title: HbIDI, SlIDI and EcIDI: A comparative study of isopentenyl diphosphate isomerase activity and structure.
abstract: In this study, we cloned, expressed and purified the isopentenyl diphosphate isomerases (IDIs) from two plants, Hevea brasiliensis and Solanum lycopersicum, and compared them to the already well characterized Escherichia coli IDI. Phylogenetic analysis showed high homology between the three enzymes. Their catalytic activity was investigated in vitro with recombinant purified enzymes and in vivo by complementation colorimetric tests. The three enzymes displayed consistent activities both in vitro and in vivo. In term of structure, studied by ATR-FTIR and molecular modeling, it is clear that both plant enzymes are more related to their human homologue than to E. coli IDI. But it is assumed that EcIDI represent the minimalistic part of the catalytic core, as both plant enzymes present a supplementary sequence forming an extra α-helice surrounding the catalytic site that could facilitate the biocatalysis. New potential biotechnological applications may be envisaged.
authors.affiliation: CNRS, LCPO, UMR 5629, Univ. Bordeaux, Bordeaux INP, F-33600, Pessac, France; CNRS, CBMN, UMR 5248, Univ. Bordeaux, Bordeaux INP, F-33600, Pessac, France. Electronic address: kberthelot@enscbp.fr.
authors.forename: Karine
authors.initials: K
authors.lastname: Berthelot
authors.affiliation: CNRS, LCPO, UMR 5629, Univ. Bordeaux, Bordeaux INP, F-33600, Pessac, France.
authors.forename: Yannick
authors.initials: Y
authors.lastname: Estevez
authors.affiliation: Departamento de Química Orgánica y Farmacéutica, Facultad de Farmacia y Nutrición, Universidad de Navarra, C/. Irunlarrea 1, 31008, Pamplona, Navarra, Spain.
authors.forename: Miguel
authors.initials: M
authors.lastname: Quiliano
authors.affiliation: Department of Systems Biology and Integrated Program in Cellular, Molecular and Biomedical Studies, Columbia University in the City of New York, NY, 10032, USA; Laboratorio de Bioinformática y Biología Molecular, Laboratorios de Investigación y Desarrollo, Facultad de Ciencias y Filosofía, Universidad Peruana Cayetano Heredia, San Martin de Porres, Lima, 31, Peru.
authors.forename: Pedro A
authors.initials: PA
authors.lastname: Baldera-Aguayo
authors.affiliation: Laboratorio de Bioinformática y Biología Molecular, Laboratorios de Investigación y Desarrollo, Facultad de Ciencias y Filosofía, Universidad Peruana Cayetano Heredia, San Martin de Porres, Lima, 31, Peru.
authors.forename: Mirko
authors.initials: M
authors.lastname: Zimic
authors.affiliation: INRA Bordeaux-Aquitaine, UMR 1332 Biologie du Fruit et Pathologie, F-33882, Villenave d'Ornon, France.
authors.forename: Anne
authors.initials: A
authors.lastname: Pribat
authors.affiliation: CNRS, LCPO, UMR 5629, Univ. Bordeaux, Bordeaux INP, F-33600, Pessac, France.
authors.forename: Marc-Elias
authors.initials: ME
authors.lastname: Bakleh
authors.affiliation: Univ. Bordeaux, Grape Ecophysiology and Functional Biology Laboratory, ISVV, F-33882, Villenave d'Ornon, France.
authors.forename: Emeline
authors.initials: E
authors.lastname: Teyssier
authors.affiliation: Univ. Bordeaux, Grape Ecophysiology and Functional Biology Laboratory, ISVV, F-33882, Villenave d'Ornon, France.
authors.forename: Philippe
authors.initials: P
authors.lastname: Gallusci
authors.affiliation: CNRS, LCPO, UMR 5629, Univ. Bordeaux, Bordeaux INP, F-33600, Pessac, France.
authors.forename: Christian
authors.initials: C
authors.lastname: Gardrat
authors.affiliation: CNRS, CBMN, UMR 5248, Univ. Bordeaux, Bordeaux INP, F-33600, Pessac, France.
authors.forename: Sophie
authors.initials: S
authors.lastname: Lecomte
authors.affiliation: CNRS, LCPO, UMR 5629, Univ. Bordeaux, Bordeaux INP, F-33600, Pessac, France. Electronic address: peruch@enscbp.fr.
authors.forename: Frédéric
authors.initials: F
authors.lastname: Peruch
mesh_terms: D000595:Amino Acid Sequence; D055162:Biocatalysis; D019748:Carbon-Carbon Double Bond Isomerases / Q000737:chemistry* / Q000378:metabolism*; D004926:Escherichia coli / Q000201:enzymology*; D045782:Hemiterpenes; D028482:Hevea / Q000201:enzymology*; D006801:Humans; D018551:Solanum lycopersicum / Q000201:enzymology*; D008958:Models, Molecular; D013045:Species Specificity
chemical_list: D045782:Hemiterpenes; D019748:Carbon-Carbon Double Bond Isomerases; C021453:isopentenyldiphosphate delta-isomerase
keywords: ATR-FTIR; Enzyme structure-activity; Hevea brasiliensis; Isopentenyl diphosphate isomerase; Isoprenoid biosynthesis; Solanum lycopersicum