Bioluminescence assay platform for selective and sensitive detection of Ub/Ubl proteases

Biochimica et Biophysica Acta - Molecular Cell Research

Volumn 1823, Issue 11, 2012, Pages 2079-2086

  Orcutt, Steven J ^a   Wu, Jian ^b   Eddins, Michael J ^b   Leach, Craig A ^b   Strickler, James E ^a  

^a LifeSensors Inc   (United States)

^b Progenra Inc   (United States)

Author keywords

Desumoylation; Deubiquitylation; Luciferin; Protease assay; SUMO; Ubiquitin

Indexed keywords

AMINOLUCIFERIN; DESUMOYLASE; DEUBIQUITYLASE; LUCIFERIN; PEPTIDASE; UBIQUITIN; UNCLASSIFIED DRUG;

ARTICLE; BIOLUMINESCENCE; CARBOXY TERMINAL SEQUENCE; CONCENTRATION (PARAMETERS); CONJUGATION; HIGH THROUGHPUT SCREENING; IN VITRO STUDY; LIMIT OF DETECTION; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN EXPRESSION; UBIQUITINATION;

EID: 84867017916     PISSN: 01674889     EISSN: 18792596     Source Type: Journal    
DOI: 10.1016/j.bbamcr.2012.06.004     Document Type: Article

References (32)

1. Hershko A., Ciechanover A. The ubiquitin-proteasome pathway. Annu. Rev. Biochem. 1998, 67:425-479.
2. Messick T.E., Greenberg R.A. The ubiquitin landscape at DNA double-strand breaks. J. Cell Biol. 2009, 187:319-326.
3. Piper R.C., Lehner P.J. Endosomal transportation via ubiquitination. Trends Cell Biol. 2011, 21:647-655.
4. Xu P., Duong D.M., Seyfried N.T., Cheng D., Xie Y., Robert J., Rush J., Hochstrasser M., Finely D., Peng J. Quantitative proteomics reveals the function of unconventional chains in proteasomal degradation. Cell 2009, 137:133-145.
5. Iwai K., Tokunaga F. Linear polyubiquitination: a new regulator of NF-kappaB activation. EMBO Rep. 2009, 10:706-713.
6. Nijman S.M.B., Luna-Vargas M.P.A., Velds A., Brummelkamp T.R., Dirac A.M.G., Sixma T.K., Bernards R. A genomic and functional inventory of deubiquitinating enzymes. Cell 2005, 123:773-786.
7. Reyes Turcu F.E., Ventii K.H., Wilkinson K.D. Regulation and cellular roles of ubiquitin-specific deubiquitinating enzymes. Annu. Rev. Biochem. 2009, 78:363-397.
8. Komander D., Clague M.J., Urbe S. Breaking the chains: structure and function of the deubiquitinases. Nat. Rev. Mol. Cell Biol. 2009, 10:550-563.
9. Singhal S., Taylor M.C., Baker R.T. Deubiquitylating enzymes and disease. BMC Biochem. 2008, 9:S3.
10. Shanmugham A., Ovaa H. DUBs and disease: activity assays for inhibitor development. Curr. Opin. Drug Discov. Devel. 2008, 11:688-696.
11. Nicholson B., Marblestone J., Butt T.R., Mattern M.R. Deubiquitinating enzymes as novel anticancer targets. Future Oncol. 2007, 3:191-199.
12. Nicholson B., Leach C.A., Goldenberg S.J., Francis D.M., Kodrasov M.P., Tian X., Shanks J., Sterner D.E., Bernal A., Mattern M.R., Wilkinson K.D., Butt T.R. Characterization of ubiquitin and ubiquitin-like protein isopeptidase activities. J. Protein Sci. 2008, 17:1035-1043.
13. Tian X., Isamiddinova N.S., Peroutka R.J., Goldenberg S.J., Mattern M.R., Nicholson B., Leach C.A. Characterization of selective ubiquitin and ubiquitin-like protease inhibitors using a fluorescence-based multiplex assay format. Assay Drug Dev. Technol. 2011, 9:165-173.
14. Dang L.C., Melandri F.M., Stein R.L. Kinetic and mechanistic studies on the hydrolysis of ubiquitin C-terminal 7-amido-4-methylcoumarin by deubiquitinating enzymes. Biochemistry 1998, 37:1868-1879.
15. Hassiepen U., Eidhoff U., Meder G., Jean-Francois B., Hein A., Bodendorf U., Lorthiois E., Martoglio B. A sensitive fluorescence intensity assay for deubiquitinating proteases using ubiquitin-rhodamine110-glycine as substrate. Anal. Biochem. 2007, 371:201-207.
16. O'Brien M.A., Moravec R.A., Daily W.J., Scurria M.A., Riss T.L., Klaubert D.H., Cosby N., Bulleit R.F. Sensitive, homogeneous, bioluminescent assays for monitoring proteases of the ubiquitin-proteasome pathway. Poster 1st Annual Ubiquitin Drug Discovery & Diagnostics 2009.
17. Baez-Santos Y.M., Mesecar A.D., O'Brien M.A. Detecting the deubiquitin activity of SARS-CoV PLpro: turning on the light with the DUB-Glo™ protease assay 2009, Promega Corporation Web Site.
18. O'Brien M.A., Daily W.J., Hesselberth P.E., Moravec R.A., Scurria M.A., Klaubert D.H., Bulleit R.F., Wood K.V. Homogenous, bioluminescent protease assays: caspase-3 as a model. J. Biomol. Screen. 2005, 10:137-148.
19. Monsees T., Geiger R., Miska W. A novel bioluminogenic assay for alpha-chymotrypsin. J. Biolumin. Chemilumin. 1994, 10:213-218.
20. Renatus M., Parrado S.G., D'Arcy A., Eidhoff U., Gerhartz B., Hassiepen U., Pierrat B., Riedl R., Vinzenz D., Worpenberg S., Kroemer M. Structural basis of ubiquitin recognition by the deubiquitinating protease USP2. Structure 2006, 14:1293-1302.
21. Reverter D., Lima C.D. A basis for SUMO protease specificity provided by analysis of human Senp2 and a Senp2-SUMO complex. Structure 2004, 12:1519-1531.
22. Reverter D., Wu K., Erdene T.G., Pan Z.Q., Wikinson K.D., Lima C.D. Structure of a complex between Nedd8 and the Ulp/Senp protease family member Den1. J. Mol. Biol. 2005, 345:141-151.
23. Wilkinson K.D., Gan-Erdene T., Kolli N. Derivitization of the C-terminus of ubiquitin and ubiquitin-like proteins using intein chemistry: methods and uses. Methods Enzymol. 2005, 399:37-51.
24. Shinde R., Perkins J., Contag C.H. Luciferin derivatives for enhanced in vitro and in vivo bioluminescence assays. Biochemistry 2006, 45:11103-11112.
25. Fan F., Wood K.V. Bioluminescent assays for high-throughput screening. Assay Drug Dev. Technol. 2007, 5:127-136.
26. Hu M., Li P., Li M., Li W., Yao T., Wu J.-W., Gu W., Cohen R.E., Shi Y. Crystal structure of a UBP-family deubiquitinating enzyme in isolation and in complex with ubiquitin aldehyde. Cell 2002, 111:1041-1054.
27. Reyes Turcu F.E., Shanks J., Komander D., Wikinson K.D. Recognition of polyubiquitin isoforms by the multiple binding modules of isopeptidase T. J. Biol. Chem. 2008, 283:19581-19592.
28. Lee B.-H., Lee M.J., Park S., Oh D.-C., Elsasser S., Ping-Chung C., Gartner C., Dimova N., Hanna J., Gygi S.P., Wilson S.M., King R.W., Finley D. Enhancement of proteasome activity by a small-molecule inhibitor of USP14. Nature 2010, 467:179-184.
29. Ratia K., Pegan S., Takayama J., Sleeman K., Coughlin M., Baliji S., Chaudhuri R., Fu W., Prabhakar B.S., Johnson M.E., Baker S.C., Ghosh A.K., Mesecar A.D. A noncovalent class of papain-like protease/deubiquinase inhibitors blocks SARS virus replication. Proc. Natl. Acad. Sci. U. S. A. 2008, 105:16119-16124.
30. Mossessova E., Lima C.D. Ulp1-SUMO crystal structure and genetic analysis reveal conserved interactions and a regulatory element essential for cell growth in yeast. Mol. Cell 2000, 5:865-876.
31. Zhang J.H., Chung T.D.Y., Oldenburg K.R. A simple statistical parameter for use in evalution and validation of high throughput screening assays. J. Biomol. Screen. 1999, 4:67-73.
32. S.J. Orcutt, Y. Yan, J. Wu, J.E. Strickler, T.R. Butt, Bioluminescent detection of protease activity using ubiquitin-luciferase substrate, and screening and diagnostic uses, US Patent Application Pub. No. US 2012/0107857.