Solution structure of the EBNA-2 N-terminal Dimerization (END) domain from the Epstein-barr virus
SOLUTION NMR
| NMR Experiment | ||||||||
|---|---|---|---|---|---|---|---|---|
| Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
| 1 | 2D 1H-15N HSQC | 1 mM [U-13C; U-15N] EPSTEIN-BARR NUCLEAR ANTIGEN 2 | 90% H2O/10% D2O | 20 | 6.9 | AMBIENT | 323 | |
| 2 | 2D 1H-13C HSQC | 1 mM [U-13C; U-15N] EPSTEIN-BARR NUCLEAR ANTIGEN 2 | 90% H2O/10% D2O | 20 | 6.9 | AMBIENT | 323 | |
| 3 | 3D HNCA | 1 mM [U-13C; U-15N] EPSTEIN-BARR NUCLEAR ANTIGEN 2 | 90% H2O/10% D2O | 20 | 6.9 | AMBIENT | 323 | |
| 4 | 3D HNCACB | 1 mM [U-13C; U-15N] EPSTEIN-BARR NUCLEAR ANTIGEN 2 | 90% H2O/10% D2O | 20 | 6.9 | AMBIENT | 323 | |
| 5 | 3D CBCA(CO)NH | 1 mM [U-13C; U-15N] EPSTEIN-BARR NUCLEAR ANTIGEN 2 | 90% H2O/10% D2O | 20 | 6.9 | AMBIENT | 323 | |
| 6 | 3D HCCH-TOCSY | 1 mM [U-13C; U-15N] EPSTEIN-BARR NUCLEAR ANTIGEN 2 | 90% H2O/10% D2O | 20 | 6.9 | AMBIENT | 323 | |
| 7 | 3D 1H-15N NOESY | 1 mM [U-13C; U-15N] EPSTEIN-BARR NUCLEAR ANTIGEN 2 | 90% H2O/10% D2O | 20 | 6.9 | AMBIENT | 323 | |
| 8 | 3D 1H-13C NOESY aliphatic | 1 mM [U-13C; U-15N] EPSTEIN-BARR NUCLEAR ANTIGEN 2 | 90% H2O/10% D2O | 20 | 6.9 | AMBIENT | 323 | |
| 9 | 3D 1H-13C NOESY aromatic | 1 mM [U-13C; U-15N] EPSTEIN-BARR NUCLEAR ANTIGEN 2 | 90% H2O/10% D2O | 20 | 6.9 | AMBIENT | 323 | |
| NMR Spectrometer Information | |||
|---|---|---|---|
| Spectrometer | Manufacturer | Model | Field Strength |
| 1 | Bruker | AVANCE | 500 |
| 2 | Bruker | AVANCE | 600 |
| 3 | Bruker | AVANCE | 750 |
| 4 | Bruker | AVANCE | 800 |
| 5 | Bruker | AVANCE | 950 |
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| TORSION ANGLE DYNAMICS, SIMULATED ANNEALING | CYANA_3.0 | |
| NMR Ensemble Information | |
|---|---|
| Conformer Selection Criteria | structures with the lowest energy |
| Conformers Calculated Total Number | 100 |
| Conformers Submitted Total Number | 10 |
| Representative Model | 1 (low energy and fewest violations) |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | structure solution | CYANA_3.0 | Guntert, Mumenthaler and Wuthrich | |
| 2 | processing | NMRPipe | Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax | |
| 3 | collection, processing | TopSpin | Bruker Biospin | |
| 4 | chemical shift assignment | NMRView | Johnson, One Moon Scientific | |
| 5 | chemical shift assignment | Sparky | Goddard | |
| 6 | refinement | ARIA_2.2 | Linge, O'Donoghue and Nilges | |
| 7 | prediction of dihedral angles | ARIA_2.2 | Linge, O'Donoghue and Nilges | |
