2PQ4
NMR solution structure of NapD in complex with NapA1-35 signal peptide
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 3D_15N-separated_NOESY | 1.3 mM NAPD U-15N and/or U-13C, 1.6 mM NAPA1-35 | 50mM Sodium phosphate buffer, 0.15M NaCl, 0.02% NaN3, 0.001M DTT, 0.2mM PMSF, pH 5.9, 10% D2O or 100% D2O | 50mM NaHPO4, 0.150M NaCl | 5.9 | 1 atm | 312.4 | |
2 | 3D_13C-separated_NOESY | 1.3 mM NAPD U-15N and/or U-13C, 1.6 mM NAPA1-35 | 50mM Sodium phosphate buffer, 0.15M NaCl, 0.02% NaN3, 0.001M DTT, 0.2mM PMSF, pH 5.9, 10% D2O or 100% D2O | 50mM NaHPO4, 0.150M NaCl | 5.9 | 1 atm | 312.4 | |
3 | 3D_15N/13C-FILTERED/EDITED NOESY | 1.3 mM NAPD U-15N and/or U-13C, 1.6 mM NAPA1-35 | 50mM Sodium phosphate buffer, 0.15M NaCl, 0.02% NaN3, 0.001M DTT, 0.2mM PMSF, pH 5.9, 10% D2O or 100% D2O | 50mM NaHPO4, 0.150M NaCl | 5.9 | 1 atm | 312.4 | |
4 | 2D_15N/13C-DOUBLE FILTERED NOESY | 1.3 mM NAPD U-15N and/or U-13C, 1.6 mM NAPA1-35 | 50mM Sodium phosphate buffer, 0.15M NaCl, 0.02% NaN3, 0.001M DTT, 0.2mM PMSF, pH 5.9, 10% D2O or 100% D2O | 50mM NaHPO4, 0.150M NaCl | 5.9 | 1 atm | 312.4 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE | 500 |
2 | Varian | INOVA | 800 |
NMR Refinement | ||
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Method | Details | Software |
CYANA2.1 TORSION ANGLE DYNAMICS | XPLOR-NIH NMR 2112 REFINE algorithm for structure refinement | CYANA |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the lowest energy |
Conformers Calculated Total Number | 40 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (lowest energy) |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | structure solution | CYANA | 2.1 | Guntert, P. |
2 | data analysis | CARA/NEASY | 1.5.5 | Keller, R. |
3 | processing | XwinNMR | 3.5 | Bruker BioSpin |
4 | processing | NMRPipe | 2.2 | Delaglio, F., Grzesiek, S., Bax, A. |
5 | refinement | X-PLOR-NIH NMR | 2.11.2 | Schwieters, C.D., Kuszewski, J.J., Tjandra, N., Clore, G.M. |