Structural and functional analyses of DNA bending induced by Sp1 family transcription factors

Journal of Molecular Biology

Volumn 267, Issue 3, 1997, Pages 490-504

  Sjøttem, Eva ^a   Andersen, Cecilie ^a   Johansen, Terje ^a  

^a UNIVERSITY OF TROMSØ   (Norway)

Author keywords

DNA bending; DNA protein interaction; HERV H LTRs; Promoter activity; SP1 family proteins

Indexed keywords

CURVED DNA; HYBRID PROTEIN; TRANSCRIPTION FACTOR SP1; ZINC FINGER PROTEIN;

ANIMAL CELL; ARTICLE; BINDING AFFINITY; CONTROLLED STUDY; DNA DETERMINATION; DNA STRUCTURE; DROSOPHILA; GEL ELECTROPHORESIS; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN DNA BINDING; PROTEIN DOMAIN; TATA BOX; TRANSACTIVATION; TRANSCRIPTION INITIATION;

EID: 0031552365     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1997.0893     Document Type: Article

References (75)

1. Andrews P. W. Retinoic acid induces neuronal differentiation of a cloned human embryonal carcinoma cell line in vitro. Dev. Biol. 103:1984;285-293.
2. Balagurumoorthy P., Sakamoto H., Lewis M. S., Zambrano N., Clore G. M., Gronenborn A. M., Appella E., Harrington R. E. Four p53 DNA-binding domain peptides bind natural p53-response elements and bend the DNA. Proc. Natl Acad. Sci. USA. 92:1995;8591-8595.
3. Bessereau J. L., Mendelzon D., LePoupon C., Fiszman M., Changeux J. P., Piette J. Muscle-specific expression of the acetylcholine receptor alpha-subunit gene requires both positive and negative interactions between myogenic factors, Sp1 and GBF factors. EMBO J. 12:1993;443-449.
4. Biggs J. R., Kudlow J. E., Kraft A. S. The role of the transcription factor Sp1 in regulating the expression of the WAF1/CIP1 gene in U937 leukemic cells. J. Biol. Chem. 271:1996;901-906.
5. Boam D. S., Davidson I., Chambon P. A TATA-less promoter containing binding sites for ubiquitous transcription factors mediates cell type-specific regulation of the gene for transcription enhancer factor-1 (TEF-1). J. Biol. Chem. 270:1995;19487-19494.
6. Briggs M. R., Kadonaga J. T., Bell S. P., Tjian R. Purification and biochemical characterization of the promoter-specific transcription factor, Sp1. Science. 234:1986;47-52.
7. Chiang C. M., Roeder R. G. Cloning of an intrinsic human TFIID subunit that interacts with multiple transcriptional activators. Science. 267:1995;531-536.
8. Courey A. J., Tjian R. Analysis of Sp1 in vivo reveals multiple transcriptional domains, including a novel glutamine-rich activation motif. Cell. 55:1988;887-898.
9. Courey A. J., Holtzman D. A., Jackson S. P., Tjian R. Synergistic activation by the glutamine-rich domains of human transcription factor Sp1. Cell. 59:1989;827-836.
10. Daniel S., Kim K. H. Sp1 mediates glucose activation of the acetyl-CoA carboxylase promoter. J. Biol. Chem. 271:1996;1385-1392.
11. Datta P. K., Raychaudhuri P., Bagchi S. Association of p107 with Sp1: genetically separable regions of p107 are involved in regulation of E2F- and Sp1-dependent transcription. Mol. Cell. Biol. 15:1995;5444-5452.
12. Fischer K. D., Haese A., Nowock J. Cooperation of GATA-1 and Sp1 can result in synergistic transcriptional activation or interference. J. Biol. Chem. 268:1993;23915-23923.
13. Gately D. P., Howell S. B. Paclitaxel activation of the GADD153 promoter through a cellular injury response element containing an essential Sp1 binding site. J. Biol. Chem. 271:1996;20588-20593.
14. Gegonne A., Bosselut R., Bailly R. A., Ghysdael J. Synergistic activation of the HTLV1 LTR Ets-responsive region by transcription factors Ets1 and Sp1. EMBO J. 12:1993;1169-1178.
15. Grosschedl R. Higher-order nucleoprotein complexes in transcription: analogies with site-specific recombination. Curr. Opin. Cell Biol. 7:1995;362-370.
16. Grove A., Galeone A., Mayol L., Geiduschek E. P. Localized DNA flexibility contributes to target site selection by DNA-bending proteins. J. Mol. Biol. 260:1996;120-125.
17. Gualberto A., Baldwin A. S., Jr. p53 and Sp1 interact and cooperate in the tumor necrosis factor-induced transcriptional activation of the HIV-1 long terminal repeat. J. Biol. Chem. 270:1995;19680-19683.
18. Hagen G., Muller S., Beato M., Suske G. Cloning by recognition site screening of two novel GT box binding proteins: a family of Sp1 related genes. Nucl. Acids Res. 20:1992;5519-5525.
19. Hagen G., Muller S., Beato M., Suske G. Sp1-mediated transcriptional activation is repressed by Sp3. EMBO J. 13:1994;3843-3851.
20. Hagen G., Dennig J., Preiss A., Beato M., Suske G. Functional analyses of the transcription factor Sp4 reveal properties distinct from Sp1 and Sp3. J. Biol. Chem. 270:1995;24989-24994.
21. Hainzl T., Boehm T. A versatile expression vector for the in vitro study of protein-protein interactions: characterization of E47 mutant proteins. Oncogene. 9:1994;885-891.
22. Heydemann A., Juang G., Hennessy K., Parmacek M. S., Simon M. C. The myeloid-cell-specific c-fes promoter is regulated by Sp1, PU.1, and a novel transcription factor. Mol. Cell. Biol. 16:1996;1676-1686.
23. Huber H. E., Goodhart P. J., Huang P. S. Retinoblastoma protein reverses DNA bending by transcription factor E2F. J. Biol. Chem. 269:1994;6999-7005.
24. Imataka H., Sogawa K., Yasumoto K., Kikuchi Y., Sasano K., Kobayashi A., Hayami M., Fujii Kuriyama Y. Two regulatory proteins that bind to the basic transcription element (BTE), a GC box sequence in the promoter region of the rat P-4501A1 gene. EMBO J. 11:1992;3663-3671.
25. Jane S. M., Gumucio D. L., Ney P. A., Cunningham J. M., Nienhuis A. W. Methylation-enhanced binding of Sp1 to the stage selector element of the human gamma-globin gene promoter may regulate development specificity of expression. Mol. Cell. Biol. 13:1993;3272-3281.
26. Janson L., Pettersson U. Cooperative interactions between transcription factors Sp1 and OTF-1. Proc. Natl Acad. Sci. USA. 87:1990;4732-4736.
27. Johansen T., Moens U., Holm T., Fjose A., Krauss S. Zebrafish pou[c]: a divergent POU family gene ubiquitously expressed during embryogenesis. Nucl. Acids Res. 21:1993;475-483.
28. Kadonaga J. T., Tjian R. Affinity purification of sequence-specific DNA binding proteins. Proc. Natl. Acad. Sci. USA. 83:1986;5889-5893.
29. Kadonaga J. T., Carner K. R., Masiarz F. R., Tjian R. Isolation of cDNA encoding transcription factor Sp1 and functional analysis of the DNA binding domain. Cell. 51:1987;1079-1090.
30. Kahn J. D., Crothers D. M. Protein-induced bending and DNA cyclization. Proc. Natl Acad. Sci. USA. 89:1992;6343-6347.
31. Kamine J., Chinnadurai G. Synergistic activation of the human immunodeficiency virus type 1 promoter by the viral Tat protein and cellular transcription factor Sp1. J. Virol. 66:1992;3932-3936.
32. Karlseder J., Rothender H., Wintersberger E. Interaction of Sp1 with the growth- and cell cycle-regulated transcription factor E2F. Mol. Cell. Biol. 16:1996;1659-1667.
33. Kerppola T. K., Curran T. Fos-Jun heterodimers and Jun homodimers bend DNA in opposite orientations: implications for transcription factor cooperativity. Cell. 66:1991;317-326.
34. Kim J., Zwieb C., Wu C., Adhya S. Bending of DNA by gene-regulatory proteins: construction and use of a DNA bending vector. Gene. 85:1989;15-23.
35. Kim S.-J., Onwuta U. S., Lee Y. I., Li R., Botchan M. R., Robbins P. D. The retinoblastoma gene product regulates Sp1-meditaed transcription. Mol. Cell. Biol. 12:1992;2455-2463.
36. Kingsley C., Winoto A. Cloning of GT box-binding proteins: a novel Sp1 multigene family regulating T-cell receptor gene expression. Mol. Cell. Biol. 12:1992;4251-4261.
37. Krady J. K., Ward D. C. Transcriptional activation by the parvoviral nonstructural protein NS-1 is mediated via a direct interaction with Sp1. Mol. Cell. Biol. 15:1995;524-533.
38. Kriwacki R. W., Schultz S. C., Steitz T. A., Caradonna J. P. Sequence-specific recognition of DNA by zinc-finger peptides derived from the transcription factor Sp1. Proc. Natl Acad. Sci. USA. 89:1992;9759-9763.
39. Kuwahara J., Yonezawa A., Futamura M., Sugiura Y. Binding of transcription factor Sp1 to GC box DNA revealed by footprinting analysis: different contact of three zinc fingers and sequence recognition mode. Biochemistry. 32:1993;5994-6001.
40. Leggett R. W., Armstrong S. A., Barry D., Mueller C. R. Sp1 is phosphorylated and its DNA binding activity down-regulated upon terminal differentiation of the liver. J. Biol. Chem. 270:1995;25879-25884.
41. Li J. M., Nichols M. A., Chandrasekharan S., Xiong Y., Wang X. F. Transforming growth factor beta activates the promoter of cyclin-dependent kinase inhibitor p15INK4B through an Sp1 consensus site. J. Biol. Chem. 270:1995;26750-26753.
42. Li R., Knight J. D., Jackson S. P., Tjian R., Botchan M. R. Direct interaction between Sp1 and the BPV enhancer E2 protein mediates synergistic activation of transcription. Cell. 65:1991;493-505.
43. Li R., Hodny Z., Luciakova K., Barath P., Nelson B. D. Sp1 activates and inhibits transcription from separate elements in the proximal promoter of the human adenine nucleotide translocase 2 (ANT2) gene. J. Biol. Chem. 271:1996;18925-18930.
44. Look D. C., Pelletier M. R., Tidwell R. M., Roswit W. T., Holtzman M. J. Stat1 depends on transcriptional synergy with Sp1. J. Biol. Chem. 270:1995;30264-30267.
45. Luckow B., Schütz G. CAT constructions with multiple unique restriction sites for the functional analysis of eukaryotic promoters and regulatory elements. Nucl. Acids Res. 15:1987;5490.
46. Majello B., De Luca P., Suske G., Lania L. Differential transcriptional regulation of c-myc promoter through the same DNA binding sites targeted by Sp1-like proteins. Oncogene. 10:1995;1841-1848.
47. McBroom L. D., Flock G., Giguere V. The nonconserved hinge region and distinct amino-terminal domains of the ROR alpha orphan nuclear receptor isoforms are required for proper DNA bending and ROR alpha-DNA interactions. Mol. Cell. Biol. 15:1995;796-808.
48. Merika M., Orkin S. H. Functional synergy and physical interactions of the erythroid transcription factor GATA-1 with the Krüppel family proteins Sp1 and EKLF. Mol. Cell. Biol. 15:1995;2437-2447.
49. Nagaoka M., Sugiura Y. Distinct phosphate backbone contacts revealed by some mutant peptides of zinc finger protein Sp1: Effect of protein-induced bending on DNA recognition. Biochemistry. 35:1996;8761-8768.
50. Natesan S., Gilman M. Z. DNA bending and orientation-dependent function of YY1 in the c-fos promoter. Genes Dev. 7:1993;2497-2509.
51. Neish A. S., Khachigian L. M., Park A., Baichwal V. R., Collins T. Sp1 is a component of the cytokine-inducible enhancer in the promoter of vascular cell adhesion molecule-1. J. Biol. Chem. 270:1995;28903-28909.
52. Noti J. D., Reinemann B. C., Petrus M. N. Sp1 binds two sites in the CD11c promoter in vivo specifically in myeloid cells and cooperates with AP1 to activate transcription. Mol. Cell. Biol. 16:1996;2940-2950.
53. Parvin J. D., McCormick R. J., Sharp P. A., Fisher D. E. Pre-bending of a promoter sequence enhances affinity for the TATA-binding factor. Nature. 373:1995;724-727.
54. Pavletich N. P., Pabo C. O. Zinc finger-DNA recognition: crystal structure of a Zif268-DNA complex at 2.1 A. Science. 252:1991;809-817.
55. Perkins N. D., Edwards N. L., Duckett C. S., Agranoff A. B., Schmid R. M., Nabel G. J. A cooperative interaction between NF-kappa B and Sp1 is required for HIV-1 enhancer activation. EMBO J. 12:1993;3551-3558.
56. Saffer J. D., Jackson S. P., Thurston S. J. SV40 stimulates expression of the transacting factor Sp1 at the mRNA level. Genes Dev. 4:1990;659-666.
57. Saffer J. D., Jackson S. P., Annarella M. B. Developmental expression of Sp1 in the mouse. Mol. Cell. Biol. 11:1991;2189-2199.
58. Schreck R., Zorbas H., Winnacker E. L., Baeuerle P. A. The NF-kappa B transcription factor induces DNA bending which is modulated by its 65-kD subunit. Nucl. Acids Res. 18:1990;6497-6502.
59. Seto E., Lewis B., Shenk T. Interaction between transcription factors Sp1 and YY1. Nature. 365:1993;462-464.
60. Sjøttem E., Anderssen S., Johansen T. The promoter activity of long terminal repeats of the HERV-H family of human retrovirus-like elements is critically dependent on Sp1 family proteins interacting with a GC/GT box located immediately 3′ to the TATA box. J. Virol. 70:1996;188-198.
61. Sogawa K., Imataka H., Yamasaki Y., Kusume H., Abe H., Fujii Kuriyama Y. cDNA cloning and transcriptional properties of a novel GC box-binding protein, BTEB2. Nucl. Acids Res. 21:1993;1527-1532.
62. Spana C., Corces V. G. DNA bending is a determinant of binding specificity for a Drosophila zinc finger protein. Genes Dev. 4:1990;1505-1515.
63. Starr D. B., Hoopes B. C., Hawley D. K. DNA bending is an important component of site-specific recognition by the TATA binding protein. J. Mol. Biol. 250:1995;434-446.
64. Su W., Jackson S., Tjian R., Echols H. DNA looping between sites for transcriptional activation: self-association of DNA-bound Sp1. Genes Dev. 5:1991;820-826.
65. Sun D., Hurley L. H. Cooperative bending of the 21-base-pair repeats of the SV40 viral early promoter by human Sp1. Biochemistry. 33:1994;9578-9587.
66. Thompson J. F., Landy A. Empirical estimation of protein-induced DNA bending angles: applications to lambda site-specific recombination complexes. Nucl. Acids Res. 16:1988;9687-9705.
67. Travers A. A., Klug A. Bending of DNA in nucleoprotein complexes. DNA topology and its biological effects. 1990;Cold Spring Harbor Laboratory Press, Cold Spring Harbor.
68. Udvadia A. J., Templeton D. J., Horowitz J. M. Functional interactions between the retinoblastoma (Rb) protein and Sp-family members: superactivation by Rb requires amino acids necessary for growth suppression. Proc. Natl. Acad. Sci. USA. 92:1995;3953-3957.
69. Venepally P., Waterman M. R. Two Sp1-binding sites mediate cAMP-induced transcription of the bovine CYP11A gene through the protein kinase A signaling pathway. J. Biol. Chem. 270:1995;25402-25410.
70. Vignais M. L., Sentenac A. Asymmetric DNA bending induced by the yeast multifunctional factor TUF. J. Biol. Chem. 264:1989;8463-8466.
71. Wang L., Mukherjee S., Jia F., Narayan O., Zhao L. J. Interaction of virion protein Vpr of human immunodeficiency virus type 1 with cellular transcription factor Sp1 and trans-activation of viral long terminal repeat. J. Biol. Chem. 270:1995;25564-25569.
72. Wright K. L., Moore T. L., Vilen B. J., Brown A. M., Ting J. P. Major histocompatibility complex class II-associated invariant chain gene expression is up-regulated by cooperative interactions of Sp1 and NF-Y. J. Biol. Chem. 270:1995;20978-20986.
73. Ye J., Xu R. H., Taylor-Papadimitriou J., Pitha P. M. Sp1 binding plays a critical role in erb-B2- and v-ras-mediated downregulation of α2-integrin expression in human mammary epithelial cells. Mol. Cell. Biol. 16:1996;6178-6189.
74. Zinkel S. S., Crothers D. M. DNA bend direction by phase sensitive detection. Nature. 328:1987;178-181.
75. Zinkel S. S., Crothers D. M. Comparative gel electrophoresis measurement of the DNA bend angle induced by the catabolite activator protein. Biopolymers. 29:1990;29-38.