Structure of amyloid precursor protein's transmembrane domain
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-15N HSQC | 0.3-1 mM [U-100% 13C; U-100% 15N] APPjmtm, 21-70 mM [U-100% 2H] DPC | 95% H2O/5% D2O | 20 | 4.6 | ambient | 318 | |
| 2 | 2D 1H-13C HSQC | 0.3-1 mM [U-100% 13C; U-100% 15N] APPjmtm, 21-70 mM [U-100% 2H] DPC | 95% H2O/5% D2O | 20 | 4.6 | ambient | 318 | |
| 3 | 3D HNCO | 0.3-1 mM [U-100% 13C; U-100% 15N] APPjmtm, 21-70 mM [U-100% 2H] DPC | 95% H2O/5% D2O | 20 | 4.6 | ambient | 318 | |
| 4 | 3D HNCA | 0.3-1 mM [U-100% 13C; U-100% 15N] APPjmtm, 21-70 mM [U-100% 2H] DPC | 95% H2O/5% D2O | 20 | 4.6 | ambient | 318 | |
| 5 | 3D HN(CO)CA | 0.3-1 mM [U-100% 13C; U-100% 15N] APPjmtm, 21-70 mM [U-100% 2H] DPC | 95% H2O/5% D2O | 20 | 4.6 | ambient | 318 | |
| 6 | 3D HCCH-TOCSY | 0.3-1 mM [U-100% 13C; U-100% 15N] APPjmtm, 21-70 mM [U-100% 2H] DPC | 95% H2O/5% D2O | 20 | 4.6 | ambient | 318 | |
| 7 | 3D 1H-13C NOESY aliphatic | 0.3-1 mM [U-100% 13C; U-100% 15N] APPjmtm, 21-70 mM [U-100% 2H] DPC | 95% H2O/5% D2O | 20 | 4.6 | ambient | 318 | |
| 8 | 2D 1H-15N HSQC | 0.3-1 mM [U-100% 15N] APPjmtm, 21-70 mM DPC | 95% H2O/5% D2O | 20 | 4.6 | ambient | 318 | |
| 9 | 3D 1H-15N NOESY | 0.3-1 mM [U-100% 15N] APPjmtm, 21-70 mM DPC | 95% H2O/5% D2O | 20 | 4.6 | ambient | 318 | |
| 10 | 3D 1H-15N TOCSY | 0.3-1 mM [U-100% 15N] APPjmtm, 21-70 mM DPC | 95% H2O/5% D2O | 20 | 4.6 | ambient | 318 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 600 |
| 2 | Bruker | AVANCE | 800 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | TopSpin | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the least restraint violations |
| Conformers Calculated Total Number | 20 |
| Conformers Submitted Total Number | 20 |
| Representative Model | 1 (fewest violations) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | collection | TopSpin | Bruker Biospin | |
| 2 | processing | TopSpin | Bruker Biospin | |
| 3 | structure solution | CYANA | 2.1 | Guntert, Mumenthaler and Wuthrich |
| 4 | refinement | CYANA | 2.1 | Guntert, Mumenthaler and Wuthrich |
| 5 | geometry optimization | MOLMOL | Koradi, Billeter and Wuthrich | |
| 6 | visualization | MOLMOL | Koradi, Billeter and Wuthrich | |
| 7 | refinement | TALOS+ | Cornilescu, Delaglio and Bax | |
| 8 | structure solution | TALOS+ | Cornilescu, Delaglio and Bax | |
| 9 | chemical shift assignment | CARA | R.L.J.Keller | |
| 10 | data analysis | CARA | R.L.J.Keller | |
| 11 | peak picking | CARA | R.L.J.Keller | |
