Identification, functional characterization, and chromosomal localization of USP15, a novel human ubiquitin-specific protease related to the UNP oncoprotein, and a systematic nomenclature for human ubiquitin- specific proteases

Genomics

Volumn 59, Issue 3, 1999, Pages 264-274

  Baker, Rohan T ^a   Wang, Xiao Wen ^a   Woollatt, Erica ^b   White, Julia A ^c   Sutherland, Grant R ^b  

^a AUSTRALIAN NATIONAL UNIVERSITY   (Australia)

^b WOMEN S AND CHILDREN S HOSPITAL   (Australia)

^c UNIVERSITY COLLEGE LONDON   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

BETA GALACTOSIDASE; CYSTEINE; GLUTATHIONE TRANSFERASE; HISTIDINE; ONCOPROTEIN; PROTEINASE; RECOMBINANT PROTEIN; UBIQUITIN;

ARTICLE; CHROMOSOMAL LOCALIZATION; CHROMOSOME MAP; ENZYME ACTIVITY; EXPRESSED SEQUENCE TAG; GENE EXPRESSION; GENE ISOLATION; GENE LOCATION; GENE STRUCTURE; HUMAN; HUMAN CELL; IN SITU HYBRIDIZATION; MOLECULAR WEIGHT; NOMENCLATURE; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYADENYLATION; PRIORITY JOURNAL; SEQUENCE HOMOLOGY;

EID: 0033180148     PISSN: 08887543     EISSN: None     Source Type: Journal    
DOI: 10.1006/geno.1999.5879     Document Type: Article

References (51)

1. Altschul S. F., Madden T. L., Schäffer A. A., Zhang J., Zhang Z., Miller W., Lipman D. J. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res. 25:1997;3389-3402.
2. Amerik A. Yu., Swaminathan S., Krantz B. A., Wilkinson K. D., Hochstrasser M. In vivo disassembly of free polyubiquitin chains by yeast Ubp14 modulates rates of protein degradation by the proteasome. EMBO J. 16:1997;4826-4838.
3. Ansari-Lari M. A., Muzny D. M., Lu J., Lu F., Lilley C. E., Spanos S., Malley T., Gibbs R. A. A gene-rich cluster between the CD4 and triosephosphate isomerase genes at human chromosome 12p13. Genome Res. 6:1996;314-326.
4. Bachmair A., Finley D., Varshavsky A. In vivo half-life of a protein is a function of its amino-terminal residue. Science. 234:1986;179-185.
5. Baek S. H., Choi K. S., Yoo Y. J., Cho J. M., Baker R. T., Tanaka K., Chung C. H. Molecular cloning of a novel ubiquitin-specific protease, UBP41, with isopeptidase activity in chick skeletal muscle. J. Biol. Chem. 272:1997;25560-25565.
6. Baek S. H., Park K. C., Lee J. I., Kim K. I., Yoo Y. J., Tanaka K., Baker R. T., Chung C. H. A novel family of ubiquitin-specific proteases in chick skeletal muscle with distinct amino- or carboxyl-terminal extensions. Biochem. J. 334:1998;677-684.
7. Baker R. T., Smith S. A., Marano R., McKee J., Board P. G. Protein expression using co-translational fusion and cleavage of ubiquitin. J. Biol. Chem. 269:1994;25381-25386.
8. Baker R. T., Tobias J. T., Varshavsky A. Ubiquitin-specific proteases of Saccharomyces cerevisiae. J. Biol. Chem. 267:1992;23364-23375.
9. b interval of the mouse Y chromosome of the Dffry gene. Hum. Mol. Genet. 7:1998;97-107.
10. Cai S.-Y., Babbitt R., Marchesi V. T. A mutant deubiquitinating enzyme (Ubp-M) associates with mitotic chromosomes and blocks cell division. Proc. Natl. Acad. Sci. USA. 96:1999;2828-2833.
11. Callen D. F., Baker E., Eyre H. J., Chernos J. E., Bell J. A., Sutherland G. R. Reassessment of two apparent deletions of chromosome 16p to an ins(11;16) and a t(1:16) by chromosome painting. Ann. Genet. 33:1990;219-221.
12. Defeo-Jones D., Huang P. S., Jones R., Haskell K. M., Vuocolo G. A., Hanobik M. G., Huber H. E., Oliff A. Cloning of cDNAs for cellular proteins that bind to the retinoblastoma gene product. Nature. 352:1991;251-254.
13. Di Fruscio M., Gilchrist C., Baker R. T., Gray D. A. Genomic structure of Unp, a murine gene encoding a ubiquitin-specific protease. Biochem. Biophys. Acta. 398:1998;9-17.
14. Everett R. D., Meredith M., Orr A., Cross A., Kathoria M., Parkinson J. A novel ubiquitin-specific protease is dynamically associated with the PML nuclear domain and binds to a herpesvirus regulatory protein. EMBO J. 16:1997;566-577.
15. Falquet L., Paquet N., Frutiger S., Huhes G. J., Hoang-Van K., Jaton J.-C. cDNA cloning of a human 100kDa de-ubiquitinating enzyme: The 100kDa human de-ubiquitinase belongs to the ubiquitin C-terminal hydrolase family 2 (UCH2). FEBS Lett. 376:1995;233-237.
16. Frederick A., Rolfe M., Chiu M. I. The human UNP locus at 3p21.31 encodes two tissue selective, cytoplasmic isoforms with deubiquitinating activity that have reduced expression in small cell lung carcinoma cell lines. Oncogene. 16:1998;153-165.
17. Fujiwara T., Saito A., Suzuki M., Shinomiya H., Suzuki T., Takahashi E.-I., Tanigama A., Ichiyama A., Chung C. H., Nakamura Y., Tanaka K. Identification and chromosomal assignment of USP1, a novel gene encoding a human ubiquitin-specific protease. Genomics. 54:1998;155-158.
18. Gilchrist C. A., Gray D. A., Baker R. T. A ubiquitin-specific protease that efficiently cleaves the ubiquitin-proline bond. J. Biol. Chem. 272:1997;32280-32285.
19. Gondo Y., Okada T., Matsuyama N., Saitoh Y., Yanagisawa Y., Ikeda J.-E. Human megasatellite DNA RS447: Copy-number polymorphisms and interspecies conservation. Genomics. 54:1998;39-49.
20. Gray D. A., Inazawa J., Gupta K., Wong A., Ueda R., Takahashi T. Elevated expression of Unph, a proto-oncogene at 3p21.3, in human lung tumors. Oncogene. 10:1995;2179-2183.
21. Gupta K., Copeland N. G., Gilbert D. J., Jenkins N. A., Gray D. A. Unp, a mouse gene related to the tre oncogene. Oncogene. 8:1993;2307-2310.
22. Gupta K., Chevrette M., Gray D. A. Oncogenic transformation mediated by UNP, a novel nuclear protooncogene. Oncogene. 9:1994;1729-1731.
23. Haas A. L., Siepmann T. J. Pathways of ubiquitin conjugation. FASEB J. 11:1997;1257-1268.
24. Hansen-Hagge T. E., Janssen J. W. G., Hameister H., Papa F. R., Zechner U., Seriu T., Jauch A., Becke D., Hochstrasser M., Bartram C. R. An evolutionarily conserved gene on human chromosome 5q33-q34, UBH1, encodes a novel deubiquitinating enzyme. Genomics. 49:1998;411-418.
25. Hicke L. Ubiquitin-dependent internalization and down-regulation of plasma membrane proteins. FASEB J. 11:1997;1215-1226.
26. Hochstrasser M. Ubiquitin-dependent protein degradation. Annu. Rev. Genet. 30:1996;405-439.
27. Huang Y., Baker R. T., Fischer-Vize J. Control of cell fate by a deubiquitinating enzyme encoded by the fat facets gene. Science. 270:1995;1828-1831.
28. Jones M. H., Furlong R. A., Burkin H., Chalmers I. J., Brown G. M., Khwaja O., Affara N. A. The Drosophila developmental gene fat facets has a human homologue in Xp11.4 which escapes X-inactivation and has related sequences on Yq11.2. Hum. Mol. Genet. 5:1996;1695-1701.
29. Kozak M. Compilation and analysis of sequences upstream from the translational start site in eukaryotic mRNAs. Nucleic Acids Res. 12:1984;857-872.
30. Kozak M. The scanning model for translation: An update. J. Cell Biol. 108:1989;229-241.
31. Linnen J. M., Bailey C. P., Weeks D. L. Two related localized mRNAs from Xenopus laevis encode ubiquitin-like fusion proteins. Gene. 128:1993;181-188.
32. Nagase T., Seki N., Ishikawa K., Tanaka A., Nomura N. Prediction of the coding sequences of unidentified human genes. V. The coding sequences of 40 new genes (KIAA0161-KIAA0200) deduced by analysis of cDNA clones from human cell line KG-1. DNA Res. 3:1996;17-24.
33. Nagase T., Ishikawa K., Miyajima N., Tanaka A., Kotani H., Nomura N., Ohara O. Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. DNA Res. 5:1998;31-39.
34. Nakamura T., Hillova J., Mariage-Samson R., Onno M., Huebner K., Cannizzaro L. A., Boghosian-Sell L., Croce C. M., Hill M. A novel transcriptional unit of the tre oncogene widely expressed in human cancer cells. Oncogene. 7:1992;733-741.
35. Naviglio S., Mattecucci C., Matoskova B., Nagase T., Nomura N., Di Fiore P. P., Draetta G. F. UBPY: A growth-regulated human ubiquitin isopeptidase. EMBO J. 17:1998;3241-3250.
36. Nomura N., Nagase T., Miyajima N., Sazuka T., Tanaka A., Sato S., Seki N., Kawarabayasi Y., Ishikawa K., Tabata S. Prediction of the coding sequences of unidentified human genes. II. The coding sequences of 40 new genes (KIAA0041-KIAA0080) deduced by analysis of cDNA clones from human cell line KG-1. DNA Res. 1:1994;223-229.
37. Papa F., Hochstrasser M. The yeast DOA4 gene encodes a deubiquitinating enzyme related to a product of the human tre-2 oncogene. Nature. 366:1993;313-319.
38. Pickart C. M. Targeting of substrates to the 26S proteasome. FASEB J. 11:1997;1055-1066.
39. Schagger H., von Jagow G. Tricine-sodium dodecyl sulfate-polyacrylamide gel electrophoresis for the separation of proteins in the range from 1 to 100 kDa. Anal. Biochem. 166:1987;368-379.
40. Schlesinger M. J., Bond U. Ubiquitin genes. Oxford Surveys Euk. Genes. 4:1987;77-91.
41. Sloper-Mould K. E., Eyre H. J., Wang X.-W., Sutherland G. R., Baker R. T. Characterization and chromosomal localization of USP3, a novel human ubiquitin-specific protease. J. Biol. Chem. 1999.
42. Swanson D. A., Freund C. L., Ploder L., McInnes R. R., Valle D. A ubiquitin C-terminal hydrolase gene on the proximal short arm of the X chromosome: Implications for X-linked retinal disorders. Hum. Mol. Genet. 5:1996;533-538.
43. Thompson J. D., Higgins D. G., Gibson T. J. CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:1994;4673-4680.
44. Timms K. M., Ansari-Lari M. A., Morris W., Brown S. N., Gibbs R. A. The genomic organization of isopeptidase T-3 (ISOT-3), a new member of the ubiquitin specific protease family (UBP). Gene. 217:1998;101-106.
45. Tobias J. W., Varshavsky A. Cloning and functional analysis of the ubiquitin-specific protease gene UBP1 of Saccharomyces cerevisiae. J. Biol. Chem. 266:1991;12021-12028.
46. Tobias J. W., Shrader T. E., Rocap G., Varshavsky A. The N-end rule in bacteria. Science. 254:1991;1374-1377.
47. Wilkinson K. D. Regulation of ubiquitin-dependent processes by deubiquitinating enzymes. FASEB J. 11:1997;1245-1256.
48. Wilkinson K. D., Tashayev V. L., O'Connor L. B., Larsen C. N., Kasperek E., Pickart C. M. Metabolism of the polyubiquitin degradation signal: Structure, mechanism and role of isopeptidase T. Biochemistry. 34:1995;14535-14546.
49. Wood S. A., Pascoe W. S., Ru K. L., Yamada T., Hirchenhain J., Kemler R., Mattick J. S. Cloning and expression analysis of a novel mouse gene with sequence similarity to the Drosophila fat facets gene. Mech. Dev. 63:1997;29-38.
50. Zhu Y., Carroll M., Papa F. R., Hochstrasser M., D'Andrea A. D. DUB-1, a deubiquitinating enzyme with growth-suppressing activity. Proc. Natl. Acad. Sci. USA. 93:1996;3275-3279.
51. Zhu Y., Lambert K., Corless C., Copeland N. G., Gilbert D. J., D'Andrea A. D. DUB-2 is a member of a novel family of cytokine-inducible deubiquitinating enzymes. J. Biol. Chem. 272:1997;51-57.