Table 2. Predicted E. coli RNase T1 Digestion Products and the Source tRNAs for Each That Were Not Detected by LC-MS/MS with Either a Standard DDA Strategy or the Exclusion List Strategya.
| RNase T1 digestion product | tRNA | explanation |
|---|---|---|
| DDAUG | Cys (GCA) | detected as DUAUG |
| UU[cmo5U]G | Pro (UGG) | detected as [Um]U[cmo5U]G |
| ACU[cmo5U]G | Thr (UGU) | detected as A[Cm]U[cmo5U]G |
| CCCCUCCU[t6A]AG | Arg (CCU) | low abundance tRNA |
| ACU[k2C]AU[t6A]A[Ψ]CG | Ile (CAU) | low ionization efficiency |
| AC[s2C]U[mnm5U]CU[t6A]AG | Arg (UCU) | low abundance tRNA |
| CCCUU[s4U]AG | Ile (CAU) | interference |
| AADC[Gm]G | Leu (UAA) | interference |
| AAADC[Gm]G | Leu (CAA) | interference |
| CC[s2C]UCCG | Arg (CCG) | present but not selected for MS/MS |
| [m7G]UCUCAGa | Arg (CCG) | present but not selected for MS/MS |
| [m7G][acp3U]CACAGa | Met (CAU) | present but not selected for MS/MS |
| CCU[mnm5U]CCAAGa | Gly (UCC) | present but not selected for MS/MS |
a
Detected using an enhanced exclusion list (see text for details).