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NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-U-A BASE-TRIPLE PLATFORM
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D NOESY 0.6-1.2 mM SL2 RNA, Natural abundance, 25 mM Na-d3-acetate buffer 100% D2O 25 mM NaCl 5.5 ambient 298 2 DQF-COSY 0.6-1.2 mM SL2 RNA, Natural abundance, 25 mM Na-d3-acetate buffer 100% D2O 25 mM NaCl 5.5 ambient 298 3 2D NOESY 0.6-1.2 mM SL2 RNA, Natural abundance, 25 mM Na-d3-acetate buffer 90% H2O/10% D2O 4 3D_13C-separated_NOESY 0.6-1.2 mM SL2 RNA, Natural abundance, 25 mM Na-d3-acetate buffer 100% D2O 5 3D_13C-separated_ROESY 0.6-1.2 mM SL2 RNA, Natural abundance, 25 mM Na-d3-acetate buffer 100% D2O
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker DMX 600 2 Bruker DRX 800
NMR Refinement Method Details Software Distance Geometry, Simulated annealing, Energy mimimization XwinNMR
NMR Ensemble Information Conformer Selection Criteria target function Conformers Calculated Total Number 100 Conformers Submitted Total Number 20 Representative Model 1 (fewest violations)
Additional NMR Experimental Information Details experimental temperature set to either 298 or 278
Computation: NMR Software # Classification Version Software Name Author 1 collection XwinNMR 2.6 Brucker 2 processing NMRPipe 1.0 Delaglio, Gresiek, Vuister, Zhu, and Bax 3 data analysis NMRView 3.0 Johnson, and Blevins 4 structure solution DYANA 1.5 Guntert and Mumenthaler 5 refinement CNS 1.0 Brunger et al.