Selective regulation of gene expression by nuclear factor 110, a member of the NF90 family of double-stranded RNA-binding proteins

Journal of Molecular Biology

Volumn 332, Issue 1, 2003, Pages 85-98

  Reichman, Trevor W ^a,b   Parrott, Andrew M ^a   Fierro Monti, Ivo ^a,d   Caron, David J ^a   Kao, Peter N ^c   Lee, Chee Gun ^a,b   Li, Hong ^a,b   Mathews, Michael B ^a,b  

^a RUTGERS NEW JERSEY MEDICAL SCHOOL   (United States)

^b UNIVERSITY OF MEDICINE AND DENTISTRY OF NEW JERSEY   (United States)

^c STANFORD UNIVERSITY MEDICAL CENTER   (United States)

^d UNIVERSITY OF CAMBRIDGE   (United Kingdom)

Author keywords

DRBP76; ILF3; NF110; NF90; NFAR

Indexed keywords

BINDING PROTEIN; CELL NUCLEUS ANTIGEN; COMPLEMENTARY DNA; DOUBLE STRANDED RNA; ISOPROTEIN; LYMPHOCYTE ANTIGEN RECEPTOR; NUCLEAR FACTOR; NUCLEAR FACTOR 110; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG;

ARTICLE; CELL FRACTIONATION; CELL PROLIFERATION; CONTROLLED STUDY; GENE CONTROL; GENE EXPRESSION; HUMAN; HUMAN CELL; MASS SPECTROMETRY; MOLECULAR CLONING; MOUSE; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN FAMILY; PROTEIN FUNCTION; RAT; TRANSCRIPTION INITIATION;

INSERTION SEQUENCES;

EID: 0041735083     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0022-2836(03)00885-4     Document Type: Article

References (53)

1. Fierro-Monti I., Mathews M.B. Proteins binding duplexed RNA: one motif, multiple functions. Trends Biochem. Sci. 25:2000;241-246.
2. Tian B., Mathews M.B. The occurrence and functions of the double-stranded RNA binding motif: a genome-wide survey. Prog. Nucl. Acid Res. Mol. Biol. 74:2003;123-158.
3. Corthésy B., Kao P.N. Purification by DNA affinity chromatography of two polypeptides that contact the NF-AT DNA binding site in the interleukin 2 promoter. J. Biol. Chem. 269:1994;20682-20690.
4. Kao P.N., Chen L., Brock G., Ng J., Kenny J., Smith A.J., Corthesy B. Cloning and expression of cyclosporin A- and FK506-sensitive nuclear factor of activated T-cells: NF45 and NF90. J. Biol. Chem. 269:1994;20691-20699.
5. Duchange N., Pidoux J., Camus E., Sauvaget D. Alternative splicing in the human interleukin enhancer binding factor 3 (ILF3) gene. Gene. 261:2000;345-353.
6. Saunders L.R., Perkins D.J., Balachandran S., Michaels R., Ford R., Mayeda A., Barber G.N. Characterization of two evolutionarily conserved, alternatively spliced nuclear phosphoproteins, NFAR-1 and -2, that function in mRNA processing and interact with the double-stranded RNA-dependent protein kinase, PKR. J. Biol. Chem. 276:2001;32300-32312.
7. Saunders L.R., Jurecic V., Barber G.N. The 90- and 110-kDa human NFAR proteins are translated from two differentially spliced mRNAs encoded on chromosome 19p13. Genomics. 71:2001;256-259.
8. Buaas F.W., Lee K., Edelhoff S., Disteche C., Braun R.E. Cloning and characterization of the mouse interleukin enhancer binding factor 3 (Ilf3) homolog in a screen for RNA binding proteins. Mamm. Genome. 10:1999;451-456.
9. Tang J., Kao P.N., Herschman H.R. Protein-arginine methyltransferase I, the predominant protein-arginine methyltransferase in cells, interacts with and is regulated by interleukin enhancer-binding factor 3. J. Biol. Chem. 275:2000;19866-19876.
10. Bass B.L., Hurst S.R., Singer J.D. Binding properties of newly identified Xenopus proteins containing dsRNA-binding motifs. Curr. Biol. 4:1994;301-314.
11. Orford R.L., Robinson C., Haydon J.M., Patient R.K., Guille M.J. The maternal CCAAT box transcription factor which controls GATA-2 expression is novel and developmentally regulated and contains a double-stranded-RNA-binding subunit. Mol. Cell. Biol. 18:1998;5557-5566.
12. Brzostowski J., Robinson C., Orford R., Elgar S., Scarlett G., Peterkin T., et al. RNA-dependent cytoplasmic anchoring of a transcription factor subunit during Xenopus development. EMBO J. 19:2000;3683-3693.
13. Patel R.C., Vestal D.J., Xu Z., Bandyopadhyay S., Guo W., Erme S.M., et al. DRBP76, a double-stranded RNA-binding nuclear protein, is phosphorylated by the interferon-induced protein kinase, PKR. J. Biol. Chem. 274:1999;20432-20437.
14. Xu Y.H., Grabowski G.A. Molecular cloning and characterization of a translational inhibitory protein that binds to coding sequences of human acid beta-glucosidase and other mRNAs. Mol. Genet. Metab. 68:1999;441-454.
15. Matsumoto-Taniura N., Pirollet F., Monroe R., Gerace L., Westendorf J.M. Identification of novel M phase phosphoproteins by expression cloning. Mol. Biol. Cell. 7:1996;1455-1469.
16. Parker L.M., Fierro-Monti I., Reichman T.W., Gunnery S., Mathews M.B. Double-stranded RNA-binding proteins and the control of protein synthesis and cell growth. Cold Spring Harbor Symp. Quant. Biol. 66:2001;485-497.
17. Parker L.M., Fierro-Monti I., Mathews M.B. Nuclear factor 90 is a substrate and regulator of the eukaryotic initiation factor 2 kinase double-stranded RNA-activated protein kinase. J. Biol. Chem. 276:2001;32522-32530.
18. Langland J.O., Kao P.N., Jacobs B.L. Nuclear factor-90 of activated T-cells: a double-stranded RNA-binding protein and substrate for the double-stranded RNA-dependent protein kinase, PKR. Biochemistry. 38:1999;6361-6368.
19. Coolidge C.J., Patton J.G. A new double-stranded RNA-binding protein that interacts with PKR. Nucl. Acids Res. 28:2000;1407-1417.
20. Ting N.S., Kao P.N., Chan D.W., Lintott L.G., Lees-Miller S.P. DNA-dependent protein kinase interacts with antigen receptor response element binding proteins NF90 and NF45. J. Biol. Chem. 273:1998;2136-2145.
21. Fung L.F., Lo A.K., Yuen P.W., Liu Y., Wang X.H., Tsao S.W. Differential gene expression in nasopharyngeal carcinoma cells. Life Sci. 67:2000;923-936.
22. Reichman T.W., Muniz L.C., Mathews M.B. The RNA binding protein nuclear factor 90 functions as both a positive and negative regulator of gene expression in mammalian cells. Mol. Cell. Biol. 22:2002;343-356.
23. Krasnoselskaya-Riz I., Spruill A., Chen Y.W., Schuster D., Teslovich T., Baker C., et al. Nuclear factor 90 mediates activation of the cellular antiviral expression cascade. AIDS Res. Hum. Retroviruses. 18:2002;591-604.
24. Liao H.J., Kobayashi R., Mathews M.B. Activities of adenovirus virus-associated RNAs: Purification and characterization of RNA binding proteins. Proc. Natl Acad Sci. USA. 95:1998;8514-8519.
25. Mathews M.B., Shenk T. Adenovirus virus-associated RNA and translational control. J. Virol. 65:1991;5657-5662.
26. Sakamoto S., Morisawa K., Ota K., Nie J., Taniguchi T. A binding protein to the DNase I hypersensitive site II in HLA-DR alpha gene was identified as NF90. Biochemistry. 38:1999;3355-3361.
27. Reichman T.W., Mathews M.B. RNA binding and intramolecular interactions modulate the regulation of gene expression by nuclear factor 110. RNA. 9:2003;543-554.
28. Brownawell A.M., Macara I.G. Exportin-5, a novel karyopherin, mediates nuclear export of double-stranded RNA binding proteins. J. Cell. Biol. 156:2002;53-64.
29. Morris G.F., Mathews M.B. The adenovirus E1A transforming protein activates the proliferating cell nuclear antigen promoter via an ATF site. J. Virol. 65:1991;6397-6406.
30. Aratani S., Fujii R., Oishi T., Fujita H., Amano T., Ohshima T., et al. Dual roles of RNA helicase A in CREB-dependent transcription. Mol. Cell. Biol. 21:2001;4460-4469.
31. Nakajima T., Uchida C., Anderson S.F., Lee C.G., Hurwitz J., Parvin J.D., Montminy M. RNA helicase A mediates association of CBP with RNA polymerase II. Cell. 90:1997;1107-1112.
32. Patel R.C., Stanton P., Sen G.C. Specific mutations near the amino terminus of double-stranded RNA-dependent protein kinase (PKR) differentially affect its double-stranded RNA binding and dimerization properties. J. Biol. Chem. 271:1996;25657-25663.
33. Cosentino G.P., Venkatesan S., Serluca F.C., Green S.R., Mathews M.B., Sonenberg N. Double-stranded-RNA-dependent protein kinase and TAR RNA-binding protein form homo- and heterodimers in vivo. Proc. Natl Acad Sci. USA. 92:1995;9445-9449.
34. Green S.R., Manche L., Mathews M.B. Two functionally distinct RNA binding motifs in the regulatory domain of the protein kinase DAI. Mol. Cell. Biol. 15:1995;358-364.
35. Ghisolfi L., Kharrat A., Joseph G., Amalric F., Erard M. Concerted activities of the RNA recognition and the glycine-rich C-terminal domains of nucleolin are required for efficient complex formation with pre-ribosomal RNA. Eur. J. Biochem. 209:1992;541-548.
36. Darnell J.C., Jensen K.B., Jin P., Brown V., Warren S.T., Darnell R.B. Fragile X mental retardation protein targets G quartet mRNAs important for neuronal function. Cell. 107:2001;489-499.
37. Zhang S., Grosse F. Domain structure of human nuclear DNA helicase II (RNA helicase A). J. Biol. Chem. 272:1997;11487-11494.
38. Lee C.G., Hurwitz J. Human RNA helicase A is homologous to the maleless protein of Drosophila. J. Biol. Chem. 268:1993;16822-16830.
39. Kitagawa H., Yanagisawa J., Fuse H., Ogawa S., Yogiashi Y., Okuno A., et al. Ligand-selective potentiation of rat mineralocorticoid receptor activation function 1 by a CBP-containing histone acetyltransferase complex. Mol. Cell. Biol. 22:2002;3698-3706.
40. Lee C.G., Chang K.A., Kuroda M.I., Hurwitz J. The NTPase/helicase activities of Drosophila maleless, an essential factor in dosage compensation. EMBO J. 16:1997;2671-2681.
41. Franke A., Baker B.S. The rox1 and rox2 RNAs are essential components of the compensasome, which mediates dosage compensation in Drosophila. Mol. Cell. 4:1999;117-122.
42. Zhou K., Choe K.T., Zaidi Z., Wang Q., Mathews M.B., Lee C.G. RNA helicase A interacts with dsDNA and topoisomerase IIalpha. Nucl. Acids Res. 31:2003;2253-2260.
43. Ogilvie V.C., Wilson B.J., Nicol S.M., Morrice N.A., Saunders L.R., Barber G.N., Fuller-Pace F.V. The highly related DEAD box RNA helicases p68 and p72 exist as heterodimers in cells. Nucl. Acids Res. 31:2003;1470-1480.
44. Endoh H., Maruyama K., Masuhiro Y., Kobayashi Y., Goto M., Tai H., et al. Purification and identification of p68 RNA helicase acting as a transcriptional coactivator specific for the activation function 1 of human estrogen receptor alpha. Mol. Cell. Biol. 19:1999;5363-5372.
45. Watanabe M., Yanagisawa J., Kitagawa H., Takeyama K., Ogawa S., Arao Y., et al. A subfamily of RNA-binding DEAD-box proteins acts as an estrogen receptor alpha coactivator through the N-terminal activation domain (AF-1) with an RNA coactivator, SRA. EMBO J. 20:2001;1341-1352.
46. Lee C.G. RH70, a bidirectional RNA helicase, co-purifies with U1snRNP. J. Biol. Chem. 277:2002;39679-39683.
47. Liu Z.R. p68 RNA helicase is an essential human splicing factor that acts at the U1 snRNA-5′ splice site duplex. Mol. Cell. Biol. 22:2002;5443-5450.
48. Zhu Y., Pe'ery T., Peng J., Ramanathan Y., Marshall N., Marshall T., et al. Transcription elongation factor P-TEFb is required for HIV-1 tat transactivation in vitro. Genes Dev. 11:1997;2622-2632.
49. Nguyen V.T., Kiss T., Michels A.A., Bensaude O. 7SK small nuclear RNA binds to and inhibits the activity of CDK9/cyclin T complexes. Nature. 414:2001;322-325.
50. Yang Z., Zhu Q., Luo K., Zhou Q. The 7SK small nuclear RNA inhibits the CDK9/cyclin T1 kinase to control transcription. Nature. 414:2001;317-322.
51. Kwek K.Y., Murphy S., Furger A., Thomas B., O'Gorman W., Kimura H., et al. U1 snRNA associates with TFIIH and regulates transcriptional initiation. Nature Struct. Biol. 9:2002;800-805.
52. Lanz R.B., McKenna N.J., Onate S.A., Albrecht U., Wong J., Tsai S.Y., et al. A steroid receptor coactivator, SRA, functions as an RNA and is present in an SRC-1 complex. Cell. 97:1999;17-27.
53. Mendez J., Stillman B. Chromatin association of human origin recognition complex, cdc6, and minichromosome maintenance proteins during the cell cycle: assembly of prereplication complexes in late mitosis. Mol. Cell. Biol. 20:2000;8602-8612.