Identification of fungal oxaloacetate hydrolyase within the isocitrate lyase/PEP mutase enzyme superfamily using a sequence marker-based method

Proteins: Structure, Function and Genetics

Volumn 70, Issue 1, 2008, Pages 157-166

  Joosten, Henk Jan ^a   Han, Ying ^b   Niu, Weiling ^b   Vervoort, Jacques ^a   Dunaway Mariano, Debra ^b   Schaap, Peter J ^a  

^a WAGENINGEN UNIVERSITY   (Netherlands)

^b UNIVERSITY OF NEW MEXICO   (United States)

Author keywords

Aspergillus niger; Botrytis cinerea; Family based approach; Gem diol; Lyase; Multiple protein structural alignment; Plant petal death protein

Indexed keywords

HYBRID PROTEIN; ISOCITRATE LYASE; LYASE; OXALIC ACID; OXALOACETATE HYDROLYASE; OXALOACETIC ACID; PHOSPHOENOLPYRUVATE MUTASE; PLANT PETAL DEATH PROTEIN; SERINE; UNCLASSIFIED DRUG; VEGETABLE PROTEIN;

AMINO ACID SEQUENCE; ARTICLE; ASPERGILLUS NIGER; BOTRYTIS CINEREA; CORRELATION ANALYSIS; ENZYME ACTIVE SITE; ENZYME ACTIVITY; ENZYME ANALYSIS; GENOME; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PRIORITY JOURNAL; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; SITE DIRECTED MUTAGENESIS;

BIOLOGICAL MARKERS; FUNGI; HYDROLASES; ISOCITRATE LYASE; KINETICS; SUBSTRATE SPECIFICITY;

ASPERGILLUS NIGER; BOTRYOTINIA FUCKELIANA; FUNGI;

EID: 37348999191     PISSN: 08873585     EISSN: 10970134     Source Type: Journal    
DOI: 10.1002/prot.21622     Document Type: Article

References (32)

1. Dutton, Evans CS. Oxalate production by fungi: its role in pathogenicity and ecology in the soil enviroment. Can J Microbiol 1996;42:881-895.
2. Kirkland BH, Eisa A, Keyhani NO. Oxalic acid as a fungal acaracidal virulence factor. J Med Entomol 2005;42:346-351.
3. Maxwell DP, Bateman DF. Oxalic acid biosynthesis by Sclerotium rolfsii. Phytopathology 1968;58:1635-1642.
4. Godoy G, Steadman JR, Dickman B, Dam R. Use of mutants to demonstrate the role of oxalic acid in pathogenicity of Sclerotinia sclerotiorum on Phaseolus vulgaris. Physiol Mol Plant Pathol 1990;37:179-191.
5. Nakagawa Y, Shimazu K, Ebihara M, Nakagawa K. Aspergillus niger pneumonia with fatal pulmonary oxalosis. J Infect Chemother 1999;5:97-100.
6. Kubicek CP, Schreferl-Kunar G, Wohrer W, Rohr M. Evidence for a cytoplasmic pathway of oxalate biosynthesis in Aspergillus niger. Appl Environ Microbiol 1988;54:633-637.
7. Balmforth AJ, Thomson A. Isolation and characterization of glyoxylate dehydrogenase from the fungus Sclerotium rolfsii. Biochem J 1984;218:113-118.
8. 2 recycling during oxidation of the arylglycerol beta-aryl ether lignin structure by lignin peroxidase and glyoxal oxidase. Biochemistry 1994;33:13349-13354.
9. Yaver D, Cherry B, Murrell J. Polypeptides having oxaloacetate hydrolase activity and nucleic acids encoding same. US Patent 6,939,701, 2004.
10. Munir E, Yoon Gem JJ, Tokimatsu T, Hattori T, Shimada M. A physiological role for oxalic acid biosynthesis in the wood-rotting basidiomycete Fomitopsis palustris. Proc Natl Acad Sci USA 2001;98:11126-11130.
11. Akamatsu Y, Takahashi M, Shimada M. Influences of various factors on oxaloactase activity of the brown-rot fungus Tyromyces palustris. Mokuzia Gakkaishi 1993;39:352-356.
12. Ruijter GJ, van de Vondervoort PJ, Visser J. Oxalic acid production by Aspergillus niger: an oxalate-non-producing mutant produces citric acid at pH 5 and in the presence of manganese. J Microbiol 1999;145:2569-2576.
13. Pedersen H, Gem C, Nielsen J. Cloning and characterization of oah, the gene encoding oxaloacetate hydrolase in Aspergillus niger. J Mol Gen Genet 2000;263:281-286.
14. Pedersen H, Christensen B, Hjort C, Nielsen J. Construction and characterization of an oxalic acid nonproducing strain of Aspergillus niger. Metab Eng 2000;2:34-41.
15. Folkertsma S, van Noort P, Van Durme J, Joosten HJ, Bettler E, Fleuren W, Oliveira L, Horn F, de Vlieg J, Vriend G. A family-based approach reveals the function of residues in the nuclear receptor ligand-binding domain. J Mol Biol 2004;341:321-335.
16. Verhoeff K, Leeman M, Peer R, Posthuma L, Schot N, van Eijk GW. Changes in pH and the production of organic acids during colonisation of tomato petioles by Botrytis cinerea. J Phytopathol 1988;122:327-336.
17. Khabir A, Makni S, Ayadi L, Boudawara T, Frikha I, Sahnoun Y, Jlidi R. Pulmonary oxalosis with necrotizing pulmonary aspergillosis. Ann Pathol 2002;22:121-123.
18. Guimaraes RL, Stotz HU. Oxalate production by Sclerotinia sclerotiorum deregulates guard cells during infection. Plant Physiol 2004;136:3703-3711.
19. Kenealy WR, Dietrich DM. Growth and fermentation responses of Phanerochaete chrysosporium to O2 limitation. Enzyme Microb Technol 2004;34:490-498.
20. Lu Z, Feng X, Song L, Han Y, Kim A, Herzberg O, Woodson WR, Martin BM, Mariano PS, Dunaway-Mariano D. Diversity of function in the isocitrate lyase enzyme superfamily: the Dianthus caryophyllus petal death protein cleaves alpha-keto and alpha-hydroxycarboxylic acids. Biochemistry 2005;44:16365-16376.
21. Han Y, Joosten HJ, Niu W, Zhao Z, Mariano PS, McCalman MT, van Kan JAL, Schaap PJ, Dunaway-Mariano D. Oxaloacetate hydrolase: the C-C bond lyase of oxalate secreting fungi. Submitted.
22. Andreeva A, Howorth D, Brenner SE, Hubbard TJ, Chothia C, Murzin AG. SCOP database in 2004: refinements integrate structure and sequence family data. Nucleic Acids Res 2004:32;226-229.
23. Vriend G. WHAT IF: a molecular modeling and drug design program. J Mol Graph 1990;8:52-56
24. Shulman AI, Larson C, Mangelsdorf DJ, Ranganathan R. Structural determinants of allosteric ligand activation in RXR heterodimers. Cell 2004;116:417-429.
25. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994;22:4673-4680.
26. Schmidt HA, Strimmer K, Vingron M, von Haeseler A. TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics 2002;18:502-504.
27. Muller T, Vingron M. Modeling amino acid replacement. J Comput Biol 2000;7:761-776.
28. Howe K, Bateman A, Durbin R. QuickTree: building huge neighbour-joining trees of protein sequences. Bioinformatics 2002;18:1546-1547.
29. Page RD. TreeView: an application to display phylogenetic trees on personal computers. Comput Appl Biosci 1996;12:357-358.
30. Van Durme J, Horn F, Costagliola S, Vriend G, Vassart G. GRIS: Glycoprotein-hormone Receptor Information System. Mol Endocrinol 2006;20:2247-2255.
31. Teplyakov A, Liu S, Lu Z, Howard A, Dunaway-Mariano D, Herzberg O. Crystal structure of the petal death protein from carnation flower. Biochemistry 2005;44:16377-16384.
32. Oliveira L, Paiva CM, Vriend G. Correlated mutation analyses on very large sequence families. Chembiochem 2002;3:1010-1017.