The complete nucleotide sequence of dipeptidyl aminopeptidase IV (DAP IV) from Pseltdomonas sp. W024 was determined. Nucleotide sequence analysis revealed an open reading frame of 2238 bp, which was assigned to dap4 by N-terminal and internal amino acid sequences previously reported. The predicted amino acid sequence of DAP IV contains a serine protease Gly-X-Sel-X-Gly-Gly consensus motif and displays extensive homology to DAP IVs and the homologous proteins from eukaryotes and bacteria, belonging to the prolyl oligopepticlase family S9. In Pseudonionas sp. WO24, DAP IV is expressed as 82 and 84-kDa isoforms, having two Met, Met-1 and Met-12, in its N-terminal sequence. Met-1 of DAP IV was mutated to Gly and Met-12 was mutated to Ile, and we overexpressed the two Mutated genes in Escherichia coli and obtained the recombinant 82 and 84-kDa proteins from the periplasm and the cytoplasm, respectively, suggesting that the 82 and 84-kDa isoforms are derived from the same gene and localize to different compartments in the cell. We developed purification steps for activting a large amount of 84-kDa isoform protein that will be useful for producing protein for crystallographic Studies. (c) 2004 Elsevier Inc. All rights reserved.