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Solution structure of 7SK stem-loop 1 with HIV-1 Tat Finland Arginine Rich Motif
SOLUTION NMR - SOLUTION SCATTERING
Solution Scattering Data Acquistion 1 Scattering Type neutron Radiation/Neutron Source 12.3.1 (SIBYLS) beam line Synchrotron Y Beamline Type 12.3.1 Detector Type Pilatus3 X 2M detector Detector Manufacturer Details Dectris Temperature (K) 283 pH 5.6 Numer of Time Frames Used 10 Protein Concentration Range (mg/mL) Sample Buffer 10 mM phosphate, 70 mM NaCl, 0.1 mM EDTA Data Reduction Software ATSAS Guiner Mean Radius Of Gyration (nm) 2.5 Sigma Mean Radius Of Gyration R(XS-1) Mean Cross Sectional Radii (nm) R(XS-1) Sigma Mean Cross Sectional Radii R(XS-2) Mean Cross Sectional Radii (nm) R(XS-2) Sigma Mean Cross Sectional Radii P(R) Protein Length (nm)
Solution Scattering Data Analysis and Model Fitting Method Software Software Authors Starting Model Conformers, Number Calculated Conformers, Number Submitted Conformers, Selection Criteria Best Representative Conformer Other Details This structure was calculated with XPLOR-NIH with a CYANA input and minimized with SAXS.
NMR Experiment Experiment Type Sample Contents Solvent Ionic Strength pH Pressure Temperature (K) Spectrometer 1 2D 1H-1H NOESY 0.5 mM 7SK-SL1, 0.5 mM Tat Fin 100% D2O 10mM Phosphate, 70mM NaCl, 0.1mM EDTA mM 5.6 100000 Pa 298 Bruker DMX 700 2 2D 1H-1H NOESY 0.5 mM 7SK-SL1, 0.5 mM Tat Fin 90% H2O/10% D2O 10mM Phosphate, 70mM NaCl, 0.1mM EDTA mM 5.6 100000 Pa 298 Bruker DMX 700
NMR Spectrometer Information Spectrometer Manufacturer Model Field Strength 1 Bruker DMX 700
NMR Refinement Method Details Software simulated annealing X-PLOR NIH
NMR Ensemble Information Conformer Selection Criteria structures with the lowest energy Conformers Calculated Total Number 100 Conformers Submitted Total Number 10 Representative Model 1 (lowest energy)
Computation: NMR Software # Classification Version Software Name Author 1 collection TopSpin Bruker Biospin 2 peak picking NMRView Johnson, One Moon Scientific 3 chemical shift assignment NMRView Johnson, One Moon Scientific 4 data analysis CYANA Guntert, Mumenthaler and Wuthrich 5 processing CYANA Guntert, Mumenthaler and Wuthrich 6 structure calculation CYANA Guntert, Mumenthaler and Wuthrich 7 structure calculation X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore 8 refinement X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore