The DEAD-Box Protein Ded1 Modulates Translation by the Formation and Resolution of an eIF4F-mRNA Complex

Molecular Cell

Volumn 43, Issue 6, 2011, Pages 962-972

  Hilliker, Angela ^a   Gao, Zhaofeng ^c   Jankowsky, Eckhard ^c   Parker, Roy ^a,b  

^a University of Arizona   (United States)

^b UNIVERSITY OF ARIZONA   (United States)

^c CASE WESTERN RESERVE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE TRIPHOSPHATE; DEAD BOX PROTEIN; DEAD BOX PROTEIN DED1; INITIATION FACTOR 4F; MESSENGER RNA; UNCLASSIFIED DRUG;

ARTICLE; COMPLEX FORMATION; CONTROLLED STUDY; GRANULE CELL; HYDROLYSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PROTEIN ASSEMBLY; PROTEIN DEGRADATION; PROTEIN FUNCTION; PROTEIN LOCALIZATION; PROTEIN RNA BINDING; RNA DEGRADATION; RNA TRANSLATION; TRANSLATION INITIATION;

ADENOSINE TRIPHOSPHATE; AMINO ACID SEQUENCE; CYTOPLASMIC GRANULES; DEAD-BOX RNA HELICASES; EUKARYOTIC INITIATION FACTOR-4F; EUKARYOTIC INITIATION FACTOR-4G; GENE EXPRESSION REGULATION; MODELS, GENETIC; MOLECULAR SEQUENCE DATA; PROTEIN BIOSYNTHESIS; RIBONUCLEOPROTEINS; RNA, MESSENGER; SACCHAROMYCES CEREVISIAE PROTEINS; SEQUENCE ALIGNMENT;

EID: 80053022305     PISSN: 10972765     EISSN: 10974164     Source Type: Journal    
DOI: 10.1016/j.molcel.2011.08.008     Document Type: Article

References (37)

1. Ariumi Y., Kuroki M., Abe K., Dansako H., Ikeda M., Wakita T., Kato N. DDX3 DEAD-box RNA helicase is required for hepatitis C virus RNA replication. J. Virol. 2007, 81:13922-13926.
2. Ballut L., Marchadier B., Baguet A., Tomasetto C., Séraphin B., Le Hir H. The exon junction core complex is locked onto RNA by inhibition of eIF4AIII ATPase activity. Nat. Struct. Mol. Biol. 2005, 12:861-869.
3. Beckham C., Hilliker A., Cziko A.M., Noueiry A., Ramaswami M., Parker R. The DEAD-box RNA helicase Ded1p affects and accumulates in Saccharomyces cerevisiae P-bodies. Mol. Biol. Cell 2008, 19:984-993.
4. Berset C., Zurbriggen A., Djafarzadeh S., Altmann M., Trachsel H. RNA-binding activity of translation initiation factor eIF4G1 from Saccharomyces cerevisiae. RNA 2003, 9:871-880.
5. Bowers H.A., Maroney P.A., Fairman M.E., Kastner B., Lührmann R., Nilsen T.W., Jankowsky E. Discriminatory RNP remodeling by the DEAD-box protein DED1. RNA 2006, 12:903-912.
6. Buchan J.R., Parker R. Eukaryotic stress granules: the ins and outs of translation. Mol. Cell 2009, 36:932-941.
7. Buchan J.R., Muhlrad D., Parker R. P bodies promote stress granule assembly in Saccharomyces cerevisiae. J. Cell Biol. 2008, 183:441-455.
8. Chuang R.Y., Weaver P.L., Liu Z., Chang T.H. Requirement of the DEAD-Box protein ded1p for messenger RNA translation. Science 1997, 275:1468-1471.
9. Collins S.R., Kemmeren P., Zhao X.C., Greenblatt J.F., Spencer F., Holstege F.C., Weissman J.S., Krogan N.J. Toward a comprehensive atlas of the physical interactome of Saccharomyces cerevisiae. Mol. Cell. Proteomics 2007, 6:439-450.
10. de la Cruz J., Iost I., Kressler D., Linder P. The p20 and Ded1 proteins have antagonistic roles in eIF4E-dependent translation in Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. USA 1997, 94:5201-5206.
11. Fairman M.E., Maroney P.A., Wang W., Bowers H.A., Gollnick P., Nilsen T.W., Jankowsky E. Protein displacement by DExH/D "RNA helicases" without duplex unwinding. Science 2004, 304:730-734.
12. Fairman-Williams M.E., Guenther U.P., Jankowsky E. SF1 and SF2 helicases: family matters. Curr. Opin. Struct. Biol. 2010, 20:313-324.
13. Goulet I., Boisvenue S., Mokas S., Mazroui R., Côté J. TDRD3, a novel Tudor domain-containing protein, localizes to cytoplasmic stress granules. Hum. Mol. Genet. 2008, 17:3055-3074.
14. Halls C., Mohr S., Del Campo M., Yang Q., Jankowsky E., Lambowitz A.M. Involvement of DEAD-box proteins in group I and group II intron splicing. Biochemical characterization of Mss116p, ATP hydrolysis-dependent and -independent mechanisms, and general RNA chaperone activity. J. Mol. Biol. 2007, 365:835-855.
15. Hinton T.M., Coldwell M.J., Carpenter G.A., Morley S.J., Pain V.M. Functional analysis of individual binding activities of the scaffold protein eIF4G. J. Biol. Chem. 2007, 282:1695-1708.
16. Iizuka N., Sarnow P. Translation-competent extracts from Saccharomyces cerevisiae: effects of L-A RNA, 5' cap, and 3' poly(A) tail on translational efficiency of mRNAs. Methods 1997, 11:353-360.
17. Iost I., Dreyfus M., Linder P. Ded1p, a DEAD-box protein required for translation initiation in Saccharomyces cerevisiae, is an RNA helicase. J. Biol. Chem. 1999, 274:17677-17683.
18. Johnstone O., Deuring R., Bock R., Linder P., Fuller M.T., Lasko P. Belle is a Drosophila DEAD-box protein required for viability and in the germ line. Dev. Biol. 2005, 277:92-101.
19. Kanai Y., Dohmae N., Hirokawa N. Kinesin transports RNA: isolation and characterization of an RNA-transporting granule. Neuron 2004, 43:513-525.
20. Krogan N.J., Peng W.T., Cagney G., Robinson M.D., Haw R., Zhong G., Guo X., Zhang X., Canadien V., Richards D.P., et al. High-definition macromolecular composition of yeast RNA-processing complexes. Mol. Cell 2004, 13:225-239.
21. Lai M.C., Lee Y.H., Tarn W.Y. The DEAD-box RNA helicase DDX3 associates with export messenger ribonucleoproteins as well as tip-associated protein and participates in translational control. Mol. Biol. Cell 2008, 19:3847-3858.
22. Lee C.S., Dias A.P., Jedrychowski M., Patel A.H., Hsu J.L., Reed R. Human DDX3 functions in translation and interacts with the translation initiation factor eIF3. Nucleic Acids Res. 2008, 36:4708-4718.
23. Liu F., Putnam A., Jankowsky E. ATP hydrolysis is required for DEAD-box protein recycling but not for duplex unwinding. Proc. Natl. Acad. Sci. USA 2008, 105:20209-20214.
24. Noueiry A.O., Chen J., Ahlquist P. A mutant allele of essential, general translation initiation factor DED1 selectively inhibits translation of a viral mRNA. Proc. Natl. Acad. Sci. USA 2000, 97:12985-12990.
25. O'Donnell M., Kuriyan J. Clamp loaders and replication initiation. Curr. Opin. Struct. Biol. 2006, 16:35-41.
26. Parker R., Sheth U. P bodies and the control of mRNA translation and degradation. Mol. Cell 2007, 25:635-646.
27. Randall G., Panis M., Cooper J.D., Tellinghuisen T.L., Sukhodolets K.E., Pfeffer S., Landthaler M., Landgraf P., Kan S., Lindenbach B.D., et al. Cellular cofactors affecting hepatitis C virus infection and replication. Proc. Natl. Acad. Sci. USA 2007, 104:12884-12889.
28. Raponi M., Arndt G.M. Dominant genetic screen for cofactors that enhance antisense RNA-mediated gene silencing in fission yeast. Nucleic Acids Res. 2002, 30:2546-2554.
29. Shih J.W., Tsai T.Y., Chao C.H., Wu Lee Y.H. Candidate tumor suppressor DDX3 RNA helicase specifically represses cap-dependent translation by acting as an eIF4E inhibitory protein. Oncogene 2008, 27:700-714.
30. Staley J.P., Guthrie C. An RNA switch at the 5' splice site requires ATP and the DEAD box protein Prp28p. Mol. Cell 1999, 3:55-64.
31. Tarassov K., Messier V., Landry C.R., Radinovic S., Serna Molina M.M., Shames I., Malitskaya Y., Vogel J., Bussey H., Michnick S.W. An in vivo map of the yeast protein interactome. Science 2008, 320:1465-1470.
32. Teixeira D., Sheth U., Valencia-Sanchez M.A., Brengues M., Parker R. Processing bodies require RNA for assembly and contain nontranslating mRNAs. RNA 2005, 11:371-382.
33. Ulvila J., Parikka M., Kleino A., Sormunen R., Ezekowitz R.A., Kocks C., Rämet M. Double-stranded RNA is internalized by scavenger receptor-mediated endocytosis in Drosophila S2 cells. J. Biol. Chem. 2006, 281:14370-14375.
34. Wu C., Amrani N., Jacobson A., Sachs M.S. The use of fungal in vitro systems for studying translational regulation. Methods Enzymol. 2007, 429:203-225.
35. Yang Q., Jankowsky E. ATP- and ADP-dependent modulation of RNA unwinding and strand annealing activities by the DEAD-box protein DED1. Biochemistry 2005, 44:13591-13601.
36. Yang Q., Jankowsky E. The DEAD-box protein Ded1 unwinds RNA duplexes by a mode distinct from translocating helicases. Nat. Struct. Mol. Biol. 2006, 13:981-986.
37. Yedavalli V.S., Neuveut C., Chi Y.H., Kleiman L., Jeang K.T. Requirement of DDX3 DEAD box RNA helicase for HIV-1 Rev-RRE export function. Cell 2004, 119:381-392.