.0 | ambient | 283 | |
2 | 2D NOESY | 2.7mM C27A ScYLV; 100mM KCl; 5mM MgCl2 | 100% D2O | 100mM KCl, 5mM MgCl2 | 6.0 | ambient | 298 | |
3 | 2D TOCSY | 2.7mM C27A ScYLV; 100mM KCl; 5mM MgCl2 | 100% D2O | 100mM KCl, 5mM MgCl2 | 6.0 | ambient | 298 | |
4 | TROSY | 2.7mM C27A ScYLV; 100mM KCl; 5mM MgCl2 | 100% D2O |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | INOVA | 500 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing starting with random coordinates followed by refinement with residual dipolar couplings | NMRPipe |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the least restraint violations |
Conformers Calculated Total Number | 20 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | processing | NMRPipe | Mac OS X version | F. Delaglio, S. Grzesiek, G. W. Vuister, G. Zhu, J. Pfeifer and A. Bax |
2 | data analysis | Sparky | 3 | T. D. Goddard and D. G. Kneller |
3 | refinement | XPLOR-NIH | 2.10 | G. Marius Clore , John Kuszewski, Charles D. Schwieters, and Nico Tjandra |