Glycyl-tRNA(UCC)1B anticodon stem-loop from Staphylococcus epidermidis
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-13C HSQC | 0.02-0.04 mM RNA (5'-R(*GP*GP*GP*AP*CP*CP*UP*UP*CP*CP*CP*GP*GP*UP*CP*UP*C)-3') | 100% D2O | 10 | 6.2 | ambient | 298 | |
| 2 | 2D 1H-1H COSY | 0.02-0.04 mM RNA (5'-R(*GP*GP*GP*AP*CP*CP*UP*UP*CP*CP*CP*GP*GP*UP*CP*UP*C)-3') | 100% D2O | 10 | 6.2 | ambient | 298 | |
| 3 | 2D 1H-1H NOESY | 0.02-0.04 mM RNA (5'-R(*GP*GP*GP*AP*CP*CP*UP*UP*CP*CP*CP*GP*GP*UP*CP*UP*C)-3') | 90% H2O/10% D2O | 10 | 6.2 | ambient | 298 | |
| 4 | 3D 1H-13C NOESY | 0.02-0.04 mM RNA (5'-R(*GP*GP*GP*AP*CP*CP*UP*UP*CP*CP*CP*GP*GP*UP*CP*UP*C)-3') | 100% D2O | 10 | 6.2 | ambient | 298 | |
| 5 | 3D HCCH-TOCSY | 0.02-0.04 mM RNA (5'-R(*GP*GP*GP*AP*CP*CP*UP*UP*CP*CP*CP*GP*GP*UP*CP*UP*C)-3') | 100% D2O | 10 | 6.2 | ambient | 298 | |
| 6 | 2D HCN | 0.02-0.04 mM RNA (5'-R(*GP*GP*GP*AP*CP*CP*UP*UP*CP*CP*CP*GP*GP*UP*CP*UP*C)-3') | 100% D2O | 10 | 6.2 | ambient | 298 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 500 |
| 2 | Varian | INOVA | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | Felix | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 50 |
| Conformers Submitted Total Number | 8 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | chemical shift assignment | Felix | Accelrys Software Inc. | |
| 2 | processing | Felix | Accelrys Software Inc. | |
| 3 | structure solution | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
| 4 | refinement | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
