Solution structure of the leader sequence of the patellamide precursor peptide, PatE1-34
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-1H WCOSY | 50 % H2O, 50 % [U-100% 2H] TFE, 100 mM sodium chloride, 20 mM sodium phosphate, 1 mM PatE1-34 | trifluoroethanol/water | 0.160 | 5.7 | ambient | 25 | |
| 2 | 2D 1H-1H TOCSY 40ms mix | 50 % H2O, 50 % [U-100% 2H] TFE, 100 mM sodium chloride, 20 mM sodium phosphate, 1 mM PatE1-34 | trifluoroethanol/water | 0.160 | 5.7 | ambient | 25 | |
| 3 | 2D 1H-1H NOESY 60ms mix | 50 % H2O, 50 % [U-100% 2H] TFE, 100 mM sodium chloride, 20 mM sodium phosphate, 1 mM PatE1-34 | trifluoroethanol/water | 0.160 | 5.7 | ambient | 25 | |
| 4 | 2D 1H-1H TOCSY 80ms mix | 50 % H2O, 50 % [U-100% 2H] TFE, 100 mM sodium chloride, 20 mM sodium phosphate, 1 mM PatE1-34 | trifluoroethanol/water | 0.160 | 5.7 | ambient | 25 | |
| 5 | D 1H-1H NOESY 120ms mix | 50 % H2O, 50 % [U-100% 2H] TFE, 100 mM sodium chloride, 20 mM sodium phosphate, 1 mM PatE1-34 | trifluoroethanol/water | 0.160 | 5.7 | ambient | 25 | |
| 6 | D 1H-1H NOESY 200ms mix | 50 % H2O, 50 % [U-100% 2H] TFE, 100 mM sodium chloride, 20 mM sodium phosphate, 1 mM PatE1-34 | trifluoroethanol/water | 0.160 | 5.7 | ambient | 25 | |
| 7 | D 1H-1H NOESY 300ms mix | 50 % H2O, 50 % [U-100% 2H] TFE, 100 mM sodium chloride, 20 mM sodium phosphate, 1 mM PatE1-34 | trifluoroethanol/water | 0.160 | 5.7 | ambient | 25 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 600 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | aria 2 protocol, no solvent refinement, no full relaxation matrix, network anchoring fro the first 4 of 8 rounds of calculation, cooling phases extended by 4 fold | ARIA |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 14 |
| Conformers Submitted Total Number | 14 |
| Representative Model | 1 (lowest energy) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | structure solution | ARIA | 2.2u3 | Linge, O'Donoghue and Nilges |
| 2 | chemical shift assignment | ARIA | 2.2u3 | Linge, O'Donoghue and Nilges |
| 3 | data analysis | ccpn_analysis | 1.15 | ccpn, cambridge |
| 4 | chemical shift assignment | ccpn_analysis | 1.15 | ccpn, cambridge |
| 5 | peak picking | ccpn_analysis | 1.15 | ccpn, cambridge |
| 6 | structure solution | CNS | 1.1 | Brunger, Adams, Clore, Gros, Nilges and Read |
| 7 | refinement | CNS | 1.1 | Brunger, Adams, Clore, Gros, Nilges and Read |
| 8 | processing | NMRPipe | 3.0 Rev 2007.068.09.07 | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax |
