In Zymomonas mobilis, the genes encoding glyceraldehyde-3-phosphate dehydrogenase and phosphoglycerate kinase are transcribed together from the gap-pgk operon. However, higher levels of the former enzyme are present in the cytoplasm because of increased stability of a 5' segment containing the gap coding region. This segment is bounded by an upstream untranslated region which can be folded into many stem-loop structures and a prominent intercistronic stem-loop. Mutations eliminating a proposed stem-loop in the untranslated region or the intercistronic stem-loop resulted in a decrease in the stability and pool size of the 5' gap segment. Site-specific mutations in the unpaired regions of both of these stems also altered the message pools. Elimination of the intercistronic stem appeared to reduce the endonucleolytic cleavage within the pgk coding region, increasing the stability and abundance of the full-length message. DNA encoding the prominent stem-loop at the 3' end of the message was shown to be a transcriptional terminator both in Z. mobilis and in Escherichia coli. This third stem-loop region (part of the transcriptional terminator) was required to stabilize the full-length gap-pgk message.In bacteria, many genes whose products function together in pathways and processes are organized into operons. While this provides an efficient means to coordinate transcription, alternative controls are needed to balance the levels of individual gene products. Much of this further control is provided by endoribonuclease processing and the selective stabilization of mRNA segments (hence increased rounds of translation) as reported for the puf operon in Rhodobacter capsulata (9, 24), the tra operon in plasmid R1-19 (25), the plasmid-encoded arsenical resistance operon (35), the pap operon in uropathogenic Escherichia coli (3), and the malEFG operon in E. coli (32), among others. The differential synthesis of glyceraldehyde-3-phosphate dehydrogenase (GAPDH) and phosphoglycerate kinase (PGK) encoded by the gap-pgk operon in Zymomonas mobilis also appears to be controlled in this way.Half of the ATP synthesized in Z. mobilis is produced by the combination of GAPDH and PGK. In this obligately fermentative bacterium, both enzymes are essential and are needed at near-equivalent activities. However, the catalytic efficiency of PGK exceeds that of GAPDH by severalfold. In apparent compensation, threefold-greater amounts of the GAPDH protein than PGK protein are maintained in the cytoplasm (18,19). Neither GAP nor PGK is preferentially degraded, eliminating protein turnover as a means of maintaining differences in enzyme abundance (2). Although gap andpgk are transcribed as a single operon, measurements of functional message pools were in close agreement with the observed differences in protein abundance (30). Two stable messages are produced from this operon, a 2.7-kb message containing the gap and pgk coding regions and a more abundant 1.2-kb message (5' segment) containing only the gap coding region. The more-stable, shorter mes...