Enzyme Redesign Guided by Cancer-Derived IDH1 Mutations

Mutations in an enzyme can result in a neomorphic catalytic activity in cancers. We applied cancer-associated mutations from isocitrate dehydrogenases (IDHs) to homologous residues in the active sites of homoisocitrate dehydrogenases (HIDHs) to derive enzymes that catalyze the conversion of 2-oxoadipate to (R)-2-hydroxyadipate, a critical step for adipic acid production. Thus, we provide a prototypic example of how insights from cancer genome sequencing and functional studies can aid in enzyme redesign.

[1]  F. Young Biochemistry , 1955, The Indian Medical Gazette.

[2]  V. W. Thompson,et al.  The kinetics of pig heart triphosphopyridine nucleotide-isocitrate dehydrogenase. I. Initial velocity, substrate and product inhibition, and isotope exchange studies. , 1974, The Journal of biological chemistry.

[3]  Noyori,et al.  A "Green" route to adipic acid: direct oxidation of cyclohexenes with 30 percent hydrogen peroxide , 1998, Science.

[4]  Ridong Chen,et al.  Functional prediction: Identification of protein orthologs and paralogs , 2000, Protein science : a publication of the Protein Society.

[5]  J. W. Frost,et al.  Benzene‐Free Synthesis of Adipic Acid , 2002, Biotechnology progress.

[6]  M. Nishiyama,et al.  Characterization of Homoisocitrate Dehydrogenase Involved in Lysine Biosynthesis of an Extremely Thermophilic Bacterium,Thermus thermophilus HB27, and Evolutionary Implication of β-Decarboxylating Dehydrogenase* , 2003, The Journal of Biological Chemistry.

[7]  Jianping Ding,et al.  Structures of Human Cytosolic NADP-dependent Isocitrate Dehydrogenase Reveal a Novel Self-regulatory Mechanism of Activity* , 2004, Journal of Biological Chemistry.

[8]  N. Verhoeven,et al.  Measurement of urinary D- and L-2-hydroxyglutarate enantiomers by stable-isotope-dilution liquid chromatography-tandem mass spectrometry after derivatization with diacetyl-L-tartaric anhydride. , 2004, Clinical chemistry.

[9]  P. Cook,et al.  Complete kinetic mechanism of homoisocitrate dehydrogenase from Saccharomyces cerevisiae. , 2007, Biochemistry.

[10]  D. Busam,et al.  An Integrated Genomic Analysis of Human Glioblastoma Multiforme , 2008, Science.

[11]  Takashi Yamamoto,et al.  Chemical mechanism of homoisocitrate dehydrogenase from Saccharomyces cerevisiae. , 2008, Biochemistry.

[12]  P. Cook,et al.  A lysine-tyrosine pair carries out acid-base chemistry in the metal ion-dependent pyridine dinucleotide-linked beta-hydroxyacid oxidative decarboxylases. , 2009, Biochemistry.

[13]  Ken Chen,et al.  Recurring mutations found by sequencing an acute myeloid leukemia genome. , 2009, The New England journal of medicine.

[14]  P. Cook,et al.  Site-directed mutagenesis as a probe of the acid-base catalytic mechanism of homoisocitrate dehydrogenase from Saccharomyces cerevisiae. , 2009, Biochemistry.

[15]  L. Liau,et al.  Cancer-associated IDH1 mutations produce 2-hydroxyglutarate , 2009, Nature.

[16]  R. McLendon,et al.  IDH1 and IDH2 mutations in gliomas. , 2009, The New England journal of medicine.

[17]  Omar Abdel-Wahab,et al.  The common feature of leukemia-associated IDH1 and IDH2 mutations is a neomorphic enzyme activity converting alpha-ketoglutarate to 2-hydroxyglutarate. , 2010, Cancer cell.

[18]  M. Blomberg,et al.  Theoretical insights into heme-catalyzed oxidation of cyclohexane to adipic acid. , 2011, Inorganic chemistry.

[19]  Hai Yan,et al.  2-Hydroxyglutarate Production, but Not Dominant Negative Function, Is Conferred by Glioma-Derived NADP+-Dependent Isocitrate Dehydrogenase Mutations , 2011, PloS one.

[20]  Joseph G Boyer,et al.  A tale of two subunits: how the neomorphic R132H IDH1 mutation enhances production of αHG. , 2011, Biochemistry.

[21]  W. Buckel,et al.  Substrate specificity of 2-hydroxyglutaryl-CoA dehydratase from Clostridium symbiosum: toward a bio-based production of adipic acid. , 2011, Biochemistry.

[22]  Stacie L. Bulfer,et al.  Crystal structure of homoisocitrate dehydrogenase from Schizosaccharomyces pombe , 2011, Proteins.

[23]  M. S. van der Knaap,et al.  Progress in understanding 2-hydroxyglutaric acidurias , 2012, Journal of Inherited Metabolic Disease.