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SOLUTION STRUCTURE OF AN UNUSUALLY STABLE RNA TETRAPLEX CONTAINING G-AND U-QUARTET STRUCTURES
SOLUTION NMR
NMR Refinement
Method
Details
Software
STRUCTURE CALCULATION: MOLECULAR DYNAMICS AND ENERGY MINIMIZATION USING RELAXATION MATRIX ROUTINE IN X-PLOR CONSTRAINTS: TOTAL 428 DISTANCE CONSTRAINTS (ABOUT 18/NUCLEOTIDE) 212 FROM INTRANUCLEOTIDE NOES 112 FROM INTERNUCLEOTIDE NOES 36 FROM HYDROGEN BONDS 8 FROM EXCHANGEABLE PROTON NOES 60 DERIVED FROM BACKBONE TORSION ANGLES DIHEDRAL ANGLE CONSTRAINTS 104 BACKBONE AND GLYCOSIDIC TORSION ANGLES SUGAR RING TORSION ANGLES CONSTRAINTS TO MAKE QUARTET PLANES PLANAR 4-FOLD ROTATIONAL SYMMETRY CONSTRAINTS QUALITY OF STRUCTURE NUMBER OF REFINED STRUCTURES: 8 RMS DEVIATION: 0.71A FOR ALL HEAVY ATOMS
X-PLOR
NMR Ensemble Information
Conformer Selection Criteria
Conformers Calculated Total Number
8
Conformers Submitted Total Number
1
Additional NMR Experimental Information
Details
ATA COLLECTION PARAMETERS: FREQUENCY: 500 MHZ FOR 1H, 202 MHZ FOR 31P SAMPLE TUBE: 5 MM SPECTRA FOR ASSIGNMENTS: HOMONUCLEAR PROTON 2D, 1H-31P COSY; SPECTRA FOR CONSTRAINTS: NOESY, DQF-COSY, 1H-31P COSY MOLECULAR CHARACTERISTICS: OLIGOMER STATE: TETRAMERIC MOLECULAR WEIGHT: 13 KD NUCLEOTIDES: 24 SOLUTION CONDITIONS: SOLVENT: H2O AND 100% D2O TEMPERATURES: 5C AND 40C PH: 6.7 AND 5.2 STRAND CONCENTRATION: 2.2 MM ADDITIVES: 10 MM POTASSIUM PHOSPHATE, 50 MM KCL, 0.5 MM EDTA OR 18 MM POTASSIUM PHOSPHATE, 88 MM KCL, 0.9 MM EDTA