2IHX | pdb_00002ihx

Solution Structure of the Rous Sarcoma Virus Nucleocapsid Protein:uPsi RNA Packaging Signal Complex


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D NOESY1.0 mM unlabeled nucleocapsid protein, 1.0 mM A-selectively-protonated uPsi RNA, 5 mM Tris-d11-HCl buffer, pH 7.0, 5mM NaCl, 0.1 mM ZnCl2100% D2O5 mM NaCl, 0.1 mM ZnCl27.0ambient308
22D NOESY1.2 mM unlabeled nucleocapsid protein, 1.2 mM G-selectively-protonated uPsi RNA, 5 mM Tris-d11-HCl buffer, pH 7.0, 5mM NaCl, 0.1 mM ZnCl2100% D2O5 mM NaCl, 0.1 mM ZnCl27.0ambient308
32D NOESY0.8 mM unlabeled nucleocapsid protein, 0.8 mM U-selectively-protonated uPsi RNA, 5 mM Tris-d11-HCl buffer, pH 7.0, 5mM NaCl, 0.1 mM ZnCl2100% D2O5 mM NaCl, 0.1 mM ZnCl27.0ambient308
42D NOESY0.8 mM unlabeled nucleocapsid protein, 0.8 mM C-selectively-protonated uPsi RNA, 5 mM Tris-d11-HCl buffer, pH 7.0, 5mM NaCl, 0.1 mM ZnCl2100% D2O5 mM NaCl, 0.1 mM ZnCl27.0ambient308
52D NOESY1.2 mM unlabeled nucleocapsid protein, 1.2 mM unlabeled uPsi RNA, 5 mM Tris-d11-HCl buffer, pH 7.0, 5mM NaCl, 0.1 mM ZnCl2100% D2O5 mM NaCl, 0.1 mM ZnCl27.0ambient308
63D_13C-separated_NOESY1.2 mM 15N, 13C-labeled nucleocapsid protein, 1.2 mM unlabeled uPsi RNA, 5 mM Tris-d11-HCl buffer, pH 7.0; 5mM NaCl, 0.1 mM ZnCl2100% D2O5 mM NaCl, 0.1 mM ZnCl27.0ambient308
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerDRX800
2BrukerDMX600
NMR Refinement
MethodDetailsSoftware
1H-1H distance restraints, Hydrogen-bond restraints, Torsion angle restraints, Inter-phosphate restraintsThe structures are based on a total of 1697 restraints. 680 are NOE-derived distance restraints, 608 are Hydrogen-bond restraints, 239 are torsion angle restraints and 170 are inter-phosphate restraints.XwinNMR
NMR Ensemble Information
Conformer Selection Criteriastructures with the least restraint violations
Conformers Calculated Total Number800
Conformers Submitted Total Number20
Representative Model1 (fewest violations)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1collectionXwinNMRBRUKER
2processingNMRPipeDelaglio, F., Grzesiek. S., Vuister, G.W., Zhu, G., Pfeifer, J., & Bax, A.
3data analysisNMRView5Johnson, B.A., Blevins, R.A.
4refinementCYANA2.1Guntert, P., Mumenthaler, C. & Wuthrich, K.