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Solution structure of a conserved RNA hairpin of eel LINE UnaL2
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D NOESY, 2D TOCSY 0.9mM RNA; 10mM PHOSPHATE BUFFER (pH 6.0); 50mM NACL; 95% H2O, 5% D2O 95% H2O/5% D2O 50mM NaCl 6.0 ambient 293 2 2D NOESY, 2D TOCSY, DQF-COSY, HP-COSY 0.9mM RNA; 10mM PHOSPHATE BUFFER (pH 6.0); 50mM NACL; 100% D2O 100% D2O 50mM NaCl 6.0 ambient 293 3 2D HNN-COSY, 2D HSQC 0.3mM RNA U-15N, 13C-GUANOSINE, CYTIDINE; 10mM PHOSPHATE BUFFER (pH 6.0); 50mM NACL; 95% H2O, 5% D2O 95% H2O/5% D2O 50mM NaCl 6.0 ambient 293 4 HCP, HALF FILTERED NOESY, 2D HSQC, 2D TROSY 0.3mM RNA U-15N, 13C-GUANOSINE, CYTIDINE; 10mM PHOSPHATE BUFFER (pH 6.0); 50mM NACL; 100% D2O 100% D2O 50mM NaCl 6.0 ambient 293 5 2D HNN-COSY, 2D HSQC 0.9mM RNA U-15N, 13C-ADENOSINE, URIDINE; 10mM PHOSPHATE BUFFER (pH 6.0); 50mM NACL; 95% H2O, 5% D2O 95% H2O/5% D2O 50mM NaCl 6.0 ambient 293 6 HCP, HALF FILTERED NOESY, 2D HSQC, 2D TROSY 0.9mM RNA U-15N, 13C-ADENOSINE, URIDINE; 10mM PHOSPHATE BUFFER (pH 6.0); 50mM NACL; 100% D2O 100% D2O 50mM NaCl 6.0 ambient 293 7 2D HSQC, 2D TROSY 0.3mM RNA U-15N, 13C-GUANOSINE, CYTIDINE; 10mM PHOSPHATE BUFFER (pH 6.0); 50mM NACL; 16mg/ml PF1 BACTERIAPHAGE; 100% D2O 100% D2O 50mM NaCl 6.0 ambient 293 8 2D HSQC, 2D TROSY 0.9mM RNA U-15N, 13C-ADENOSINE, URIDINE; 10mM PHOSPHATE BUFFER (pH 6.0); 50mM NACL; 16mg/ml PF1 BACTERIAPHAGE; 100% D2O 100% D2O 50mM NaCl 6.0 ambient 293
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker DRX 500 2 Bruker DRX 600
NMR Refinement Method Details Software simulated annealing A total of 404 NOE distance restraints including the seven restraints for the absence of NOE cross peaks, 182 dihedral restraints, 62 hydrogen bonding restraints, 11 planarity restraints and 144 chiral restraints were used.Furthermore, refinement structures using 75 RDC restraints. XwinNMR
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 100 Conformers Submitted Total Number 11 Representative Model 1 (minimized average structure)
Computation: NMR Software # Classification Version Software Name Author 1 collection XwinNMR 2.6 2 data analysis Felix 97.0 3 structure solution Discover 97.0 4 refinement XPLOR-NIH 2.10