1F78

SOLUTION STRUCTURE OF RNASE P RNA (M1 RNA) P4 STEM OLIGORIBONUCLEOTIDE COMPLEXED WITH COBALT (III) HEXAMINE, NMR, MINIMIZED AVERAGE STRUCTURE


SOLUTION NMR Experimental Data


Experimental Details
Sample Conditions
Sample Contents2 mM P4 RNA; 100 mM sodium chloride; 10 mM phosphate buffer; 90% H2O, 10% D2O
Solvent90% H2O/10% D2O
Ionic Strength100 mM Na
pH6.5
Pressureambient
Temperature (K)288
Experiment(s):2D NOESY
Sample Contents2 mM P4 RNA; 100 mM sodium chloride; 10 mM phosphate buffer; 99.96% D2O
Solvent99.96% D2O
Ionic Strength100 mM Na
pH6.5
Pressureambient
Temperature (K)288
Experiment(s):2D NOESY, DQF-COSY, 31P-1H-COSY, 13C-1H-HMQC
Sample Contents2 mM P4 RNA; 100 mM sodium chloride; 10 mM magnesium chloride; 10 mM phosphate buffer; 90% H2O, 10% D2O
Solvent90% H2O/10% D2O
Ionic Strength100 mM Na, 10 mM Mg
pH6.5
Pressureambient
Temperature (K)288
Experiment(s):2D NOESY
Sample Contents2 mM P4 RNA; 100 mM sodium chloride; 3 mM hexammine cobalt chloride; 10 mM phosphate buffer; 90% H2O, 10% D2O
Solvent90% H2O/10% D2O
Ionic Strength100 mM Na, 3 mM Co(NH3)6
pH6.5
Pressureambient
Temperature (K)288
Experiment(s):2D NOESY
Spectrometer Information
Manufacturer Model Field Strength
Bruker DRX 500.0
Bruker AMX 600.0
NMR Refinement
Method restrained molecular dynamics and simulated annealing
Details The average structure is based on superposition of 11 converged structures after refinement. The average RMS deviation between the ensemble and the average structure is 1.7 Angstrom. A total of 266 NOE-derived intramolecular distance constraints, 164 dihedral restraint and 48 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
NMR Ensemble Information
Conformers Submitted Total Number 1
Representative Model Choice Rationale
1 minimized average structure
Additional NMR Experimental Information
1 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
Computation: NMR Software
# Classification Software Name Author
1 collection version: 3.1 XWINNMR Bruker
2 processing version: 95 FELIX MSI
3 structure solution version: 3.84 X-PLOR Brunger
4 refinement version: 3.84 X-PLOR Brunger