NMR solution structure of complete receptor binding domain of human apolipoprotein E
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-15N HSQC | 1 mM [U-100% 13C; U-100% 15N; U-70% 2H] Human apolipoprotein E N-terminal domain-1 | 95% H2O/5% D2O | 0.05 | 6.8 | ambient | 303 | |
| 2 | 3D HNCACB | 1 mM [U-100% 13C; U-100% 15N; U-70% 2H] Human apolipoprotein E N-terminal domain-1 | 95% H2O/5% D2O | 0.05 | 6.8 | ambient | 303 | |
| 3 | 3D HN(CO)CA | 1 mM [U-100% 13C; U-100% 15N; U-70% 2H] Human apolipoprotein E N-terminal domain-1 | 95% H2O/5% D2O | 0.05 | 6.8 | ambient | 303 | |
| 4 | 3D HN(COCA)CB | 1 mM [U-100% 13C; U-100% 15N; U-70% 2H] Human apolipoprotein E N-terminal domain-1 | 95% H2O/5% D2O | 0.05 | 6.8 | ambient | 303 | |
| 5 | 3D HNCA | 1 mM [U-100% 13C; U-100% 15N; U-70% 2H] Human apolipoprotein E N-terminal domain-1 | 95% H2O/5% D2O | 0.05 | 6.8 | ambient | 303 | |
| 6 | 3D 1H-15N NOESY | 1 mM [U-100% 13C; U-100% 15N; U-30% 2H] Human apolipoprotein E N-terminal domain-2 | 95% H2O/5% D2O | 0.05 | 6.8 | ambient | 303 | |
| 7 | 3D C(CO)NH | 1 mM [U-100% 13C; U-100% 15N; U-30% 2H] Human apolipoprotein E N-terminal domain-2 | 95% H2O/5% D2O | 0.05 | 6.8 | ambient | 303 | |
| 8 | 3D H(CCO)NH | 1 mM [U-100% 13C; U-100% 15N; U-30% 2H] Human apolipoprotein E N-terminal domain-2 | 95% H2O/5% D2O | 0.05 | 6.8 | ambient | 303 | |
| 9 | 3D HCCH-TOCSY | 1 mM [U-100% 13C; U-100% 15N; U-30% 2H] Human apolipoprotein E N-terminal domain-2 | 95% H2O/5% D2O | 0.05 | 6.8 | ambient | 303 | |
| 10 | 4D 15N-13C NOESY | 1 mM [U-100% 13C; U-100% 15N; U-30% 2H] Human apolipoprotein E N-terminal domain-2 | 95% H2O/5% D2O | 0.05 | 6.8 | ambient | 303 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Varian | INOVA | 600 |
| 2 | Varian | INOVA | 500 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| simulated annealing | CYANA | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy and least restraint violations |
| Conformers Calculated Total Number | 100 |
| Conformers Submitted Total Number | 20 |
| Representative Model | 1 (closest to the average) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | geometry optimization | CYANA | 2.1 | Guntert, Mumenthaler and Wuthrich |
| 2 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 3 | processing | NMRDraw | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 4 | chemical shift assignment | PIPP | Garrett | |
| 5 | chemical shift assignment | NMRView | Johnson, One Moon Scientific | |
| 6 | data analysis | ProcheckNMR | Laskowski and MacArthur | |
| 7 | refinement | CNS | Brunger, Adams, Clore, Gros, Nilges and Read | |
