The Three Dimensional Structure of the Moorella thermoacetica Selenocysteine Insertion Sequence RNA Hairpin and its Interaction with the Elongation factor SelB
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-1H NOESY | 3-5mg SECIS-MT RNA | 90% H2O/10% D2O | 278 | ||||
| 2 | 2D 1H-1H NOESY | 3-5mg SECIS-MT RNA | 90% H2O/10% D2O | 298 | ||||
| 3 | 2D 1H-1H TOCSY | 3-5mg SECIS-MT RNA | 100% D2O | 298 | ||||
| 4 | 2D 1H-13C HSQC | 3-5mg [U-100% 13C; U-100% 15N] SECIS-MT RNA | 100% D2O | 298 | ||||
| 5 | 2D 1H-15N HSQC | 3-5mg [U-100% 13C; U-100% 15N] SECIS-MT RNA | 90% H2O/10% D2O | 278 | ||||
| 6 | 3D 1H-13C NOESY | 3-5mg [U-100% 13C; U-100% 15N] SECIS-MT RNA | 100% D2O | 298 | ||||
| 7 | 3D 1H-15N NOESY | 3-5mg [U-100% 13C; U-100% 15N] SECIS-MT RNA | 90% H2O/10% D2O | 278 | ||||
| 8 | 3D HCCH-TOCSY | 3-5mg [U-100% 13C; U-100% 15N] SECIS-MT RNA | 100% D2O | 298 | ||||
| 9 | 3D HCCH-COSY | 3-5mg [U-100% 13C; U-100% 15N] SECIS-MT RNA | 100% D2O | 298 | ||||
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | DRX | 600 |
| 2 | Varian | INOVA | 800 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing, molecular dynamics | XwinNMR | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the noe lowest energy |
| Conformers Calculated Total Number | 30 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | XwinNMR | Bruker Biospin | |
| 2 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 3 | processing | NMRDraw | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 4 | peak picking | NMRView | Johnson, One Moon Scientific | |
| 5 | data analysis | NMRView | Johnson, One Moon Scientific | |
| 6 | structure solution | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
| 7 | refinement | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
