Structure of mammalian ornithine decarboxylase at 1.6 Å resolution: stereochemical implications of PLP-dependent amino acid decarboxylases

Martell, 1982, Reaction pathways and mechanisms of pyridoxal catalysis, Adv. Enzymol. Relat. Areas Mol. Biol, 53, 163

Jansonius, 1998, Structure, evolution and action of vitamin B6-dependent enzymes, Curr. Opin. Struct. Biol, 8, 759, 10.1016/S0959-440X(98)80096-1

Ford, 1980, Three-dimensional structure of a pyridoxal-phosphate-dependent enzyme, mitochondrial aspartate aminotransferase, Proc. Natl Acad. Sci. USA, 77, 2559, 10.1073/pnas.77.5.2559

Hyde, 1988, Three-dimensional structure of the tryptophan synthase α2β2 multienzyme complex from Salmonella typhimurium, J. Biol. Chem, 263, 17857, 10.1016/S0021-9258(19)77913-7

Shaw, 1997, Determination of the structure of alanine racemase from Bacillus stearothermophilus at 1.9 Å resolution, Biochemistry, 36, 1329, 10.1021/bi961856c

Sugio, 1995, Crystal structure of a D-amino acid aminotransferase: How the protein controls stereoselectivity, Biochemistry, 34, 9661, 10.1021/bi00030a002

Gallagher, 1998, Structure and control of pyridoxal phosphate dependent allosteric threonine deaminase, Structure, 6, 465, 10.1016/S0969-2126(98)00048-3

Isupov, 1998, Crystal structure of tryptophanase, J. Mol. Biol, 276, 603, 10.1006/jmbi.1997.1561

Shen, 1998, Crystal structure of human recombinant ornithine aminotransferase, J. Mol. Biol, 277, 81, 10.1006/jmbi.1997.1583

Hennig, 1997, Crystal structure of glutamate-1-semialdehyde aminomutase: an α2-dimeric vitamin B6-dependent enzyme with asymmetry in structure and active site reactivity, Proc. Natl Acad. Sci. USA, 94, 4866, 10.1073/pnas.94.10.4866

Clausen, 1996, Crystal structure of the pyridoxal-5′-phosphate dependent cystathionine β-lyase from Escherichia coli at 1.83 Å, J. Mol. Biol, 262, 202, 10.1006/jmbi.1996.0508

Toney, 1993, Dialkylglycine decarboxylase structure: Bifunctional active site and alkali metal sites, Science, 261, 756, 10.1126/science.8342040

Antson, 1993, Three-dimensional structure of tyrosine phenollyase, Biochemistry, 32, 4195, 10.1021/bi00067a006

Momany, 1995, Crystallographic structure of a PLP-dependent ornithine decarboxylase from Lactobacillus 30a to 3.0 Å resolution, J. Mol. Biol, 252, 643, 10.1006/jmbi.1995.0526

Dunathan, 1966, Conformation and reaction specificity in pyridoxal phosphate enzymes, Proc. Natl Acad. Sci. USA, 55, 712, 10.1073/pnas.55.4.712

Tabor, 1984, Polyamines, Annu. Rev. Biochem, 53, 749, 10.1146/annurev.bi.53.070184.003533

Luk, 1982, Ornithine decarboxylase: essential in proliferation but not differentiation of human promyelocytic leukemia cells, Science, 216, 75, 10.1126/science.6950518

Cohen, 1970, Estrogenic induction of ornithine decarboxylase in vivo and in vitro, Science, 170, 336, 10.1126/science.170.3955.336

Russel, 1968, Amine synthesis in rapidly growing tissues: ornithine decarboxylase activity in regenerating rat liver, chick embryo, and various tumors, Proc. Natl Acad. Sci. USA, 60, 1420, 10.1073/pnas.60.4.1420

Poulin, 1995, Induction of apoptosis by excessive polyamine accumulation in ornithine decarboxylase-overproducing L1210 cells, Biochem. J, 311, 723, 10.1042/bj3110723

Pegg, 1988, Polyamine metabolism and its importance in neoplastic growth and as a target for chemotherapy, Cancer Res, 48, 759

Auvinen, 1992, Ornithine decarboxylase activity is critical for cell transformation, Nature, 360, 355, 10.1038/360355a0

Pegg, 1995, Ornithine decarboxylase as a target for chemoprevention, J. Cell Biochem. Suppl, 22, 132, 10.1002/jcb.240590817

Bacchi, 1994, Combination chemotherapy of drug-resistant Trypanosoma brucei rhodesiense infections in mice using DL-α-difluoromethylornithine and standard trypanocides, Antimicrob. Agents Chemother, 38, 563, 10.1128/AAC.38.3.563

Meyskens, 1995, Development of difluoromethylorntihine as a chemoprevention agent for the management of colon cancer, J. Cell Biochem. Suppl, 22, 126, 10.1002/jcb.240590816

Mitchell, 1998, Phase I dose deescalation trial of α-difluoromethylornithine in patients with grade 3 cervical intraepithelial neoplasia, Clin. Cancer Res, 4, 303

Sandmeier, 1994, Multiple evolutionary origin of pyridoxal-5′-phosphate-dependent amino acid decarboxylases, Eur. J. Biochem, 221, 997, 10.1111/j.1432-1033.1994.tb18816.x

Momany, 1995, Structural motifs for pyridoxal-5′-phosphate binding in decarboxylases: an analysis based on the crystal structure of the Lactobacillus 30a ornithine decarboxylase, Prot. Sci, 4, 849, 10.1002/pro.5560040504

Grishin, 1995, Modeling of the spatial structure of eukaryotic ornithine decarboxylase, Prot. Sci, 4, 1291, 10.1002/pro.5560040705

Abrahamsen, 1992, Multiple elements responsible for transcriptional regulation of the ornithine decarboxylase gene by protein kinase A, J. Biol. Chem, 267, 18866, 10.1016/S0021-9258(19)37041-3

Reddy, 1996, Multisite phosphorylation of ornithine decarboxylase in transformed macrophages results in increased intracellular enzyme stability and catalytic efficiency, J. Biol. Chem, 271, 24945, 10.1074/jbc.271.40.24945

Rosenberg-Hasson, 1991, Mouse ornithine decarboxylase is phosphorylated by casein kinase-II at a predominant single location (serine 303), Eur. J. Biochem, 197, 419, 10.1111/j.1432-1033.1991.tb15927.x

Hayashi, 1996, Ornithine decarboxylase antizyme: a novel type of regulatory protein, Trends Biochem. Sci, 21, 27, 10.1016/S0968-0004(06)80024-1

Heller, 1976, Induction of a protein inhibitor to ornithine decarboxylase by the end product of its reaction, Proc. Natl Acad. Sci. USA, 73, 1858, 10.1073/pnas.73.6.1858

Mitchell, 1990, Conformational changes in ornithine decarboxylase enable recognition by antizyme, Biochim. Biophys. Acta, 1037, 115, 10.1016/0167-4838(90)90109-S

Murakami, 1992, Ornithine decarboxylase is degraded by the 26S proteasome without ubiquitination, Nature, 360, 597, 10.1038/360597a0

Murakami, 1996, Cloning of antizyme inhibitor, a highly homologous protein to ornithine decarboxylase, J. Biol. Chem, 271, 3340, 10.1074/jbc.271.7.3340

Fujita, 1982, A macromolecular inhibitor of the antizyme to ornithine decarboxylase, Biochem. J, 204, 647, 10.1042/bj2040647

Kern, 1996, Crystallization of a mammalian ornithine decarboxylase, Proteins, 24, 266, 10.1002/(SICI)1097-0134(199602)24:2<266::AID-PROT15>3.0.CO;2-L

Ghoda, 1989, Prevention of rapid intracellular degradation of ODC by a carboxyl-terminal truncation, Science, 243, 1493, 10.1126/science.2928784

Banner, 1975, Structure of chicken muscle triose phosphate isomerase determined crystallographically at 2.5 Å resolution using amino acid sequence data, Nature, 255, 609, 10.1038/255609a0

Osterman, 1995, Domain organization and a protease-sensitive loop in eukaryotic ornithine decarboxylase, Biochemistry, 34, 13431, 10.1021/bi00041a021

Coleman, 1994, Rapid exchange of subunits of mammalian ornithine decarboxylase, J. Biol. Chem, 269, 3155, 10.1016/S0021-9258(17)41842-4

Tobias, 1993, Gly387 of murine ornithine decarboxylase is essential for the formation of stable homodimers, Eur. J. Biochem, 218, 245, 10.1111/j.1432-1033.1993.tb18371.x

Tobias, 1993, Intersubunit location of the active site of mammalian ornithine decarboxylase as determined by hybridization of site-directed mutants, Biochemistry, 32, 5842, 10.1021/bi00073a017

Osterman, 1994, Formation of functional cross-species heterodimers of ornithine decarboxylase, Biochemistry, 33, 13662, 10.1021/bi00250a016

Jones, 1996, Principles of protein–protein interactions, Proc. Natl Acad. Sci. USA, 93, 13, 10.1073/pnas.93.1.13

Li, 1992, Regulated degradation of ornithine decarboxylase requires interaction with the polyamine-inducible protein antizyme, Mol. Cell Biol, 12, 3556, 10.1128/MCB.12.8.3556

Li, 1993, Degradation of ornithine decarboxylase: exposure of the C-terminal target by a polyamine-inducible inhibitory protein, Mol. Cell. Biol, 13, 2377, 10.1128/MCB.13.4.2377

Tsirka, 1992, Dominant negative mutants of ornithine decarboxylase, J. Biol. Chem, 267, 23057, 10.1016/S0021-9258(18)50055-7

Osterman, 1997, Role of Arg-277 in the binding of pyridoxal-5′-phosphate to Trypanosoma brucei ornithine decarboxylase, Biochemistry, 36, 4558, 10.1021/bi962916h

Osterman, 1995, Acidic residues important for substrate binding and cofactor reactivity in eukaryotic ornithine decarboxylase identified by alanine scanning mutagenesis, J. Biol. Chem, 270, 11797, 10.1074/jbc.270.20.11797

Yano, 1993, A hydrogen-bonding network modulating enzyme function: asparagine-194 and tyrosine-225 of Escherichia coli aspartate aminotransferase, Biochemistry, 32, 1810, 10.1021/bi00058a015

Brooks, 1997, Characterization of the reaction mechanism for Trypanosoma brucei ornithine decarboxylase by multiwavelength stopped-flow spectroscopy, Biochemistry, 36, 15147, 10.1021/bi971652b

Stamper, 1998, Reaction of alanine racemase with 1-aminoethylphosphonic acid forms a stable external aldimine, Biochemistry, 37, 10438, 10.1021/bi980692s

Kirsch, 1984, Mechanism of action of aspartate aminotransferase proposed on the basis of its spatial structure, J. Mol. Biol, 174, 497, 10.1016/0022-2836(84)90333-4

Tobler, 1987, Stereospecific labilization of the C-4′ pro-S hydrogen of pyridoxamine 5′-phosphate in aspartate aminotransferase, J. Biol. Chem, 262, 8985, 10.1016/S0021-9258(18)48034-9

Metzler, 1988, Correlation of polarized absorption spectroscopic and X-ray diffraction studies of crystalline cytosolic aspartate aminotransferase of pig hearts, J. Mol. Biol, 203, 197, 10.1016/0022-2836(88)90102-7

Julin, 1989, Kinetic isotope effect studies on aspartate aminotransferase: evidence for a concerted 1,3 prototropic shift mechanism for the cytoplasmic isozyme and L-aspartate and dichotomy in mechanism, Biochemistry, 28, 3825, 10.1021/bi00435a031

Toney, 1993, Lysine 258 in aspartate aminotransferase: enforcer of the Circe effect for amino acid substrates and general-base catalyst for the 1,3-prototropic shift, Biochemistry, 32, 1471, 10.1021/bi00057a010

Malashkevich, 1993, Crystal structures of true enzymatic reaction intermediates: aspartate and glutamate ketimines in aspartate aminotransferase, Biochemistry, 32, 13451, 10.1021/bi00212a010

Hayashi, 1998, The imine-pyridine torsion of the pyridoxal 5′-phosphate Schiff base of aspartate aminotransferase lowers its pKa in the unliganded enzyme and is crucial for the successive increase in the pKa during catalysis, Biochemistry, 37, 15076, 10.1021/bi981517e

Gani, 1991, Structural and mechanistic comparison of pyridoxal-5′-phosphate dependent decarboxylase and transaminase enzymes, Philos. Trans. R. Soc. Lond. B. Biol. Sci, 332, 131, 10.1098/rstb.1991.0041

Coleman, 1993, Effect of mutations at active site residues on the activity of ornithine decarboxylase and its inhibition by active site-directed irreversible inhibitors, J. Biol. Chem, 268, 24572, 10.1016/S0021-9258(19)74505-0

Asada, 1981, Stereochemistry of meso-α,ϵ-diaminopimelate decarboxylase reaction: the first evidence for pyridoxal-5′-phosphate dependent decarboxylation with inversion of configuration, Biochemistry, 20, 6881, 10.1021/bi00527a022

Asada, 1984, Stereochemistry of ornithine decarboxylase reaction, J. Biochem, 95, 277, 10.1093/oxfordjournals.jbchem.a134594

Lim, 1998, Nonstereospecific transamination catalyzed by pyridoxal phosphate-dependent amino acid racemases of broad substrate specificity, J. Biol. Chem, 273, 4001, 10.1074/jbc.273.7.4001

Coffino, 1998, Degradation of Ornithine Decarboxylase, 411

Thiel, 1995, Macromolecular crystallographic results obtained at CHESS using a detector incorporating a charge-coupled device, Rev. Sci. Instrum, 66, 1477, 10.1063/1.1145946

Otwinowski, 1997, Processing of X-ray diffraction data collected in oscillation mode, Methods Enzymol, 276, 307, 10.1016/S0076-6879(97)76066-X

Otwinowski, 1991, Maximum likelihood refinement of heavy atom parameters, 80

Perrakis, 1997, wARP: Improvement and extension of crystallographic phases by weighted averaging of multiple-refined dummy atomic models, Acta Crystallogr. D, 53, 448, 10.1107/S0907444997005696

Jones, 1991, Improved methods for building protein models in electron density maps and the location of errors in these models, Acta Crystallogr. A, 47, 110, 10.1107/S0108767390010224

Brünger, 1992

Murshudov, 1997, Refinement of macromolecular structures by the maximum-likelihood method, Acta Crystallogr.D, 53, 240, 10.1107/S0907444996012255

Laskowski, 1993, PROCHECK: a program to check the stereochemical quality of protein structures, J. Appl. Crystallogr, 26, 283, 10.1107/S0021889892009944

Hooft, 1996, Errors in protein structures, Nature, 381, 272, 10.1038/381272a0

Kleywegt, 1997, Validation of protein models from Cα coordinates alone, J. Mol. Biol, 273, 371, 10.1006/jmbi.1997.1309

1994, The CCP4 suite Programs for Protein Crystallography, Acta Crystallogr.D, 50, 760, 10.1107/S0907444994003112

Kraulis, 1991, MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures, J. Appl. Crystallogr, 24, 946, 10.1107/S0021889891004399

Merrit, 1994, Raster3D Version 2.0. A program for photorealistic molecular graphics, Acta Crystallogr. D, 50, 869, 10.1107/S0907444994006396

Nicholls, 1991, Protein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons, Proteins, 11, 281, 10.1002/prot.340110407

Esnouf, 1997, An extensively modified version of MolScript that includes greatly enhanced coloring capabilities, J. Mol. Graph. Model, 15, 112, 10.1016/S1093-3263(97)00021-1