The inability to obtain flavin-containing monooxygenase 4 (FMO4) in heterologous systems has hampered efforts to characterize this isoform of the FMO gene family. Neither the human nor the rabbit ortholog of FMO4, each of which has been cloned and sequenced, has been expressed. Attempts to achieve expression of FMO4 have been made with Escherichia coli, baculovirus, yeast, and COS systems.The cDNAs encoding FMO4 have extended coding regions compared with those encoding other FMO isoforms. The derived amino acid sequences of FMO1, -2, -3, and -5 from all species examined contain about the same number of residues (531-535 residues), whereas the derived sequences of human and rabbit FMO4 contain 558 and 555 residues, respectively.We have investigated whether the elongation of the FMO4 coding region is related to the inability to achieve expression. The cDNA encoding human FMO4 has been modified by a single base change that introduces a stop codon at the consensus position. This modification allows for expression in E. coli. Lack of expression of intact FMO4 is caused by a problem that occurs following transcription, a problem that is overcome completely by relocation of the stop codon 81 bases to 5 of its normal position. Truncated FMO4 is expressed as an active enzyme with characteristics typical of an FMO isoform.Possible functional changes resulting from altering the 3-end of an FMO were investigated with human FMO3. Elongation of the coding region of the FMO3 cDNA to the next available stop codon (FMO3*) resulted in the expression of an enzyme with properties very similar to those of unmodified FMO3. Elongation of FMO3 lowered the level of expression in E. coli but did not eliminate it. As with FMO4, the difference in expression levels between FMO3 and elongated FMO3 (FMO3*) appears to be related to translation rather than transcription. The functional characteristics of FMO3 and FMO3* are not significantly different.The flavin-containing monooxygenase (FMO, 1 EC 1.14.13.8) gene family encodes a minimum of five isoforms that catalyze the monooxygenation of numerous nitrogen-, phosphorous-, or sulfur-containing xenobiotics, including drugs, pesticides, and industrial chemicals (1, 2). FMOs convert many xenobiotics into more polar substances as a prelude to excretion but in some cases can also catalyze the formation of reactive metabolites capable of binding to cellular macromolecules. The FMOs are primarily associated with the endoplasmic reticulum of cells located in most organs of all mammalian species examined. Several endogenous compounds have been identified as substrates for FMOs (3), but the physiological role of these enzymes has not been determined. Regulation of disulfide bond formation and metabolism of dietary amines are two possibilities that have been suggested (4, 5).FMO activity was first described by Pettit et al. (6) in 1964, and an FMO was purified from hog liver in 1972 (7). Subsequently, it was concluded that the FMO isoform expressed in rabbit lung was distinct from the "hepatic" FMO (8,9)...