NMR Structure in a Membrane Environment Reveals Putative Amyloidogenic Regions of the SEVI Precursor Peptide PAP248-286
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-1H TOCSY | 2.5 mM PAP248-286-1, 120 mM sodium chloride-2, 20 mM sodium phosphate-3, 200 mM [U-99% 2H] SDS-4, 10 % [U-99% 2H] D2O-5 | 90% H2O/10% D2O | 20 | 7.3 | ambient | 310 | |
| 2 | 2D 1H-1H NOESY | 2.5 mM PAP248-286-1, 120 mM sodium chloride-2, 20 mM sodium phosphate-3, 200 mM [U-99% 2H] SDS-4, 10 % [U-99% 2H] D2O-5 | 90% H2O/10% D2O | 20 | 7.3 | ambient | 310 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | X-PLOR NIH | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the least restraint violations |
| Conformers Calculated Total Number | 100 |
| Conformers Submitted Total Number | 8 |
| Representative Model | 1 (fewest violations) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | structure solution | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
| 2 | refinement | X-PLOR NIH | Schwieters, Kuszewski, Tjandra and Clore | |
| 3 | collection | TopSpin | 2.16 | Bruker Biospin |
| 4 | processing | TopSpin | 2.16 | Bruker Biospin |
| 5 | data analysis | Sparky | Goddard | |
| 6 | chemical shift assignment | Sparky | Goddard | |
| 7 | peak picking | Sparky | Goddard | |
