The transcriptional regulator RfaH stimulates RNA chain synthesis after recruitment to elongation complexes by the exposed nontemplate DNA strand

The transcriptional regulatory protein RfaH controls expression of several operons that encode extracytoplasmic components in bacteria. Regulation by RfaH occurs during transcript elongation and depends on a 5'-proximal, transcribed nucleic acid sequence called ops that induces transcriptional pausing in vitro and in vivo. We report that RfaH recognizes RNA polymerase transcribing RfaH-regulated operons by interacting with the ops sequence in the exposed nontemplate DNA strand of ops-paused transcription complexes. Although RfaH delays escape from the ops pause, once escape occurs, RfaH enhances elongation by suppressing pausing and p-dependent termination without apparent involvement of other accessory proteins. This activity predicts a cumulative antitermination model for RfaH's regulation of ops-containing operons in vivo.