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SOLUTION STRUCTURE OF RNASE P RNA (M1 RNA) P4 STEM C70U MUTANT OLIGORIBONUCLEOTIDE COMPLEXED WITH COBALT(III) HEXAMMINE, NMR, MINIMIZED AVERAGE STRUCTURE
SOLUTION NMR
NMR Experiment
Experiment
Type
Sample Contents
Solvent
Ionic Strength
pH
Pressure
Temperature (K)
Spectrometer
1
2D NOESY
2 mM P4m RNA; 100 mM sodium chloride; 10 mM phosphate buffer; 90% H2O, 10% D2O
90% H2O/10% D2O
100 mM Na
6.5
ambient
288
2
2D NOESY
2 mM P4m RNA; 100 mM sodium chloride; 10 mM phosphate buffer; 99.96% D2O
99.96% D2O
100 mM Na
6.5
ambient
288
3
2D NOESY
2 mM P4m RNA; 100 mM sodium chloride; 10 mM magnesium chloride; 10 mM phosphate buffer; 90% H2O, 10% D2O
90% H2O/10% D2O
100 mM Na, 10 mM Mg
6.5
ambient
288
4
2D NOESY
2 mM P4m RNA; 100 mM sodium chloride; 3 mM hexammine cobalt chloride; 10 mM phosphate buffer; 90% H2O, 10% D2O
90% H2O/10% D2O
100 mM Na, 3 mM Co(NH3)6
6.5
ambient
288
5
DQF-COSY
2 mM P4m RNA; 100 mM sodium chloride; 10 mM phosphate buffer; 99.96% D2O
99.96% D2O
100 mM Na
6.5
ambient
288
6
31P-1H-COSY
2 mM P4m RNA; 100 mM sodium chloride; 10 mM phosphate buffer; 99.96% D2O
99.96% D2O
100 mM Na
6.5
ambient
288
7
13C-1H-HMQC
2 mM P4m RNA; 100 mM sodium chloride; 10 mM phosphate buffer; 99.96% D2O
99.96% D2O
100 mM Na
6.5
ambient
288
NMR Spectrometer Information
Spectrometer
Manufacturer
Model
Field Strength
1
Bruker
AMX
600
2
Bruker
DRX
500
NMR Refinement
Method
Details
Software
restrained molecular dynamics and simulated annealing
The average structure is based on superposition of 12 converged structures after refinement. The average RMS deviation between the ensemble and the average structure is 1.5 Angstrom. A total of 268 NOE-derived intramolecular distance constraints, 171 dihedral restraint and 49 distance restraints from hydrogen bonds were used in the refinement. 12 NOE derived intermolecular distance constraints were used to localize the bound cobalt (III) hexammine
XwinNMR
NMR Ensemble Information
Conformer Selection Criteria
Conformers Calculated Total Number
Conformers Submitted Total Number
1
Representative Model
(minimized average structure)
Additional NMR Experimental Information
Details
This structure was determined using standard 2D homonuclear techniques and 13C and 31P heteronuclear techniques at natural abundance. Intermolecular NOE crosspeaks between RNA protons and cobalt (III) hexammine protons and derived intermolecular distance constraints were used to determine the site of cobalt (III) hexammine binding in the complex structure