Solution structure of E.coli RNase P RNA P4 stem oligoribonucleotide, U69C/C70U mutation
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D NOESY | 2mM P4 U69C/C70U RNA; 100mM NaCl; 10mM phosphate buffer pH 6.4; 90% H2O, 10% D2O | 90% H2O/10% D2O | 100mM NaCl | 6.4 | ambient | 288 | |
| 2 | 2D NOESY | 2mM P4 U69C/C70U RNA; 100mM NaCl; 10mM phosphate buffer pH 6.4; 100% D2O | 100% D2O | 100mM NaCl | 6.4 | ambient | 288 | |
| 3 | DQF-COSY | 2mM P4 U69C/C70U RNA; 100mM NaCl; 10mM phosphate buffer pH 6.4; 100% D2O | 100% D2O | 100mM NaCl | 6.4 | ambient | 288 | |
| 4 | 31P-1H-Hetero-COSY | 2mM P4 U69C/C70U RNA; 100mM NaCl; 10mM phosphate buffer pH 6.4; 100% D2O | 100% D2O | 100mM NaCl | 6.4 | ambient | 288 | |
| 5 | 31P-1H-Hetero-TOCSY-NOESY | 2mM P4 U69C/C70U RNA; 100mM NaCl; 10mM phosphate buffer pH 6.4; 100% D2O | 100% D2O | 100mM NaCl | 6.4 | ambient | 288 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | DMX | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| restrained molecular dynamics and simulated annealing | The average structure is based on the superposition of 14 structures after refinement. The average RMS deviation between the ensemble and the average structure is 1.77 Angstrom. A total of 261 NOE-derived distance constraints, 246 dihedral restraints and 48 distance restraints from hydrogen bonds were used in refinement. | XwinNMR |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | |
| Conformers Calculated Total Number | |
| Conformers Submitted Total Number | 1 |
| Representative Model | 1 (minimized average structure) |
| Additional NMR Experimental Information | |
|---|---|
| Details | The structure was determined using standard 2D homonuclear techniques as well as 13C and 31P heteronuclear experiments performed at natural abundance |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | XwinNMR | 1.2 | Bruker |
| 2 | processing | NMRPipe | 2.1 | F. Delaglio |
| 3 | structure solution | X-PLOR | 3.1 | |
| 4 | refinement | X-PLOR | 3.1 | |
