2LLD
The Insect Defensin Lucifensin from Lucilia sericata
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D 1H-1H TOCSY | 2 mM lucifensin, 10 mM potassium phosphate, 5 % D2O, 15 uM TSP | 95% H2O/5% D2O | 5.0 | ambient | 298.15 | ||
2 | 2D 1H-1H NOESY | 2 mM lucifensin, 10 mM potassium phosphate, 5 % D2O, 15 uM TSP | 95% H2O/5% D2O | 5.0 | ambient | 298.15 | ||
3 | 2D DQF-COSY | 2 mM lucifensin, 10 mM potassium phosphate, 5 % D2O, 15 uM TSP | 95% H2O/5% D2O | 5.0 | ambient | 298.15 | ||
4 | 2D 1H-13C HSQC | 2 mM lucifensin, 10 mM potassium phosphate, 5 % D2O, 15 uM TSP | 95% H2O/5% D2O | 5.0 | ambient | 298.15 | ||
5 | 2D 1H-13C HSQC aromatic | 2 mM lucifensin, 10 mM potassium phosphate, 5 % D2O, 15 uM TSP | 95% H2O/5% D2O | 5.0 | ambient | 298.15 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 800 |
2 | Bruker | DRX | 600 |
NMR Refinement | ||
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Method | Details | Software |
simulated annealing, molecular dynamics | First, in vacuo refinement with the NOVA force field, then refinement in explicit water with the YASARA force field | TopSpin |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | collection | TopSpin | 2.1 | Bruker Biospin |
2 | processing | TopSpin | 2.1 | Bruker Biospin |
3 | chemical shift assignment | CARA | 1.8.4 | Keller and Wuthrich |
4 | data analysis | CARA | 1.8.4 | Keller and Wuthrich |
5 | peak picking | CARA | 1.8.4 | Keller and Wuthrich |
6 | structure solution | CYANA | 2.1 | Guntert, Mumenthaler and Wuthrich |
7 | geometry optimization | CYANA | 2.1 | Guntert, Mumenthaler and Wuthrich |
8 | geometry optimization | TALOS+ | Cornilescu, Delaglio and Bax | |
9 | refinement | YASARA | 11.5.21 | Elmar Krieger |
10 | structure validation | ProcheckNMR | Laskowski and MacArthur |