2LOH
Dimeric structure of transmembrane domain of amyloid precursor protein in micellar environment
SOLUTION NMR
NMR Experiment | ||||||||
---|---|---|---|---|---|---|---|---|
Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-15N HSQC | 0.9 mM [U-100% 15N] APPjmtm, 36 mM DPC | 95% H2O/5% D2O | 20 | 6.2 | ambient | 318 | |
2 | 3D 1H-15N NOESY | 0.9 mM [U-100% 15N] APPjmtm, 36 mM DPC | 95% H2O/5% D2O | 20 | 6.2 | ambient | 318 | |
3 | 2D 1H-15N HSQC | 0.75 mM [U-100% 13C; U-100% 15N] APPjmtm, 0.75 mM APPjmtm, 60 mM [U-98% 2H] DPC | 100% D2O | 20 | 6.2 | ambient | 318 | |
4 | 3D HNCO | 0.75 mM [U-100% 13C; U-100% 15N] APPjmtm, 0.75 mM APPjmtm, 60 mM [U-98% 2H] DPC | 100% D2O | 20 | 6.2 | ambient | 318 | |
5 | 3D HN(CO)CA | 0.75 mM [U-100% 13C; U-100% 15N] APPjmtm, 0.75 mM APPjmtm, 60 mM [U-98% 2H] DPC | 100% D2O | 20 | 6.2 | ambient | 318 | |
6 | 3D 1H-13C NOESY aliphatic | 0.75 mM [U-100% 13C; U-100% 15N] APPjmtm, 0.75 mM APPjmtm, 60 mM [U-98% 2H] DPC | 100% D2O | 20 | 6.2 | ambient | 318 | |
7 | 3D HNCA | 0.75 mM [U-100% 13C; U-100% 15N] APPjmtm, 0.75 mM APPjmtm, 60 mM [U-98% 2H] DPC | 100% D2O | 20 | 6.2 | ambient | 318 | |
8 | 3D HCCH-TOCSY | 0.75 mM [U-100% 13C; U-100% 15N] APPjmtm, 0.75 mM APPjmtm, 60 mM [U-98% 2H] DPC | 100% D2O | 20 | 6.2 | ambient | 318 | |
9 | 3D 15N,13C-F1-filtered/F3-edited NOESY | 0.75 mM [U-100% 13C; U-100% 15N] APPjmtm, 0.75 mM APPjmtm, 60 mM [U-98% 2H] DPC | 100% D2O | 20 | 6.2 | ambient | 318 | |
10 | 2D 1H-13C HSQC | 0.75 mM [U-100% 13C; U-100% 15N] APPjmtm, 0.75 mM APPjmtm, 60 mM [U-98% 2H] DPC | 100% D2O | 20 | 6.2 | ambient | 318 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE III | 600 |
2 | Bruker | AVANCE III | 800 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
simulated annealing | CARA |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | target function |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 12 |
Representative Model | 1 (fewest violations) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | peak picking | CARA | 1.8.4 | Keller,Bettendorff,Damberger |
2 | chemical shift assignment | CARA | 1.8.4 | Keller,Bettendorff,Damberger |
3 | peak integration | CARA | 1.8.4 | Keller,Bettendorff,Damberger |
4 | collection | TopSpin | Bruker Biospin | |
5 | processing | TopSpin | Bruker Biospin | |
6 | data analysis | TopSpin | Bruker Biospin | |
7 | structure solution | CYANA | 3.0 | Peter Guentert |
8 | processing | CYANA | 3.0 | Peter Guentert |
9 | geometry optimization | MOLMOL | Koradi, Billeter and Wuthrich | |
10 | visualization | MOLMOL | Koradi, Billeter and Wuthrich | |
11 | dihedral angles prediction | TALOS | Cornilescu, Delaglio and Bax | |
12 | refinement | CYANA | Peter Guentert |