Figure 1.

Secondary structure presentation of (A) mature B. subtilis 6S-1 RNA (190 nt), adapted from (11), and (B) of E. coli 6S RNA according to (9); both RNAs were transcribed with two artificially added G residues (lowercase letters) for reasons of efficient synthesis by T7 RNA polymerase. In both panels, the black lines along the sequence indicate the region of B. subtilis 6S-1 RNA and E. coli 6S RNA that serve as a template for the synthesis of small transcripts (product RNAs = pRNAs) by RNA polymerase (this study, 9); arrows mark the starting point of pRNA transcription; the chemically synthesized pRNA mimics are depicted in the grey boxes on the left above the 6S RNA structures. In panel A, 6S-1 RNA nt 151–157 complementary to nt 2–8 of the LNA probe are boxed. LNA probes for pRNA detection are shown in grey boxes on the right above the secondary structures; DIG, digoxigenin attached to the 5′-end via a C6 linker; small letters depict DNA residues, capital letters LNA residues.