Modeling the inhibitor activity and relative binding affinities in enzyme-inhibitor-protein systems: Application to developmental regulation in a PG-PGIP system

Biotechnology Progress

Volumn 20, Issue 3, 2004, Pages 721-727

  Fish, Wayne W ^a   Madihally, Sundararajan V ^b  

^a AGRICULTURAL RESEARCH SERVICE   (United States)

^b Oklahoma State University   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

FRUITS; PROTEINS; PURIFICATION;

INHIBITOR-PROTEIN ACTIVITY; REVERSIBLE BINDING;

ENZYMES;

ENZYME INHIBITOR; MULTIPROTEIN COMPLEX; PGIP PROTEIN, PLANT; POLYGALACTURONASE; VEGETABLE PROTEIN;

ARTICLE; CHEMICAL MODEL; CHEMISTRY; COMPARATIVE STUDY; COMPUTER SIMULATION; DRUG ANTAGONISM; ENZYME ACTIVATION; ENZYME STABILITY; EVALUATION; KINETICS; PROTEIN BINDING; VALIDATION STUDY;

COMPUTER SIMULATION; ENZYME ACTIVATION; ENZYME INHIBITORS; ENZYME STABILITY; KINETICS; MODELS, CHEMICAL; MULTIPROTEIN COMPLEXES; PLANT PROTEINS; POLYGALACTURONASE; PROTEIN BINDING;

CUCUMIS MELO;

EID: 2942715256     PISSN: 87567938     EISSN: None     Source Type: Journal    
DOI: 10.1021/bp034307o     Document Type: Article

References (32)

1. De Lorenzo, G.; D'Ovidio, R.; Cervone, F. The role of polygalacturonase-inhibiting proteins (PGIPs) in defense against pathogenic fungi. Annu. Rev. Phytopathol. 2001, 39, 313-335.
2. McMillan, G. P.; P'erombelon, M. C. M. Purification and characterization of a high pI pectin methyl esterase isoenzyme and its inhibitor from tubers of Solanum tuberosum subsp. Tuberosum cv. Katahdin. Physiol. Mol. Plant Pathol. 1995, 46, 413-427.
3. Kobe, B.; Deisenhofer, J. A structural basis of the interactions between leucine-rich repeats and protein ligands. Nature 1995, 374 (6518), 183-186.
4. Ryan, C. A. Proteinase inhibitors. In The Biochemistry of Plants, Proteins and Nucleic Acids; Stumpf, P. K., Conn, E. E., Marcus, A., Eds.; Academic Press: New York, 1981; pp 351-370.
5. Sweet, R. M.; Wright, H. T.; Janin, J.; Chothia, C. H.; Blow, D. M. Crystal structure of the complex of porcine trypsin with soybean trypsin inhibitor (Kunitz) at 2.6-Å resolution. Biochemistry 1974, 13 (20), 4212-4228.
6. Federici, L.; Caprari, C.; Mattei, B.; Savino, C.; Di Matteo, A.; De Lorenzo, G.; Cervone, F.; Tsernoglou, D. Structural requirements of endopolygalacturonase for the interaction with PGIP (polygalacturonase- inhibiting protein). Proc. Natl. Acad. Sci. U.S.A. 2001, 98 (23), 13425-13430.
7. King, D.; Bergmann, C.; Orlando, R.; Benen, J. A.; Kester, H. C.; Visser, J. Use of amide exchange mass spectrometry to study conformational changes within the endopolygalacturonase II-homogalacturonan-polygalacturonase inhibiting protein system. Biochemistry 2002, 41 (32), 10225-10233.
8. Cervone, F.; De Lorenzo, G.; Degrà, L.; Salvi, G.; Bergami, M. Purification and characterization of a polygalacturonase-inhibiting protein from Phaseolus vulgaris L. Plant Physiol. 1987, 85, 631-637.
9. Torki, M.; Mandaron, P.; Thomas, F.; Quigley, F.; Mache, R.; Falconet, D. Differential expression of a polygalacturonase gene family in Arabidopsis thaliana. Mol. Gen. Genet. 1999, 261 (6), 948-952.
10. Bergey, D. R.; Orozco-Cardenas, M.; de Moura, D. S.; Ryan, C. A. A wound- and systemin-inducible polygalacturonase in tomato leaves. Proc. Natl. Acad. Sci. U.S.A. 1999, 96 (4), 1756-1760.
11. Di Matteo, A.; Federici, L.; Mattei, B.; Salvi, G.; Johnson, K. A.; Savino, C.; De Lorenzo, G.; Tsernoglou, D.; Cervone, F. The crystal structure of polygalacturonase-inhibiting protein (PGIP), a leucine-rich repeat protein involved in plant defense. Proc. Natl. Acad. Sci. U.S.A. 2003, 100 (17), 10124-10128.
12. De Lorenzo, G.; Ferrari, S. Polygalacturonase-inhibiting proteins in defense against phytopathogenic fungi. Curr. Opin. Plant Biol. 2002, 5 (4), 295-299.
13. Albersheim, P.; Anderson, A. J. Proteins from plant cell walls inhibit polygalacturonases secreted by plant pathogens. Proc. Natl. Acad. Sci. U.S.A. 1971, 68 (8), 1815-1819.
14. Collmer, A.; Keen, N. T. The role of pectic enzymes in plant pathogenesis. Ann. Rev. Phytopathol. 1986, 24 (1), 383-409.
15. Ferrari, S.; Vairo, D.; Ausubel, F. M.; Cervone, F.; De Lorenzo, G. Tandemly duplicated Arabidopsis genes that encode polygalacturonase-inhibiting proteins are regulated coordinately by different signal transduction pathways in response to fungal infection. Plant Cell 2003, 15 (1), 93-106.
16. Powell, A. L.; van Kan, J.; ten Have, A.; Visser, J.; Greve, L. C.; Bennett, A. B.; Labavitch, J. M. Transgenic expression of pear PGIP in tomato limits fungal colonization. Mol. Plant-Microbe Interact. 2000, 13 (9), 942-950.
17. Gross, K. C. A rapid and sensitive spectrophotometric method for assaying polygalacturonase using 2-cyanoacetamide. HortScience 1982, 17, 933-934.
18. Zhang, J. X.; Bruton, B. D.; Biles, C. L. Polygalacturonase isozymes produced by Phomopsis cucurbitae in relation to postharvest decay of cantaloupe fruit. Phytopathology 1997, 87, 1020-1024.
19. Zhang, J. X.; Burton, B. D.; Biles, C. L. Fusarium solani endo-polygalacturonase from decayed muskmelon fruit: purification and characterization. Physiol. Mol. Plant Pathol. 1999, 54, 171-186.
20. Hoffman, R. M.; Turner, J. G. Partial purification of proteins from pea leaflets that inhibit Ascochyta pisi endopolygalacturonase. Physiol. Plant Pathol. 1982, 20, 173-187.
21. Sturtevant, J. M. Calorimetry. Methods Enzymol. 1972, 26 (C), 227-253.
22. Day, Y. S. N.; Baird, C. L.; Rich, R. L.; Myszka, D. G. Direct comparison of binding equilibrium, thermodynamic, and rate constants determined by surface- and solution-based biophysical methods. Protein Sci. 2002, 11 (5), 1017-1025.
23. Hadfield, K. A.; Rose, J. K.; Yaver, D. S.; Berka, R. M.; Bennett, A. B. Polygalacturonase gene expression in ripe melon fruit supports a role for polygalacturonase in ripening-associated pectin disassembly. Plant Physiol. 1998, 117 (2), 363-373.
24. Wu, Q.; Szakacs-Dobozi, M.; Hemmat, M.; Hrazdina, G. Endopolygalacturonase in apples (Malus domestica) and its expression during fruit ripening. Plant Physiol. 1993, 102 (1), 219-225.
25. Stotz, H. U.; Contos, J. J.; Powell, A. L.; Bennett, A. B.; Labavitch, J. M. Structure and expression of an inhibitor of fungal polygalacturonases from tomato. Plant Mol. Biol. 1994, 25 (4), 607-617.
26. Favaron, F.; D'Ovidio, R.; Porceddu, E.; Alghisi, P. Purification and molecular characterization of a soybean polygalacturonase-inhibiting protein. Planta 1994, 195 (1), 80-87.
27. Allen, R. L.; Lonsdale, D. M. Molecular characterization of one of the maize polygalacturonase gene family members which are expressed during late pollen development. Plant J. 1993, 3 (2), 261-271.
28. Abu-Goukh, A. A.; Greve, L. C.; Labavitch, J. M. Purification and partial characterization of "Bartlett" pear fruit polygalacturonase inhibitors. Physiol. Plant Pathol. 1983, 23, 111-122.
29. Yao, C.; Conway, W. S.; Sams, C. E. Purification and characterization of a polygalacturonase-inhibiting protein from apple fruit. Phytopathology 1995, 85, 1373-1377.
30. Caprari, C.; Mattei, B.; Basile, M. L.; Salvi, G.; Crescenzi, V.; De Lorenzo, G.; Cervone, F. Mutagenesis of endopolygalacturonase from Fusarium moniliforme: histidine residue 234 is critical for enzymatic and macerating activities and not for binding to polygalacturonase-inhibiting protein (PGIP). Mol. Plant-Microbe Interact. 1996, 9 (7), 617-624.
31. Leckie, F.; Mattei, B.; Capodicasa, C.; Hemmings, A.; Nuss, L.; Aracri, B.; De Lorenzo, G.; Cervone, F. The specificity of polygalacturonase-inhibiting protein (PGIP): a single amino acid substitution in the solvent-exposed beta-strand/beta-turn region of the leucine-rich repeats (LRRs) confers a new recognition capability. Embo J. 1999, 18 (9), 2352-2363.
32. Desiderio, A.; Aracri, B.; Leckie, F.; Mattei, B.; Salvi, G.; Tigelaar, H.; Van Roekel, J. S.; Baulcombe, D. C.; Melchers, L. S.; De Lorenzo, G.; Cervone, F. Polygalacturonase-inhibiting proteins (PGIPs) with different specificities are expressed in Phaseolus vulgaris. Mol. Plant-Microbe Interact. 1997, 10 (7), 852-860.