TheTrypanosoma cruzicyclophilin gene family comprises 15 paralogues whose nominal masses vary from 19 to 110 kDa, namelyTcCyP19,TcCyP20,TcCyP21,TcCyP22,TcCyP24,TcCyP25,TcCyP26,TcCyP28,TcCyP29,TcCyP30,TcCyP34,TcCyP35,TcCyP40,TcCyP42 andTcCyP110. Under the conditions used, only some of theT. cruzicyclophilin paralogue products could be isolated by affinity chromatography. The 15 paralogues were aligned with 495 cyclophilins from diverse organisms. Analyses of clusters formed by theT. cruzicyclophilins with others encoded in various genomes revealed that 8 of them (TcCyP19,TcCyP21,TcCyP22,TcCyP24,TcCyP35,TcCyP40,TcCyP42 andTcCyP110) have orthologues in many different genomes whereas the other 7 display less-defined patterns of their sequence attributes and their classification to a specific group of cyclophilin's orthologues remains uncertain. Seven epimastigote cDNA clones encoding cyclophilin isoforms were further studied. These genes were found dispersed throughout the genome of the parasite. Amastigote and trypomastigote mRNAs encoding these 7 genes were also detected. We isolated 4 cyclosporin A-binding proteins inT. cruziepimastigote extracts, which were identified by mass spectrometry asTcCyP19,TcCyP22,TcCyP28 andTcCyP40. Cyclosporin A-binding to these cyclophilins might be of importance to the mechanism of action of Cyclosporin A and its non-immunosuppressive analogues, whose trypanocidal effects were previously reported, and therefore, of potential interest in the chemotherapy of Chagas' disease.