The SELB protein from Escherichia coli is a specialized elongation factor required for the UGA-directed insertion of the amino acid selenocysteine into selenopolypeptides. Discrimination of the UGA codon requires the presence of a recognition element within the mRNA, which is located at the 3' side of the UGA codon; a hairpin structure can be formed within this mRNA region. By gel shift assays, a specific interaction between SELB and the mRNA recognition element could be demonstrated. Footprinting experiments, using nucleases or iodine as cleaving agents, showed that SELB binds to the loop region of the hairpin structure. In the presence of selenocysteinyl-tRNA, SELB formed a complex with the charged tRNA and the mRNA. The results indicate that targeted insertion of selenocysteine is accomplished by the binding of the SELB protein to this mRNA recognition element, resulting in the formation of a selenocysteinyl-tRNA-SELB complex at the mRNA in the immediate neighborhood of the UGA codon.A number of unusual coding events, which contradict the hitherto paradigmatic scheme ofprotein synthesis, have been discovered during the last few years (for review, see refs. 1 and 2). Besides ribosome hopping and frameshifting, a particularly intriguing finding was that the genetic capacity of a cell can be expanded in such a way that a nonstandard amino acid, selenocysteine, is incorporated into polypeptides. This amino acid is present in several proteins from organisms belonging to all three lines of descent, archaea, bacteria, and eukarya (for review, see refs. 3 and 4). The first indication that selenocysteine is inserted cotranslationally was provided by the finding that the genes for two selenoproteins-namely, fdhF coding for a formate dehydrogenase from Escherichia coli (5) and gpx coding for a glutathione peroxidase from mouse (6)-contain an in-frame TGA (UGA) codon. Since then, a number of genes coding for other selenoproteins also have been found to possess an in-frame TGA (UGA) codon (7-15). With the exception of the gene for plasma selenoprotein P, which contains 10 TGA (UGA) codons, all these genes contain only 1 such codon.A biologically basic question bearing considerable relevance for the understanding of the translation and the evolution of the genetic code is how the translational machinery can cope with the situation that one and the same triplet can signal either chain termination or selenocysteine insertion. The best-examined systems up to now are those of the E. coli formate dehydrogenase H (fdhF) and N (fdnG) genes (5, 10).Their analysis has revealed that a sequence of 40 bases in the mRNA at the 3' side of the UGA codon, which can be folded into a putative hairpin structure, is required for selenocysteine insertion (16, 17). Mutagenesis of this hairpin structure showed that the sequence of the loop region is particularly important and that it may serve as a recognition element for some putative factor directing the selenocysteine-inserting tRNA species (tRNASec) to decode that particular UGA (18)...