1DP3
SOLUTION STRUCTURE OF THE DNA BINDING DOMAIN OF THE TRAM PROTEIN
SOLUTION NMR
NMR Experiment | ||||||||
---|---|---|---|---|---|---|---|---|
Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | 2D NOESY | unlabeled TraMM26, uniform labeled TraMM26 with 15N; 50mM phosphate buffer NA; 95% H2O 5% D2O | 95% H2O/5% D2O | 50 mM posphate buffer | 4.0 | ambient | 300 | |
2 | 3D-15N-NOESY-HSQC | uniform labeled TraMM26 with 15N; 50mM phosphate buffer NA; 95% H2O 5% D2O | 95% H2O/5% D2O | 50 mM phospate buffer | 4.0 | ambient | 300 | |
3 | HNHA | uniform labeled TraMM26 with 15N; 50mM phosphate buffer NA; 95% H2O 5% D2O | 95% H2O/5% D2O | 50 mM phospate buffer | 4.0 | ambient | 300 |
NMR Spectrometer Information | |||
---|---|---|---|
Spectrometer | Manufacturer | Model | Field Strength |
1 | Bruker | DMX | 600 |
2 | Bruker | DMX | 800 |
3 | Varian | UNITY INOVA | 600 |
NMR Refinement | ||
---|---|---|
Method | Details | Software |
distance geometry; simulated annealing | This structures are based on 438 NOE restraints derived from 15N labeled NOE-derived distance restraints, 115 distance restraints from 2D homonuclear NOESY experiments and 40 dihedral angle restraints. The dihedral restraints with random coil values for the flexible terminal part extracted from the HNHA spectra were not used in the structure calculations. | XwinNMR |
NMR Ensemble Information | |
---|---|
Conformer Selection Criteria | structures with acceptable covalent geometry |
Conformers Calculated Total Number | 100 |
Conformers Submitted Total Number | 20 |
Representative Model | 13 (lowest energy) |
Computation: NMR Software | ||||
---|---|---|---|---|
# | Classification | Version | Software Name | Author |
1 | collection | XwinNMR | 2.5 | Bruker Analytical GmbH |
2 | processing | NMRPipe | Delaglio, F., Grzesiek, S., Vuister, G.W., Zhu, G., Pfeifer, J. Bax, A. | |
3 | data analysis | ANSIG | 3.3 | Kraulis, F.J. |
4 | refinement | X-PLOR | 3.851 | Brunger, A.T. |
5 | data analysis | MOLMOL | 2.6 | Koradi, R., Billeter, M., Wuthrich, K. |
6 | collection | VNMR | 5.2 | Varian Inc. |