Table 1. NMR Restraints and Statistical Analysis of the Refined Structure of the OL-1b Duplex.
NMR restraints (no.) | |
total restraints for rMD calculations | 772 |
experimental NOE distance restraints | 211 |
intranucleotide NOE restraints | 114 |
internucleotide NOE restraints | 97 |
restraints of 7amG base | 31 |
empirical base pair restraints | 52 |
empirical torsion angle restraints | 200 |
backbone torsion angle restraints | 100 |
deoxyribose torsion angle restraints | 100 |
structure refinement statisticsa | |
no. of distance restraint violations | 54 |
no. of torsion restraint violations | 11 |
total distance penalty/maximal penalty (kcal/mol) | 2.84/0.01 |
total torsion penalty/maximal penalty (kcal/mol) | 1.13/0.30 |
distant restraint force field (kcal mol–1 Å–2) | 32 |
torsion restraint force field (kcal mol–1 deg–2) | 32 |
NMR R factor (Rx) (×10–2)b | 8.89 |
intranucleotide NOEs | 6.13 |
internucleotide NOEs | 12.6 |
root-mean-square deviation of refined structures (on all atoms) | 0.45 |
The mixing time used to calculate Rx was 250 ms.
Rx = ∑|(a0)i1/6 – (ac)i1/6|/|(a0)i1/6|, where a0 and ac are the intensities of observed (non-zero) and calculated NOE cross-peaks, respectively.