6CT1
TFE-induced NMR structure of a novel bioactive peptide (PaDBS1R7) derived from a Pyrobaculum aerophilum ribosomal protein (L39e)
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 | 1 mM na PaDBS1R7, 30 % na TFE, 60 % na H2O, 10 % na D2O, 10 % na DSS | trifluoroethanol/water | 0 | 4.3 | 1 atm | 298 | Bruker AVANCE 600 |
2 | 2D 1H-1H NOESY | 1 mM na PaDBS1R7, 30 % na TFE, 60 % na H2O, 10 % na D2O, 10 % na DSS | trifluoroethanol/water | 0 | 4.3 | 1 atm | 298 | Bruker AVANCE 600 |
3 | 2D 1H-15N HSQC | 1 mM na PaDBS1R7, 30 % na TFE, 60 % na H2O, 10 % na D2O, 10 % na DSS | trifluoroethanol/water | 0 | 4.3 | 1 atm | 298 | Bruker AVANCE 600 |
4 | 2D 1H-13C HSQC | 1 mM na PaDBS1R7, 30 % na TFE, 60 % na H2O, 10 % na D2O, 10 % na DSS | trifluoroethanol/water | 0 | 4.3 | 1 atm | 298 | Bruker AVANCE 600 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 600 |
NMR Refinement | ||
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Method | Details | Software |
molecular dynamics | with simulated annealing; refinement in water | CNS |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 10 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | chemical shift assignment | CcpNMR | CCPN | |
2 | peak picking | CcpNMR | CCPN | |
3 | geometry optimization | TALOS | Cornilescu, Delaglio and Bax | |
4 | data analysis | CYANA | Guntert, Mumenthaler and Wuthrich | |
5 | structure calculation | CNS | Brunger, Adams, Clore, Gros, Nilges and Read | |
6 | refinement | CNS | Brunger, Adams, Clore, Gros, Nilges and Read |