A novel protein-conjugating system for Ufm1, a ubiquitin-fold modifier

EMBO Journal

Volumn 23, Issue 9, 2004, Pages 1977-1986

  Komatsu, Masaaki ^a   Chiba, Tomoki ^a   Tatsumi, Kanako ^a   Lemura, Shun Ichro ^b   Tanida, Isei ^c   Okazaki, Noriko ^d   Ueno, Takashi ^c   Konminani, Eiki ^c   Natsume, Tohru ^b   Tanaka, Keiji ^a  

^a TOKYO METROPOLITAN INSTITUTE OF MEDICAL SCIENCE   (Japan)

^b Japan Biological Information Research Center   (Japan)

^c JUNTENDO UNIVERSITY SCHOOL OF MEDICINE   (Japan)

^d KAZUSA DNA RESEARCH INSTITUTE   (Japan)

Author keywords

Uba5; Ubiquitin; Ubiquitin fold; Ubiquitin like protein; Ufm1

Indexed keywords

ENZYME; GLYCINE; PROTEIN; PROTEIN SUBUNIT; UBA5 PROTEIN; UBIQUITIN; UBIQUITIN LIKE PROTEIN; UFC1 PROTEIN; UFM1 PROTEIN; UNCLASSIFIED DRUG;

ARTICLE; CARBOXY TERMINAL SEQUENCE; CHEMICAL BOND; COMPLEX FORMATION; CONJUGATION; COVALENT BOND; GENETIC CONSERVATION; HUMAN; HUMAN CELL; METAZOON; MOLECULAR WEIGHT; MOUSE; NUCLEOTIDE SEQUENCE; PLANT; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN CONJUGATION; PROTEIN DEGRADATION; PROTEIN FOLDING; PROTEIN MODIFICATION; PROTEIN PROCESSING; PROTEIN STRUCTURE; PROTEIN TERTIARY STRUCTURE; SEQUENCE HOMOLOGY; THIOESTER BOND; UBIQUITINATION; YEAST;

AMINO ACID SEQUENCE; ANIMALS; CELLS, CULTURED; CHROMATOGRAPHY, LIQUID; DNA PRIMERS; DNA, COMPLEMENTARY; FLUORESCENT ANTIBODY TECHNIQUE; HUMANS; IMMUNOBLOTTING; IMMUNOPRECIPITATION; MASS SPECTROMETRY; MICE; MOLECULAR SEQUENCE DATA; PROTEIN CONFORMATION; PROTEIN PROCESSING, POST-TRANSLATIONAL; PROTEINS; SEQUENCE ALIGNMENT; TRANSFECTION; UBIQUITIN-ACTIVATING ENZYMES; UBIQUITIN-CONJUGATING ENZYMES; UBIQUITINS;

METAZOA;

EID: 3142519570     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1038/sj.emboj.7600205     Document Type: Article

References (35)

1. Bonifacino JS, Weissman AM (1998) Ubiquitin and the control of protein fate in the secretory and endocytic pathways. Annu Rev Cell Dev Biol 14: 19-57
2. Cort JR, Chiang Y, Zheng D, Montelione GT, Kennedy MA (2002) NMR structure of conserved eukaryotic protein ZK652.3 from C. elegans: a ubiquitin-like fold. Proteins 48: 733-736
3. D'Cunha J, Knight Jr E, Haas AL, Truitt RL, Borden EC (1996) Immunoregulatory properties of ISG15, an interferon-induced cytokine. Proc Natl Acad Sci USA 93: 211-215
4. Furukawa K, Mizushima N, Noda T, Ohsumi Y (2000) A protein conjugation system in yeast with homology to biosynthetic enzyme reaction of prokaryotes. J Biol Chem 275: 7462-7465
5. Glickman MH, Ciechanover A (2002) The ubiquitin-proteasome proteolytic pathway: destruction for the sake of construction. Physiol Rev 82: 373-428
6. Harding HP, Zhang Y, Zeng H, Novoa I, Lu PD, Calfon M, Sadri N, Yun C, Popko B, Paules R, Stojdl DF, Bell JC, Hettmann T, Leiden JM, Ron D (2003) An integrated stress response regulates amino acid metabolism and resistance to oxidative stress. Mol Cell 11: 619-633
7. Hershko A, Ciechanover A (1998) The ubiquitin system. Annu Rev Biochem 67: 425-479
8. Hodgins RR, Ellison KS, Ellison MJ (1992) Expression of a ubiquitin derivative that conjugates to protein irreversibly produces phenotypes consistent with a ubiquitin deficiency. J Biol Chem 267: 8807-8812
9. Ichimura Y, Kirisako T, Takao T, Satomi Y, Shimonishi Y, Ishihara N, Mizushima N, Tanida I, Kominami E, Ohsumi M, Noda T, Ohsumi Y (2000) A ubiquitin-like system mediates protein lipidation. Nature 408: 488-492
10. Jentsch S, Pyrowolakis G (2000) Ubiquitin and its kin: how close are the family ties? Trends Cell Biol 10: 335-342
11. Johnson ES, Blobel G (1997) Ubc9p is the conjugating enzyme for the ubiquitin-like protein Smt3p. J Biol Chem 272: 26799-26802
12. Johnson ES, Schwienhorst I, Dohmen RJ, Blobel G (1997) The ubiquitin-like protein Smt3p is activated for conjugation to other proteins by an Aos1p/Uba2p heterodimer. EMBO J 16: 5509-5519
13. Kabeya Y, Mizushima N, Ueno T, Yamamoto A, Kirisako T, Noda T, Kominami E, Ohsumi Y, Yoshimori T (2000) LC3, a mammalian homologue of yeast Apg8p, is localized in autophagosome membranes after processing. EMBO J 19: 5720-5728
14. Kamitani T, Nguyen HP, Yeh ET (1997) Preferential modification of nuclear proteins by a novel ubiquitin-like molecule. J Biol Chem 272: 14001-14004
15. Klionsky DJ, Cregg JM, Dunn Jr WA, Emr SD, Sakai Y, Sandoval IV, Sibirny A, Subramani S, Thumm M, Veenhuis M, Ohsumi Y (2003) A unified nomenclature for yeast autophagy-related genes. Dev Cell 5: 539-545
16. Klionsky DJ, Emr SD (2000) Autophagy as a regulated pathway of cellular degradation. Science 290: 1717-1721
17. Komatsu M, Tanida I, Ueno T, Ohsumi M, Ohsumi Y, Kominami E (2001) The C-terminal region of an Apg7p/Cvt2p is required for homodimerization and is essential for its E1 activity and E1-E2 complex formation. J Biol Chem 276: 9846-9854
18. Lammer D, Mathias N, Laplaza JM, Jiang W, Liu Y, Callis J, Goebl M, Estelle M (1998) Modification of yeast Cdc53p by the ubiquitin-related protein rub1p affects function of the SCFCdc4 complex. Genes Dev 12: 914-926
19. Liakopoulos D, Doenges G, Matuschewski K, Jentsch S (1998) A novel protein modification pathway related to the ubiquitin system. EMBO J 17: 2208-2214
20. Liu YC, Pan J, Zhang C, Fan W, Collinge M, Bender JR, Weissman SM (1999) A MHC-encoded ubiquitin-like protein (FAT10) binds noncovalently to the spindle assembly checkpoint protein MAD2. Proc Natl Acad Sci USA 96: 4313-4318
21. Mizushima N, Noda T, Yoshimori T, Tanaka Y, Ishii T, George MD, Klionsky DJ, Ohsumi M, Ohsumi Y (1998) A protein conjugation system essential for autophagy. Nature 395: 395-398
22. Nakamura M, Xavier RM, Tsunematsu T, Tanigawa Y (1995) Molecular cloning and characterization of a cDNA encoding monoclonal nonspecific suppressor factor. Proc Natl Acad Sci USA 92: 3463-3467
23. Natsume T, Yamauchi Y, Nakayama H, Shinkawa T, Yanagida M, Takahashi N, Isobe T (2002) A direct nanoflow liquid chromatography-tandem mass spectrometry system for interaction proteomics. Anal Chem 74: 4725-4733
24. Ohsumi Y (2001) Molecular dissection of autophagy: two ubiquitin-like systems. Nat Rev Mol Cell Biol 2: 211-216
25. Osaka F, Kawasaki H, Aida N, Saeki M, Chiba T, Kawashima S, Tanaka K, Kato S (1998) A new NEDD8-ligating system for cullin-4A. Genes Dev 12: 2263-2268
26. Pickart CM (2001) Mechanisms underlying ubiquitination. Annu Rev Biochem 70: 503-533
27. Schwartz DC, Hochstrasser M (2003) A superfamily of protein tags: ubiquitin, SUMO and related modifiers. Trends Biochem Sci 28: 321-328
28. Shintani T, Mizushima N, Ogawa Y, Matsuura A, Noda T, Ohsumi Y (1999) Apgl0p, a novel protein-conjugating enzyme essential for autophagy in yeast. EMBO J 18: 5234-5241
29. Tanaka K, Suzuki T, Chiba T (1998) The ligation systems for ubiquitin and ubiquitin-like proteins. Mol Cells 8: 503-512
30. Tanida I, Komatsu M, Ueno T, Kominami E (2003) GATE-16 and GABARAP are authentic modifiers mediated by Apg7 and Apg3. Biochem Biophys Res Commun 300: 637-644
31. Tanida I, Mizushima N, Kiyooka M, Ohsumi M, Ueno T, Ohsumi Y, Kominami E (1999) Apg7p/Cvt2p: a novel protein-activating enzyme essential for autophagy. Mol Biol Cell 10: 1367-1379
32. Varshavsky A (1997) The ubiquitin system. Trends Biochem Sci 22: 383-387
33. Walden H, Podgorski MS, Huang DT, Miller DW, Howard RJ, Minor Jr DL, Holton JM, Schulman BA (2003a) The structure of the APPBP1-UBA3-NEDD8-ATP complex reveals the basis for selective ubiquitin-like protein activation by an E1. Mol Cell 12: 1427-1437
34. Walden H, Podgorski MS, Schulman BA (2003b) Insights into the ubiquitin transfer cascade from the structure of the activating enzyme for NEDD8. Nature 422: 330-334
35. Yeh ET, Gong L, Kamitani T (2000) Ubiquitin-like proteins: new wines in new bottles. Gene 248: 1-14