Three molecular foldases, DsbA, DsbC, and rotamase (ppiA), exhibited the unusual property of accumulating in an osmotically sensitive cellular compartment of Escherichia coli when their signal sequences were precisely removed by mutation. A mammalian protein, interleukin-1 (IL-1) receptor antagonist, behaved in a similar fashion in E. coli when its native signal sequence was deleted. These leaderless mutants (but not two control proteins overexpressed in the same system) were quantitatively extractable from whole cells by a variety of methods generally employed in the recovery of periplasmic proteins. A series of biochemical and genetic experiments showed that (i) leaderless DsbA (but not the wild type) was retained in a nonperiplasmic location; (ii) -galactosidase fusions to leaderless DsbA (but not to the wild type) exhibited efficient ␣ complementation; (iii) none of the leaderless mutant proteins were substantially associated with cell membranes, even when they were overexpressed in cells; and (iv) leaderless DsbA was not transported to an osmotically sensitive compartment via a secA-or ftsZ-dependent mechanism. The observation that these proteins transit to some privileged cellular location by a previously undescribed mechanism(s)-absent their normal mode of (signal sequence-dependent) translocation-was unexpected. DsbA, rotamase, and IL-1, whose tertiary structures are known, appear to be structurally unrelated proteins. Despite a lack of obvious homologies, these proteins apparently have a common mechanism for intracellular localization. As this (putative) bacterial mechanism efficiently recognizes proteins of mammalian origin, it must be well conserved across evolutionary boundaries.Proteins destined for secretion to the periplasm or outer membrane of Escherichia coli typically contain a leader sequence at the amino terminus of the polypeptide chain. During translocation, this leader is generally cleaved from the mature protein (53, 67). The absence or inactivation of this leader by mutation results in a protein that cannot be efficiently translocated out of the cytoplasm by the cell's general secretory apparatus unless compensatory mutations are simultaneously introduced into one or more of the cell's secretory apparatus components (10,19,23,47).In addition to the well-documented translocation of proteins from cytoplasm to periplasm, selective protein localization to a variety of subcellular structures and organelles in E. coli has previously been documented (2,6,7,45,54,60); this has been observed even for proteins that are not native to cells (30,35,56). The mechanisms which mediate these localization events in bacterial cells remain to be fully elucidated.Proteins whose transport out of the cytoplasm is independent of the classical transmembrane secretory pathway in both prokaryotes (11,22,41,42) and eukaryotes (14,57,58,63,68) have previously been described. The protein interleukin-1 (IL-1), for example, is secreted from mammalian cells by a mechanism which is insensitive to brefeldin A, an inhib...