Concerted dynamics of metallo-base pairs in an A/B-form helical transition (apo species)
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-1H NOESY | 0.3 mM polydeoxyribonucleotide | 90% H2O/10% D2O | 50 mM | 7.75 | ambient atm | 278 | Bruker AVANCE 700 |
| 2 | 2D 1H-1H NOESY | 0.3 mM polydeoxyribonucleotide | 100% D2O | 50 mM | 7.35 | ambient atm | 298 | Bruker AVANCE 700 |
| 3 | 2D 1H-1H TOCSY | 0.3 mM polydeoxyribonucleotide | 100% D2O | 50 mM | 7.35 | ambient atm | 298 | Bruker AVANCE 700 |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 700 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | 2000 preliminary structures were calculated. The 20 lowest energy structures were selected and subsequently refined. Of the 200 refined conformers calculated the 21 lowest energy structures were chosen | Xplor-NIH |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 200 |
| Conformers Submitted Total Number | 20 |
| Representative Model | 1 (fewest violations) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | TopSpin | 4.0.3 | Bruker Biospin |
| 2 | structure calculation | Xplor-NIH | 2.46 | Schwieters, Kuszewski, Tjandra and Clore |
| 3 | chemical shift assignment | Sparky | Goddard | |
| 4 | peak picking | Sparky | Goddard | |
| 5 | refinement | Xplor-NIH | 2.46 | Schwieters, Kuszewski, Tjandra and Clore |
