Two of the four proline analogues tested for their effect on the formation and activity of Escherichia coli alkaline phosphatase were able to substitute for proline in protein synthesis in a proline auxotroph. One of these, 3, 4-dehydroproline, effectively replaced proline and led to formation of an active enzyme under conditions where no proline was present in the polypeptides. Substitution of azetidine-2-carboxylate for proline prevented active enzyme formation, producing instead altered monomeric forms of the alkaline phosphatase. These were detected with antibodies specific to denatured forms of the enzyme, and they were also characterized, together with cellular proteins, by sodium dodecyl sulfate-polyacrylamide gel electrophoresis. Alkaline phosphatase, as well as several other proteins, is localized exterior to the bacterial cell cytoplasm in the periplasmic space. In the presence of azetidine-2-carboxylate, a substantial number of these periplasmic proteins retain their specific site of localization, and the denatured subunits of alkaline phosphatase were only detected in the periplasmic fraction of the cell. Thus, secretion of these proteins does not appear to require a high degree of specificity in the native structure of the polypeptide chain. The analogues 4-allohydroxyproline and 4-thiazolidine carboxylate were unable to substitute for proline in protein synthesis but they inhibited growth of E. coli.An important stage in the formation of the alkaline phosphatase of Escherichia coli (EC 3.1.3.1.) is the transport of the protein from its site of synthesis in the cytoplasm to its site of function in the periplasm, a region of the bacterial cell exterior to the cytoplasmic membrane. From studies with several alkaline phosphatase-negative mutants that synthesized antigenically related forms of the enzyme, we had determined that the protein was probably transported in the form of the subunit prior to dimerization and activation by metal (15). These latter two additional reactions are essential for production of an active enzyme. Support for this model of transport of the subunit came from observations that E. coli spheroplasts that were able to make protein but unable to form active alkaline phosphatase secreted subunits of this protein into the spheroplast medium (14). Mechanisms for the transport of large polypeptides across bacterial membranes have not been described, but any system of transport must possess a high degree of specificity because only a small frac-tion of bacterial proteins are localized outside the cytoplasm. We have attempted to determine whether the specificity for alkaline phosphatase transport lies in the secondary or tertiary structure of the polypeptide chain. Because protein structure depends upon the specific amino acid sequence in the polypeptide, we altered the primary structure with analogues of amino acids that were able to substitute for the naturally occurring amino acid in protein synthesis. Previous experiments with two histidine analogues (1,2, 4-triazole-3-alanine and ...