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SOLUTION STRUCTURE OF AN RNA-DNA HYBRID DUPLEX CONTAINING A 3'-THIOFORMACETAL LINKER AND AN RNA A-TRACT, NMR, 8 STRUCTURES
SOLUTION NMR
NMR Experiment
Experiment
Type
Sample Contents
Solvent
Ionic Strength
pH
Pressure
Temperature (K)
Spectrometer
1
NOESY
7.0
298
2
DQF-COSY
7.0
298
NMR Spectrometer Information
Spectrometer
Manufacturer
Model
Field Strength
1
Bruker
AMX-II
600
NMR Refinement
Method
Details
Software
SIMULATED ANNEALING, MOLECULAR DYNAMICS SIMULATIONS AND RELAXATION MATRIX REFINEMENT
1. GENERATE DISTANCE RESTRAINTS USING MARDIGRAS PROGRAM FROM T. JAMES' LAB. 2. MODEL BUILDING T. JAMES' LAB.USING QUANTA. 3. RANDOMIZE STRUCTURES BY DYNAMICS SIMULATIONS. 4. ITERATIVE CALCULATIONS. 5. FINAL RELAXATION MATRIX REFINEMENT.
X-PLOR
NMR Ensemble Information
Conformer Selection Criteria
IDEAL GEOMETRY, NOE VIOLATIONS, COORDINATE RMSD
Conformers Calculated Total Number
10
Conformers Submitted Total Number
8
Additional NMR Experimental Information
Details
IONIC_STRENGTH: 0.1 M NACL, 10 MM PO4 PRESSURE: 1 SOLVENT SYSTEM: AQUEOUS THE STRUCTURE WAS DETERMINED USING PROTON-PROTON AND PROTON-PHOSPHOROUS 1D AND 2D NMR SPECTROSCOPY.