7QYI
Solution structure of the DNA-binding minor pilin FimT from Legionella pneumophila
SOLUTION NMR
NMR Experiment | ||||||||
---|---|---|---|---|---|---|---|---|
Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 3D NOESY combined | 580 uM [U-13C; U-15N] FimT, 25 mM NaPi, 150 mM sodium chloride | 90% H2O/10% D2O | 150 mM NaCl mM | 7.2 | AMBIENT Pa | 298 | Bruker AVANCE III HD 900 |
2 | 3D HCCH-TOCSY | 580 uM [U-13C; U-15N] FimT, 25 mM NaPi, 150 mM sodium chloride | 90% H2O/10% D2O | 150 mM NaCl mM | 7.2 | AMBIENT Pa | 298 | Bruker AVANCE III HD 600 |
3 | 3D HNCACB | 580 uM [U-13C; U-15N] FimT, 25 mM NaPi, 150 mM sodium chloride | 90% H2O/10% D2O | 150 mM NaCl mM | 7.2 | AMBIENT Pa | 298 | Bruker AVANCE NEO 700 |
4 | 3D CBCA(CO)NH | 580 uM [U-13C; U-15N] FimT, 25 mM NaPi, 150 mM sodium chloride | 90% H2O/10% D2O | 150 mM NaCl mM | 7.2 | AMBIENT Pa | 298 | Bruker AVANCE NEO 700 |
5 | 2D 1H-13C HSQC | 580 uM [U-13C; U-15N] FimT, 25 mM NaPi, 150 mM sodium chloride | 90% H2O/10% D2O | 150 mM NaCl mM | 7.2 | AMBIENT Pa | 298 | Bruker AVANCE III HD 900 |
6 | 2D 1H-15N HSQC | 580 uM [U-13C; U-15N] FimT, 25 mM NaPi, 150 mM sodium chloride | 90% H2O/10% D2O | 150 mM NaCl mM | 7.2 | AMBIENT Pa | 298 | Bruker AVANCE III HD 900 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | AVANCE III HD | 900 |
2 | Bruker | AVANCE III HD | 600 |
3 | Bruker | AVANCE NEO | 700 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
simulated annealing | CYANA | |
molecular dynamics | Amber |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | structures with the least restraint violations |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 20 |
Representative Model | 1 (target function) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | chemical shift assignment | CARA | Keller and Wuthrich | |
2 | peak picking | CcpNmr Analysis | 2.51 | CCPN |
3 | structure calculation | CYANA | 3.98.2 | Guntert, Mumenthaler and Wuthrich |
4 | geometry optimization | Amber | 20 | Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman |
5 | collection | TopSpin | 4.07 | Bruker Biospin |