Bioinformatic analysis of 302 reactive metabolite target proteins. Which ones are important for cell death?

Toxicological Sciences

Volumn 135, Issue 2, 2013, Pages 390-401

  Hanzlik, Robert P ^a   Koen, Yakov M ^a   Fang, Jianwen ^a  

^a UNIVERSITY OF KANSAS   (United States)

Author keywords

Cytotoxicity; Protein covalent binding; Protein protein interaction; Reactive metabolites

Indexed keywords

CELL PROTEIN; THIOBENZAMIDE; XENOBIOTIC AGENT;

APOPTOSIS; ARTICLE; BIOINFORMATICS; CELL DEATH; CHEMICALLY REACTIVE METABOLITE; CYTOTOXICITY; METABOLITE; NUCLEOTIDE SEQUENCE; PROTEIN FOLDING; SEQUENCE ALIGNMENT; UNFOLDED PROTEIN RESPONSE;

CYTOTOXICITY.; PROTEIN COVALENT BINDING; PROTEIN-PROTEIN INTERACTION; REACTIVE METABOLITES;

ANIMALS; CELL DEATH; COMPUTATIONAL BIOLOGY; HUMANS; MICE; PROTEINS; RATS;

EID: 84886480693     PISSN: 10966080     EISSN: 10960929     Source Type: Journal    
DOI: 10.1093/toxsci/kft166     Document Type: Article

References (24)

1. Busenlehner, L. S., Codreanu, S. G., Holm, P. J., Bhakat, P., Hebert, H., Morgenstern, R., and Armstrong, R. N. (2004). Stress sensor triggers conformational response of the integral membrane protein microsomal glutathione transferase 1. Biochemistry 43, 11145-11152.
2. Diaz-Latoud, C., Buache, E., Javouhey, E., and Arrigo, A. P. (2005). Substitution of the unique cysteine residue of murine Hsp25 interferes with the protective activity of this stress protein through inhibition of dimer formation. Antioxid. Redox Signal. 7, 436-445.
3. Dinkova-Kostova, A. T., Holtzclaw, W. D., and Kensler, T. W. (2005). The role of Keap1 in cellular protective responses. Chem. Res. Toxicol. 18, 1779-1791.
4. Druckova, A., Mernaugh, R. L., Ham, A. J., and Marnett, L. J. (2007). Identification of the protein targets of the reactive metabolite of teucrin A in vivo in the rat. Chem. Res. Toxicol. 20, 1393-1408.
5. Evans, D. C., Watt, A. P., Nicoll-Griffith, D. A., and Baillie, T. A. (2004). Drugprotein adducts: An industry perspective on minimizing the potential for drug bioactivation in drug discovery and development. Chem. Res. Toxicol. 17, 3-16.
6. Fang, J., Koen, Y. M., and Hanzlik, R. P. (2009). Bioinformatic analysis of xenobiotic reactive metabolite target proteins and their interacting partners. BMC Chem. Biol. 9, 5.
7. Goldring, C. E., Kitteringham, N. R., Elsby, R., Randle, L. E., Clement, Y. N., Williams, D. P., McMahon, M., Hayes, J. D., Itoh, K., Yamamoto, M., et al. (2004). Activation of hepatic Nrf2 in vivo by acetaminophen in CD-1 mice. Hepatology 39, 1267-1276.
8. Hanzlik, R. P., Fang, J., and Koen, Y. M. (2009). Filling and mining the reactive metabolite target protein database. Chem. Biol. Interact. 179, 38-44.
9. Hong, F., Freeman, M. L., and Liebler, D. C. (2005). Identification of sensor cysteines in human Keap1 modified by the cancer chemopreventive agent sulforaphane. Chem. Res. Toxicol. 18, 1917-1926.
10. Huang, D. W., Sherman, B. T., and Lempicki, R. A. (2009). Bioinformatics Enrichment Tools: Paths toward the Comprehensive Functional Analysis of Large Gene Lists. Nucleic Acids Res. 37, 1-13.
11. Ikehata, K., Duzhak, T. G., Galeva, N. A., Ji, T., Koen, Y. M., and Hanzlik, R. P. (2008). Protein targets of reactive metabolites of thiobenzamide in rat liver in vivo. Chem. Res. Toxicol. 21, 1432-1442.
12. Koen, Y. M., Gogichaeva, N. V., Alterman, M. A., and Hanzlik, R. P. (2007). A proteomic analysis of bromobenzene reactive metabolite targets in rat liver cytosol in vivo. Chem. Res. Toxicol. 20, 511-519.
13. Koen, Y. M., Williams, T. D., and Hanzlik, R. P. (2000). Identification of three protein targets for reactive metabolites of bromobenzene in rat liver cytosol. Chem. Res. Toxicol. 13, 1326-1335.
14. Krishna, R. G. and Wold, F. (1998) Possttranslational modifications. In Proteins: Analysis and design (Angeletti, R. H., Eds.) pp 121-207.
15. Kwak, M. K., Wakabayashi, N., and Kensler, T. W. (2004). Chemoprevention through the Keap1-Nrf2 signaling pathway by phase 2 enzyme inducers. Mutat. Res. 555, 133-148.
16. Liebler, D. C. (2006). The poisons within: Application of toxicity mechanisms to fundamental disease processes. Chem. Res. Toxicol. 19, 610-613.
17. Liebler, D. C., and Guengerich, F. P. (2005). Elucidating mechanisms of druginduced toxicity. Nat. Rev. Drug Discov. 4, 410-420.
18. Nguyen, T., Sherratt, P. J., and Pickett, C. B. (2003). Regulatory mechanisms controlling gene expression mediated by the antioxidant response element. Annu. Rev. Pharmacol. Toxicol. 43, 233-260.
19. Park, B. K., Kitteringham, N. R., Maggs, J. L., Pirmohamed, M., and Williams, D. P. (2005). The role of metabolic activation in drug-induced hepatotoxicity. Annu. Rev. Pharmacol. Toxicol. 45, 177-202.
20. Park, B. K., Laverty, H., Srivastava, A., Antoine, D. J., Naisbitt, D., and Williams, D. P. (2011). Drug bioactivation and protein adduct formation in the pathogenesis of drug-induced toxicity. Chem. Biol. Interact. 192, 30-36.
21. Reinders, J., and Sickmann, A. (2007). Modificomics: Posttranslational modifications beyond protein phosphorylation and glycosylation. Biomol. Eng. 24, 169-177.
22. Snyder, R. (2011). Origins of the International Symposium on Biological Reactive Intermediates and some thoughts on homeostasis and the biological significance of widespread covalent binding of biological reactive metabolites. Chem. Biol. Interact. 192, 3-7.
23. Townsend, D. M., and Tew, K. D. (2003). The role of glutathione-S-transferase in anti-cancer drug resistance. Oncogene 22, 7369-7375.
24. TPDB (2013). Reactive Metabolite Target Protein Database. Available at: http://tpdb.medchem.ku.edu:8080/protein_database/. Accessed February 2, 2013.