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 1XST | pdb_00001xst

Solution structure of E.coli RNase P RNA P4 stem, U69A mutation, complexed with cobalt (III) hexammine.


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D NOESY2mM P4 U69A RNA; 100mM NaCl; 10mM phosphate buffer; 90% H2O, 10% D2O90% H2O/10% D2O100 mM NaCl6.4ambient288
22D NOESY2mM P4 U69A RNA; 100mM NaCl; 10mM phosphate buffer; 100% D2O100% D2O100 mM NaCl6.4ambient288
32D NOESY2mM P4 U69A RNA; 100mM NaCl; 6mM hexammine cobalt chloride; 10mM phosphate buffer; 90% H2O, 10% D2O90% H2O/10% D2O100 mM NaCl, 6 mM Co(NH3)6Cl6.4ambient288
4DQF-COSY2mM P4 U69A RNA; 100mM NaCl; 10mM phosphate buffer; 100% D2O100% D2O100 mM NaCl6.4ambient288
531P-1H-Hetero-COSY2mM P4 U69A RNA; 100mM NaCl; 10mM phosphate buffer; 100% D2O100% D2O100 mM NaCl6.4ambient288
631P-1H-Hetero-TOCSY-NOESY2mM P4 U69A RNA; 100mM NaCl; 10mM phosphate buffer; 100% D2O100% D2O100 mM NaCl6.4ambient288
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerDMX600
NMR Refinement
MethodDetailsSoftware
restrained molecular dynamics and simulated annealingThe average structure is based on the superposition of 14 structures after refinement. The average RMS deviation between the ensemble and the average structure is 1.85 Angstrom. A total of 290 NOE-derived distance constraints, 245 dihedral constraints and 48 distance constraints from hydrogen bonds were used in refinement. 15 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 Number1
Representative Model1 (minimized average structure)
Additional NMR Experimental Information
DetailsThe structure was determined using standard 2D homonuclear techniques as well as 13C and 31P heteronuclear experiments performed at natural abundance. Intermolecular NOE crosspeaks between RNA protons and cobalt (III) hexammine protons and intermolecular distance constraints derived thereof were used to determine the site of cobalt (III) hexammine binding.
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1collectionXwinNMR1.2Bruker
2processingNMRPipe2.1F. Delaglio
3structure solutionX-PLOR3.1A. Bruenger
4refinementX-PLOR3.1A. Bruenger