1P5O

Solution Structure of HCV IRES Domain II


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D S-NOESY0.5-1.5mM HCV IRES domain II RNA 10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride96% D2O, 4% H2O100mM NaCl, 5mM MgCl26.40ambient298
22D NOESY0.5-1.5mM HCV IRES domain II RNA 10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride100% D2O100mM NaCl, 5mM MgCl26.40ambient303
3DQF-COSY0.5-1.5mM HCV IRES domain II RNA 10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride100% D2O100mM NaCl, 5mM MgCl26.40ambient303
42D HP-COSY0.5-1.5mM HCV IRES domain II RNA 10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride100% D2O100mM NaCl, 5mM MgCl26.40ambient303
53D_13C-separated_NOESY0.5-1.5mM HCV IRES domain II RNA U-15N,13C 10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride100% D2O100mM NaCl, 5mM MgCl26.40ambient303
63D HCP0.5-1.5mM HCV IRES domain II RNA U-15N,13C 10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride100% D2O100mM NaCl, 5mM MgCl26.40ambient303
73D HMQC TOCSY0.5-1.5mM HCV IRES domain II RNA U-15N,13C 10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride100% D2O100mM NaCl, 5mM MgCl26.40ambient303
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1VarianINOVA500
2VarianINOVA800
NMR Refinement
MethodDetailsSoftware
see reference abovesee reference aboveVNMR
NMR Ensemble Information
Conformer Selection Criterialowest restraint violation and total energy
Conformers Calculated Total Number200
Conformers Submitted Total Number12
Representative Model1 (closest to the average)
Additional NMR Experimental Information
DetailsThe structure was solved using triple resonance, multidimensional NMR spectroscopy and TROSY-type experiments to measure residual dipolar couplings
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1processingVNMR6.1CVarian
2data analysisSparky3Goddard, T.D. & Kneller D.G.
3refinementX-PLOR3.1Brunger, A.T.
4refinementCNS1.1Brunger, A.T. et al
5refinementPALES1Zweckstetter, M. & Bax, A.