Nucleic Acids Research, 1994, Vol. 22, No. 13 2651-2657
© 1994
RNA |
The RNA polymerase I transcription factor UBF is a sequence-tolerant HMG-box protein that can recognize structured nucleic acids
Biology Department, Washington University Box 1137 One Brookings Drive, St Louis, MO 63130, USA
*To whom correspondence should be addressed
Received March 4, 1994. Revised June 8, 1994. Accepted June 8, 1994.
Upstream Binding Factor (UBF) is important for activation of ribosomal RNA transcription and belongs to a family of proteins containing nucleic acid binding domains, termed HMG-boxes, with similarity to High Mobility Group (HMG) chromosomal proteins. Proteins in this family can be sequence-specific or highly sequence-tolerant binding proteins. We show that Xenopus UBF can be classified among the sequencetolerant class. Methylation interference assays using enhancer DNA probes failed to reveal any critical nucleotides required for UBF binding. Selection by UBF of optimal binding sites among a population of enhancer oligonucleotides with randomized sequences also failed to reveal any consensus sequence. The minor groove specific drugs chromomycin A3, distamycin A and actinomycin D competed against UBF for enhancer binding, suggesting that UBF, like other HMG-box proteins, probably interacts with the minor groove. UBF also shares with other HMG box proteins the ability to bind synthetic cruciform DNA. However, UBF appears different from other HMG-box proteins in that it can bind both RNA (tRNA) and DNA. The sequence-tolerant nature of UBF-nucleic acid interactions may accommodate the rapid evolution of ribosomal RNA gene sequences.
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  F. J. Lawrence, B. McStay, and D. A. Matthews Nucleolar protein upstream binding factor is sequestered into adenovirus DNA replication centres during infection without affecting RNA polymerase I location or ablating rRNA synthesis J. Cell Sci., June 15, 2006; 119(12): 2621 - 2631. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. K. Friedrich, K. I. Panov, P. Cabart, J. Russell, and J. C. B. M. Zomerdijk TBP-TAF Complex SL1 Directs RNA Polymerase I Pre-initiation Complex Formation and Stabilizes Upstream Binding Factor at the rDNA Promoter J. Biol. Chem., August 19, 2005; 280(33): 29551 - 29558. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 D. Chen, A. S. Belmont, and S. Huang Upstream binding factor association induces large-scale chromatin decondensation PNAS, October 19, 2004; 101(42): 15106 - 15111. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 I. Grummt Life on a planet of its own: regulation of RNA polymerase I transcription in the nucleolus Genes & Dev., July 15, 2003; 17(14): 1691 - 1702. [Full Text] [PDF]
|
|
|
|
 |
|
 D. A. Grueneberg, L. Pablo, K.-Q. Hu, P. August, Z. Weng, and J. Papkoff A Functional Screen in Human Cells Identifies UBF2 as an RNA Polymerase II Transcription Factor That Enhances the {beta}-Catenin Signaling Pathway Mol. Cell. Biol., June 1, 2003; 23(11): 3936 - 3950. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. Liu, A. Guo, B. Boukhgalter, K. Van Den Heuvel, M. Tripp, and L. Pape Characterization of the fission yeast ribosomal DNA binding factor: components share homology with Upstream Activating Factor and with SWI/SNF subunits Nucleic Acids Res., December 15, 2002; 30(24): 5347 - 5359. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B. Roger, A. Moisand, F. Amalric, and P. Bouvet Repression of RNA Polymerase I Transcription by Nucleolin Is Independent of the RNA Sequence That Is Transcribed J. Biol. Chem., March 15, 2002; 277(12): 10209 - 10219. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. C. O'Sullivan, G. J. Sullivan, and B. McStay UBF Binding In Vivo Is Not Restricted to Regulatory Sequences within the Vertebrate Ribosomal DNA Repeat Mol. Cell. Biol., January 15, 2002; 22(2): 657 - 658. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
I. Hirschler-Laszkiewicz, A. Cavanaugh, Q. Hu, J. Catania, M. L. Avantaggiati, and L. I. Rothblum The role of acetylation in rDNA transcription Nucleic Acids Res., October 15, 2001; 29(20): 4114 - 4124. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. I. Panov, J. K. Friedrich, and J. C. B. M. Zomerdijk A Step Subsequent to Preinitiation Complex Assembly at the Ribosomal RNA Gene Promoter Is Rate Limiting for Human RNA Polymerase I-Dependent Transcription Mol. Cell. Biol., April 15, 2001; 21(8): 2641 - 2649. [Abstract] [Full Text]
|
|
|
|
|
|
M. Roux-Rouquie and M. Marilley Modeling of DNA local parameters predicts encrypted architectural motifs in Xenopus laevis ribosomal gene promoter Nucleic Acids Res., September 15, 2000; 28(18): 3433 - 3441. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Z. Huang, B. Philippin, E. O'Leary, J. V. Bonventre, W. Kriz, and R. Witzgall Expression of the Transcriptional Repressor Protein Kid-1 Leads to the Disintegration of the Nucleolus J. Biol. Chem., March 19, 1999; 274(12): 7640 - 7648. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. Ghosh, A. Jain, B. Mukherjee, S. Habib, and S. E. Hasnain The Host Factor Polyhedrin Promoter Binding Protein (PPBP) Is Involved in Transcription from the Baculovirus Polyhedrin Gene Promoter J. Virol., September 1, 1998; 72(9): 7484 - 7493. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
L. W. Hamoen, A. F. Van Werkhoven, J. J.E. Bijlsma, D. Dubnau, and G. Venema The competence transcription factor of Bacillus subtilis recognizes short A/T-rich sequences arranged in a unique, flexible pattern along the DNA helix Genes & Dev., May 15, 1998; 12(10): 1539 - 1550. [Abstract] [Full Text]
|
|
|
|
|
|
G. K. Geiss, C. A. Radebaugh, and M. R. Paule The Fundamental Ribosomal RNA Transcription Initiation Factor-IB (TIF-IB, SL1, Factor D) Binds to the rRNA Core Promoter Primarily by Minor Groove Contacts J. Biol. Chem., November 14, 1997; 272(46): 29243 - 29254. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Habib and S. E. Hasnain A 38-kDa Host Factor Interacts with Functionally Important Motifs within the Autographa californica Multinucleocapsid Nuclear Polyhedrosis Virus Homologous Region (hr1) DNA Sequence J. Biol. Chem., November 8, 1996; 271(45): 28250 - 28258. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
E. B. Mougey, L. K. Pape, and B. Sollner-Webb Virtually the Entire Xenopus laevis rDNA Multikilobase Intergenic Spacer Serves to Stimulate Polymerase I Transcription J. Biol. Chem., October 25, 1996; 271(43): 27138 - 27145. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. Lalo, J. S. Steffan, J. A. Dodd, and M. Nomura RRN11 Encodes the Third Subunit of the Complex Containing Rrn6p and Rrn7p That Is Essential for the Initiation of rDNA Transcription by Yeast RNA Polymerase I J. Biol. Chem., August 30, 1996; 271(35): 21062 - 21067. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D A Keys, B S Lee, J A Dodd, T T Nguyen, L Vu, E Fantino, L M Burson, Y Nogi, and M Nomura Multiprotein transcription factor UAF interacts with the upstream element of the yeast RNA polymerase I promoter and forms a stable preinitiation complex. Genes & Dev., April 1, 1996; 10(7): 887 - 903. [Abstract] [PDF]
|
|