1NJ3
Structure and Ubiquitin Interactions of the Conserved NZF Domain of Npl4
SOLUTION NMR
NMR Experiment | ||||||||
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Experiment | Type | Sample Contents | Solvent | Ionic Strength | pH | Pressure | Temperature (K) | Spectrometer |
1 | HNCACB | 1mM Npl4 NZF domain, U-15N,13C; 20 mM sodium Phosphate, pH 5.5, 50mM NaCl, 5 mM BME,90% H2O, 10% D2O | 90% H2O/10% D2O | 70 mM | 5.5 | ambient | 291 | |
2 | HN(CA)CO | 1mM Npl4 NZF domain, U-15N,13C; 20 mM sodium Phosphate, pH 5.5, 50mM NaCl, 5 mM BME,90% H2O, 10% D2O | 90% H2O/10% D2O | 70 mM | 5.5 | ambient | 291 | |
3 | H(CCO)NH-TOCSY | 1mM Npl4 NZF domain, U-15N,13C; 20 mM sodium Phosphate, pH 5.5, 50mM NaCl, 5 mM BME,90% H2O, 10% D2O | 90% H2O/10% D2O | 70 mM | 5.5 | ambient | 291 | |
4 | (H)C(CO)NH-TOCSY | 1mM Npl4 NZF domain, U-15N,13C; 20 mM sodium Phosphate, pH 5.5, 50mM NaCl, 5 mM BME,90% H2O, 10% D2O | 90% H2O/10% D2O | 70 mM | 5.5 | ambient | 291 | |
5 | 3D_13C-separated_NOESY | 1mM Npl4 NZF domain, U-15N,13C; 20 mM sodium Phosphate, pH 5.5, 50mM NaCl, 5 mM BME,90% H2O, 10% D2O | 90% H2O/10% D2O | 70 mM | 5.5 | ambient | 291 | |
6 | 3D_15N-separated_NOESY | 1mM Npl4 NZF domain, U-15N,13C; 20 mM sodium Phosphate, pH 5.5, 50mM NaCl, 5 mM BME,90% H2O, 10% D2O | 90% H2O/10% D2O | 70 mM | 5.5 | ambient | 291 |
NMR Spectrometer Information | |||
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Spectrometer | Manufacturer | Model | Field Strength |
1 | Varian | INOVA | 600 |
2 | Varian | UNITYPLUS | 500 |
NMR Refinement | ||
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Method | Details | Software |
Torsion Angle Dynamics and Simulated annealing | Inital structures from Torsion Angle Dynamics (DYANA) were regularized with a gentle annelaing protocol in CNS | CNS |
NMR Ensemble Information | |
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Conformer Selection Criteria | structures with the least restraint violations,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 | refinement | CNS | 1.1 | BRUNGER, ADAMS, CLORE, DELANO, GROS, GROSSE-KUNSTLEVE, JIANG, KUSZEWSKI, NILGES, PANNU, READ, RICE, SIMONSON, WARREN |
2 | refinement | DYANA | 1.5 | Guntert, P., Mumenthaler, C., Wuthrich, K. |
3 | processing | Felix | 97 | |
4 | data analysis | Sparky | 3.106 |