FAD-dependent polyamine oxidase (PAO; EC 1.5.3.11) is one of the key enzymes in the catabolism of polyamines spermidine and spermine. The natural substrates for the enzyme are N 1 -acetylspermidine, N 1 -acetylspermine, and N 1 ,N 12 -diacetylspermine. Here we report that PAO, which normally metabolizes achiral substrates, oxidized (R)-isomer of 1-amino-8-acetamido-5-azanonane and N 1 -acetylspermidine as efficiently while (S)-1-amino-8-acetamido-5-azanonane was a much less preferred substrate. It has been shown that in the presence of certain aldehydes, the substrate specificity of PAO and the kinetics of the reaction are changed to favor spermine and spermidine as substrates. Therefore, we examined the effect of several aldehydes on the ability of PAO to oxidize different enantiomers of ␣-methylated polyamines. PAO supplemented with benzaldehyde predominantly catalyzed the cleavage of (R)-isomer of ␣-methylspermidine, whereas in the presence of pyridoxal the (S)-␣-methylspermidine was preferred. PAO displayed the same stereospecificity with both singly and doubly ␣-methylated spermine derivatives when supplemented with the same aldehydes. Structurally related ketones proved to be ineffective. This is the first time that the stereospecificity of FAD-dependent oxidase has been successfully regulated by changing the supplementary aldehyde. These findings might facilitate the chemical regulation of stereospecificity of the enzymes.Polyamines, spermidine (Spd), 3 and spermine (Spm) and their precursor, putrescine, are present at millimolar concentrations in mammalian cells (1). They are essential for cell growth, participate in the regulation of cellular metabolism and physiology (2, 3). Their cellular levels are strictly controlled at various levels including the synthesis, degradation, uptake, and excretion (4, 5). Furthermore, the polyamine homeostasis is also regulated by a rapid interconversion (6 -8) that in part offers means to supply proper polyamines for each individual process. Spd and Spm appear to be able to substitute for each other to some extent (9, 10). The exact cellular roles of each individual polyamine, however, are not well known (11). One of the approaches to elucidate the impact of each individual polyamine in biological processes is the use of metabolically stable Spd and Spm analogues. Examples of such compounds are MeSpd and bis-␣,␣Ј-methylspermine (Me 2 Spm) that are able to fulfill many of the cellular functions of their native counterparts.Earlier, we have successfully used racemic ␣-methyl analogs of polyamines to study the role of each individual polyamine in vivo. Both MeSpd and Me 2 Spm are capable of preventing acute pancreatitis and restoring early liver regeneration after partial hepatectomy under the condition of severe depletion of the natural polyamines in transgenic rats (12, 13).The interaction of racemic MeSpd with recombinant human PAO (hPAO) in the presence of benzaldehyde (BA), which allows the enzyme to oxidize nonacetylated Spd, led to the formation of putrescine (13)....