Identification and characterization of proteins that selectively interact with isoforms of the mRNA binding protein AUF1 (hnRNP D)

Biological Chemistry

Volumn 384, Issue 1, 2003, Pages 25-37

  Moraes, Karen C M ^a,b   Quaresma, Alexandre J C ^a   Maehnss, Karen ^a,c   Kobarg, Jörg ^a,b  

^a LABORATÓRIO NACIONAL DE LUZ SÍNCROTRON   (Brazil)

^b UNIVERSITY OF CAMPINAS   (Brazil)

^c BioVisioN AG   (Germany)

Author keywords

Domain mapping; mRNA degradation; Protein protein interactions; Ribonuclease; RNA binding domains; RNA binding proteins

Indexed keywords

ARGININE; CYTOKINE; ISOPROTEIN; MESSENGER RNA; MESSENGER RNA BINDING PROTEIN AUF1; NUCLEOTIDE BINDING PROTEIN; OLIGONUCLEOTIDE; PROTEIN IMP 2; PROTEIN NSAP 1; PROTEIN NSEP 1; RECOMBINANT PROTEIN; RIBONUCLEASE; RNA BINDING PROTEIN; UBIQUITIN CONJUGATING ENZYME; UNCLASSIFIED DRUG; URACIL;

3' UNTRANSLATED REGION; ALTERNATIVE RNA SPLICING; CONTROLLED STUDY; DNA STRUCTURE; ENZYME ACTIVITY; GEL MOBILITY SHIFT ASSAY; IN VITRO STUDY; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DNA BINDING; PROTEIN DOMAIN; PROTEIN PROTEIN INTERACTION; PROTEIN PURIFICATION; PROTO ONCOGENE; REGULATORY MECHANISM; REVIEW; RNA DEGRADATION; RNA STABILITY; TWO HYBRID SYSTEM; YEAST;

BLOTTING, WESTERN; DNA PRIMERS; DNA-BINDING PROTEINS; ELECTROPHORETIC MOBILITY SHIFT ASSAY; ESCHERICHIA COLI; HETEROGENEOUS-NUCLEAR RIBONUCLEOPROTEIN D; ISOMERISM; NUCLEIC ACID HYBRIDIZATION; OLIGONUCLEOTIDES; PEPTIDE MAPPING; PLASMIDS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, MESSENGER; RNA-BINDING PROTEINS;

EID: 0037224504     PISSN: 14316730     EISSN: None     Source Type: Journal    
DOI: 10.1515/BC.2003.004     Document Type: Review

References (53)

1. Arao, Y., Kuriyama, R., Kayama, F., and Kato, S. (2000). A nuclear matrix-associated factor, SAF-B, interacts with specific isoforms of AUF1/hnRNP D. Arch. Biochem. Biophys. 380, 228-236.
2. Bartel, P.L. and Fields, S. (1995). Analyzing protein-protein interactions using two-hybrid system. Methods Enzymol. 254, 241-263.
3. Bernstein, P., Peitz, S.W., and Ross, J. (1989). The poly(A)-poly(A)-binding protein complex is a major determinant of mRNA stability in vitro. Mol. Cell Biol.9, 659-670.
4. Bernstein, P.L., Herrick, D.J., Prokipcak, R.D., and Ross, J. (1992). Control of c-myc mRNA half-life in vitro by a protein capable of binding to a coding region stability determinant. Genes Dev. 6, 642-654.
5. Bohjanen, P.R., Petryniak, B., June, C.H., Thompson, C.B., and Lindsten, T. (1992). AU RNA-binding factors differ in their binding specificities and affinities. J. Biol. Chem. 267, 6302-6309.
6. Brewer, G. (1991). An A+U-rich element RNA-binding factor regulates c-myc mRNA stability in vitro. Mol. Cell Biol. 11, 2460-2466.
7. Brewer, G. (1999). Evidence for a 3′-5′ decay pathway for c-myc mRNA in mammalian cells. J. Biol. Chem. 274, 16174-16179.
8. Brewer, G. (2000). Regulation of c-myc mRNA decay in vitro by a TPA-inducible, ribosome- associated component in differentiating megalkaryoblasts. J. Biol. Chem. 275, 33336-45.
9. Bristow, M.R., Minobe, W.A., Raynolds, M.V., Port, J.D., Rasmussen, R., Ray, P.E., and Feldman, A.M. (1993). Reduced β1 receptor messenger RNA abundance in the failing human heart. J. Clin. Invest 92, 2737-2745.
10. Buzby, J.S., Lee, S.M., Van Winkle, P., DeMaria, C.T., Brewer, G., and Cairo, M.S. (1996). Increased granulocyte-macrophage colony-stimulating factor mRNA instability in cord versus adult mononuclear cells is translation- dependent and associated with increased levels of A+U-rich element binding factor. Blood 88, 2889-2897.
11. Carey, J. (1991). Gel retardation. Methods Enzymol. 208, 103-117.
12. Coles, L.S., Diamond, P., Occhiodoro, F., Vadas, M.A., and Shannon, M.F. (1996). Cold shock domain proteins repress transcription from the GM-CSF promoter. Nucleic Acids Res. 24, 2311-2317.
13. Croze, E., Usacheva, A., Asarnow, D., Minshall, R.D., Perez, H. D., and Colamonici, O. (2000). Receptor for activated C-kinase (RACK-1), a WD motif-containing protein, specifically associates with the human type I IFN receptor. J. Immunol. 165, 5127-5132.
14. DeMaria, C.T. and Brewer, G. (1996). AUF1 binding affinity to A+U-rich elements correlates with rapid mRNA degradation. J. Biol. Chem. 271, 12179-12184.
15. DeMaria, C.T. and Brewer, G. (1997). Cell-free systems for analysis of cytoplasmic mRNA turnover. Prog. Mol. Subcell. Biol. 18, 65-91.
16. Diamond, P., Shannon, M.F., Vadas, M.A., and Coles, L.S. (2001). Cold shock domain factors activate the granulocyte-macrophage colony-stimulating factor promoter in stimulated Jurkat T cells. J. Biol. Chem. 276, 7943-7951.
17. Durfee, T, Becherer, K., Chen, P.L., Yeh, S.H., Yang, Y., Kilburn, A.E., Lee, W.H., and Elledge, S.J. (1993). The retinoblastoma protein associates with the protein phosphatase type 1 catalytic subunit. Genes Dev. 7, 555-569.
18. Fan, X.C. and Steitz, J.A. (1998). Overexpression of HuR, a nuclear-cytoplasmic shuttling protein, increases the in vivo stability of ARE-containing mRNAs. EMBO J. 17, 3448-3460.
19. Gao, M., Wilusz, C. J., Feltz, S. W., Wilusz, J. (2001). A novel mRNA-decapping activity in HeLa cytoplasmic extracts is regulated by AU-rich elements. EMBO J. 20, 1134-1143.
20. Grosset, C., Chen, C.Y., Xu, N., Sonenberg, N., Jacquemin-Sablon, H., and Shyu, A.B. (2000). A mechanism for translationally coupled mRNA turnover: interaction between the poly(A) tail and a c-fos RNA coding determinant via a protein complex. Cell 103, 29-40.
21. Hamilton, B.J., Nagy, E., Malter, J.S., Arrick, B.A., and Rigby, W.F. (1993). Association of heterogeneous nuclear ribonucleoprotein A1 and C proteins with reiterated AUUUA sequences. J. Biol. Chem. 268, 8881-8887.
22. Harris, C.E., Boden, R.A., and Astell, C.R. (1999). A novel heterogeneous nuclear ribonucleoprotein-like protein interacts with NS1 of the minute virus of mice. J. Virol. 73, 72-80.
23. Hassfeld, W., Chan, E.K.L., Mathison, D.A., Portman, D., Dreyfuss, G., Steiner, G., and Tan, E.M. (1998). Molecular definition of heterogeneous nuclear ribonucleoprotein R (hnRNP R) using autoimmune antibody: immunological relationship with hnRNP P. Nucleic Acids Res. 26, 439-445.
24. Hollenberg, S.M., Sternglanz, R., Cheng, P.F., and Weintraub, H. (1995). Identification of a new family of tissue-specific basic helix-loop-helix proteins with a two-hybrid system. Mol. Cell Biol. 15, 3813-3822.
25. Holtmann, H., Winzen, R., Holland, P., Eickemeier, S., Hofmann, E., Wallach, D., Malinin, N.L., Cooper, J.A., Resch, K., and Kracht, M. (1999). Induction of interleukin-8 synthesis integrates on transcription and mRNA degradation from at least three different cytokine- or stress-activated signal transduction pathways. Mol. Cell Biol. 19, 6742-6753.
26. Katz, D.A., Theodorakis, N.G., Cleveland, D.W., Lindsten, T., and Thompson, C.B. (1994). AU-A, an RNA-binding activity distinct from hnRNP A1, is selective for AUUUA repeats and shuttles between the nucleus and the cytoplasm. Nucleic Acids Res. 22, 238-246.
27. Kiledjian, M., DeMaria, C., Brewer, G., and Novick, K. (1997). Identification of AUF1 (heterogeneous nuclear ribonucleoprotein D) as a component of the α-globin mRNA stability complex. Mol. Cell Biol. 17, 4870-4876.
28. Kim, J.H., Hahm, B., Kim, Y.K., Choi, M., and Jang, S.K. (2000). Protein-protein interaction among hnRNPs shuttling between nucleus and cytoplasm. J. Mol. Biol. 298, 395-405.
29. Kolluri, R. and Kinniburgh, A.J. (1991). Full length cDNA sequence encoding a nuclease-sensitive element DNA binding protein. Nucleic Acids Res. 19, 4771.
30. Laroia, G., Cuesta, R., Brewer, G., and Schneider, R.J. (1999). Control of mRNA decay by heat shock-ubiquitin-proteasome pathway. Science 284, 499-502.
31. Laroia, G., Sarkar, B., and Schneider, R.J. (2002). Ubiquitin-dependent mechanism regulates rapid turnover of AU-rich cytokine mRNAs. Proc. Natl. Acad. Sci. USA 99, 1842-1846.
32. Lee, W.M., Lin, C., and Curran, T. (1988). Activation of the transforming potential of the human fos proto-oncogene requires message stabilization and results in increased amounts of partially modified fos protein. Mol. Cell Biol. 8, 5521-5527.
33. Levine, T. D., Gao, F., King, H. K., Andrews, L. G., and Keene, J. D. (1993). Hel-N1: an autoimmune RNA-binding protein with specificity for 3′ uridylate-rich untranslated regions of growth factor mRNAs. Mol. Cell Biol. 13, 3494-3504.
34. Matsumoto, K., Meric, F., and Wolffe, A.P. (1996). Translational repression dependent on the interaction of the Xenopus Y-box protein FRGY2 with mRNA. Role of the cold shock domain, tail domain, and selective RNA sequence recognition. J. Biol. Chem. 271, 22706-22712.
35. Matsumoto, K. and Wolffe, A.P. (1998). Gene regulation by Y-box proteins: coupling control of transcription and translation. Trends Cell Biol. 8, 318-323.
36. Moraes, K.C.M., Lee, W.H., and Kobarg, J. (2002). Analysis of the structural determinants for the RNA binding of the human protein AUF1/hnRNP D. Biol. Chem. 383, 831-837.
37. Murray, M.T., Schiller, D.L., and Franke, W.W. (1992). Sequence analysis of cytoplasmic mRNA-binding proteins of Xenopus oocytes identifies a family of RNA-binding proteins. Proc. Natl. Acad. Sci. USA 89, 11-15.
38. Nakagawa, J., Waldner, H., Meyer-Monard, S., Hofsteenge, J., Jeno, P., and Moroni, C. (1995). AUH, a gene encoding an AU-specific RNA binding protein with intrinsic enoyl-CoA hydratase activity. Proc. Natl. Acad. Sci. USA 92, 2051-2055.
39. Nielsen, J., Christiansen, J., Lykke-Andersen, J., Johnsen, A.H., Wewer, U.M., and Nielsen, F.C. (1999). A family of insulin-like growth factor II mRNA-binding proteins represses translation in late development. Mol. Cell Biol. 19, 1262-1270.
40. Pende, A., Tremmel, K.D., DeMaria, C.T., Blaxall, B.C., Minobe, W.A., Sherman, J.A., Bisognano, J.D., Bristow, M.R., Brewer, G., and Port, J. (1996). Regulation of the mRNA-binding protein AUF1 by activation of the β-adrenergic receptor signal transduction pathway. J. Biol. Chem. 271, 8493-8501.
41. Robinow, S., Campos, A.R., Yao, K.M., and White, K. (1988). The elav gene product of Drosophila, required in neurons, has three RNP consensus motifs. Science 242, 1570-1572.
42. Ross, J. (1995). mRNA stability in mammalian cells. Microbiol. Rev. 59, 423-450.
43. Rui, E., Moura, P.R. and Kobarg, J. (2001). Expression of deletion mutants of the hepatitis B virus protein HBx in E coli and characterization of their RNA binding activities. Virus Res. 74, 59-73.
44. Shnyreva, M., Schullery, D.S., Suzuki, H., Higaki, Y., and Bomsztyk, K. (2000). Interaction of two multifunctional proteins. Heterogeneous nuclear ribonucleoprotein K and Y-box-binding protein. J. Biol. Chem. 275, 15498-15503.
45. Stief, A., Winter, D.M., Stratling, W.H., and Sippel, A.E. (1989). A nuclear DNA attachment element mediates elevated and position-independent gene activity. Nature 341, 343-345.
46. Vojtek, A.B. and Hollenberg, S.M. (1995). Ras-Raf interaction: two-hybrid analysis. Methods Enzymol. 255, 331-342.
47. Wagner, B.J., DeMaria, C.T, Sun, Y., Wilson, G.M., and Brewer, G. (1998). Structure and genomic organization of the human AUF1 gene: alternative pre-mRNA splicing generates four protein isoforms. Genomics 48, 195-202.
48. Wang, Z.Y., Qiu, Q.Q., Seufert, W., Taguchi, T., Testa, J.R., Whitmore, S.A., Callen, D.F., Welsh, D., Shenk, T., and Deuel, T.F. (1996). Molecular cloning of the cDNA and chromosome localization of the gene for human ubiquitin-conjugating enzyme 9. J. Biol. Chem. 271, 24811-24816.
49. Wilson, G.M., Sun, Y., Lu, H., and Brewer, G. (1999). Assembly of AUF1 oligomers on U-rich RNA targets by sequential dimer association. J. Biol. Chem. 274, 33374-33381.
50. Winzen, R., Kracht, M., Ritter, B., Wihelm, A., Chen, C.Y., Shyu, A.B., Muller, M., Gaestel, M., Resch, K., and Holtmann, H. (1999). The MAP kinase pathway signals for cytokine-induced mRNA stabilization via kinase-activated protein kinase 2 and an AU-rich region-targeted mechanism. EMBO J. 18, 4969-4980.
51. Xu, N., Chyi-Ying, A.C., and Shyu, A.B. (2001). Versatile role for hnRNP D isoforms in the differential regulation of cytoplasmic mRNA turnover. Mol. Cell Biol. 21, 6960-6971.
52. Zhang, J.Y., Chan, E.K., Peng, X.X., and Tan, E.M. (1999). A novel cytoplasmic protein with RNA-binding motifs is an autoantigen in human hepatocellular carcinoma. J. Exp. Med. 189, 1101-1110.
53. Zhang, W., Wagner, B.J., Ehrenman, K., Schaefer, A.W., DeMaria, C.T., Crater, D., DeHaven, K., Long, L., and Brewer, G. (1993). Purification, characterization, and cDNA cloning of an AU-rich element RNA-binding protein, AUF1. Mol. Cell Biol. 13, 7652-7665.