5X29
NMR structure of the SARS Coronavirus E protein pentameric ion channel
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-15N HSQC | 0.67 mM [U-99% 15N] Envelope small membrane protein, 200 mM LMPG, 20 mM sodium phosphate, 50 mM sodium chloride | 95% H2O/5% D2O | 50 mM | 5.5 | 1 atm | 308 | Bruker AVANCE II 700 |
2 | 3D HNCA | 0.67 mM [U-99% 13C; U-99% 15N] Envelope small membrane protein, 200 mM LMPG, 20 mM sodium phosphate, 50 mM sodium chloride | 95% H2O/5% D2O | 50 mM | 5.5 | 1 atm | 308 | Bruker AVANCE II 700 |
3 | 3D HN(CO)CA | 0.67 mM [U-99% 13C; U-99% 15N] Envelope small membrane protein, 200 mM LMPG, 20 mM sodium phosphate, 50 mM sodium chloride | 95% H2O/5% D2O | 50 mM | 5.5 | 1 atm | 308 | Bruker AVANCE II 700 |
4 | 3D HCCH-TOCSY | 0.67 mM [U-99% 13C; U-99% 15N] Envelope small membrane protein, 200 mM LMPG, 20 mM sodium phosphate, 50 mM sodium chloride | 95% H2O/5% D2O | 50 mM | 5.5 | 1 atm | 308 | Bruker AVANCE II 700 |
5 | 3D 1H-15N NOESY | 0.67 mM [U-99% 13C; U-99% 15N] Envelope small membrane protein, 200 mM LMPG, 20 mM sodium phosphate, 50 mM sodium chloride | 95% H2O/5% D2O | 50 mM | 5.5 | 1 atm | 308 | Bruker AVANCE II 700 |
7 | 2D 1H-13C HSQC | 0.67 mM [U-99% 13C; U-99% 15N] Envelope small membrane protein, 200 mM LMPG, 20 mM sodium phosphate, 50 mM sodium chloride | 95% H2O/5% D2O | 50 mM | 5.5 | 1 atm | 308 | Bruker AVANCE II 700 |
6 | 3D 1H-13C NOESY | 0.67 mM [U-99% 13C; U-99% 15N] Envelope small membrane protein, 200 mM LMPG, 20 mM sodium phosphate, 50 mM sodium chloride | 95% H2O/5% D2O | 50 mM | 5.5 | 1 atm | 308 | Bruker AVANCE II 700 |
8 | 3D 1H-15N NOESY | 0.67 mM [U-99% 15N, U-99% 2H] Envelope small membrane protein, 200 mM LMPG, 20 mM sodium phosphate, 50 mM sodium chloride | 95% H2O/5% D2O | 50 mM | 5.5 | 1 atm | 308 | Bruker AVANCE II 700 |
9 | 3D 1H-15N NOESY | 0.33 mM [U-99% 13C] Envelope small membrane protein, 0.33 mM [U-99% 15N, U-99% 2H] Envelope small membrane protein, 200 mM LMPG, 20 mM sodium phosphate, 50 mM sodium chloride | 95% H2O/5% D2O | 50 mM | 5.5 | 1 atm | 308 | Bruker AVANCE II 700 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE II | 700 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing | Calculation of pentamer structure | HADDOCK |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 200 |
Conformers Submitted Total Number | 16 |
Representative Model | 1 (medoid) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | collection | TopSpin | Bruker Biospin | |
2 | chemical shift assignment | CARA | Keller and Wuthrich | |
3 | structure calculation | CYANA | 3.0 | Guntert, Mumenthaler and Wuthrich |
4 | refinement | HADDOCK | 2.2 | Bonvin |