SOLUTION NMR Experimental Data


Experimental Details
Sample Conditions
Sample Contents1.2 mM RNA, 8mM sodium phosphate buffer pH 6.6
Solvent90% H2O, 10% D2O
Ionic Strength8mM Na phosphate
pH6.6
Pressureambient
Temperature (K)278
Experiment(s):2D NOESY
Sample Contents1.2 mM RNA, 8mM sodium phosphate buffer pH 6.6
Solvent100% D2O
Ionic Strength8mM Na phosphate
pH6.6
Pressureambient
Temperature (K)278
Experiment(s):2D NOESY
Sample Contents1.2 mM RNA, 8mM sodium phosphate buffer pH 6.6
Solvent100% D2O
Ionic Strength8mM Na phosphate
pH6.6
Pressureambient
Temperature (K)298
Experiment(s):2D NOESY
Spectrometer Information
Manufacturer Model Field Strength
Bruker DMX 600.0
Bruker DRX 500.0
NMR Refinement
Method Using a motif-based approach, a model was constructed from X-ray and NMR structures of 6 known RNA motifs: (i) double helix, (ii) sheared G.A base pair, (iii) eukaryotic loop E motif, (iv) S-turn, (v) trans Wobble G.U pair, (vi) U-turn. The resulting energy minimized model was then validated by comparing it with the NOESY data.
Details Motifs (i) to (vi) were obtained from the following sources: (i) idealized A-form coordinates (InsightII, MSI); (ii)&(iii) PDB 430D.pdb; (iv) PDB 1ETG.pdb; (vi) PDB 1QA6.pdb; Motif (v) was constructed manually.
NMR Ensemble Information
Conformer Selection Criteria structures with acceptable covalent geometry, structures with favorable non-bond energy
Conformers Calculated Total Number 1
Conformers Submitted Total Number 1
Computation: NMR Software
# Classification Software Name Author
1 refinement InsightII 97.0 MSI
2 refinement CHARMM 25.2 Brooks et al.
3 data analysis Sparky 3.66 Goddard & Kneller
4 processing NMRPipe 1.7 Delaglio
5 collection XWINNMR 2.5 Bruker