![[Feedback]](/icons/banner/feedbackACT.gif){kind=icon}
![[For Subscribers]](/icons/banner/subscriberACT.gif){kind=icon}
![[Archive]](/icons/banner/archiveACT.gif){kind=icon}
![[Search]](/icons/banner/searchACT.gif){kind=icon}
![[Contents]](/icons/banner/tocACT.gif){kind=icon}
|
|
|
|
|
||
1 Howard Hughes Medical Institute and Department of
Biochemistry, University of Medicine and Dentistry of New
Jersey-Robert Wood Johnson Medical School, Piscataway, New Jersey
08854;
2 Department of Chemistry and Waksman Institute,
Rutgers University, New Brunswick, New Jersey 08855 USA
A sequence element located immediately upstream of the
TATA element, and having the consensus sequence
5
-G/C-G/C-G/A-C-G-C-C-3, affects the ability of transcription factor IIB to enter transcription complexes and support transcription initiation. The sequence element is
recognized directly by the transcription factor IIB. Recognition involves 
-helices 4 and 5 of IIB, which comprise a
helix-turn-helix DNA-binding motif. These observations establish that
transcription initiation involves a fourth core promoter element, the
IIB recognition element (BRE), in addition to the TATA element, the
initiator element, and the downstream promoter element, and involves a
second sequence-specific general transcription factor, IIB, in addition to transcription factor IID.
[Key Words: IIB recognition element; TATA element; transcription factor IIB; helix-turn-helix; DNA binding]
CiteULike 
Connotea 
Del.icio.us 
Digg 
Reddit 
Technorati What's this?
This article has been cited by other articles:
|
|
 |
|
  T. Abeel, Y. Saeys, E. Bonnet, P. Rouze, and Y. Van de Peer Generic eukaryotic core promoter prediction using structural features of DNA Genome Res., February 1, 2008; 18(2): 310 - 323. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. D. Bush, P. Richard, and J. L. Manley Variations in Intracellular Levels of TATA Binding Protein Can Affect Specific Genes by Different Mechanisms Mol. Cell. Biol., January 1, 2008; 28(1): 83 - 92. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 B. Malecova, P. Gross, M. Boyer-Guittaut, S. Yavuz, and T. Oelgeschlager The Initiator Core Promoter Element Antagonizes Repression of TATA-directed Transcription by Negative Cofactor NC2 J. Biol. Chem., August 24, 2007; 282(34): 24767 - 24776. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. W. Tullai, M. E. Schaffer, S. Mullenbrock, G. Sholder, S. Kasif, and G. M. Cooper Immediate-Early and Delayed Primary Response Genes Are Distinct in Function and Genomic Architecture J. Biol. Chem., August 17, 2007; 282(33): 23981 - 23995. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 Y. Hirose and Y. Ohkuma Phosphorylation of the C-terminal Domain of RNA Polymerase II Plays Central Roles in the Integrated Events of Eucaryotic Gene Expression J. Biochem., May 1, 2007; 141(5): 601 - 608. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
E. Gendra, D. F. Colgan, B. Meany, and M. M. Konarska A Sequence Motif in the Simian Virus 40 (SV40) Early Core Promoter Affects Alternative Splicing of Transcribed mRNA J. Biol. Chem., April 20, 2007; 282(16): 11648 - 11657. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. Teodorovic, C. D. Walls, and H. G. Elmendorf Bidirectional transcription is an inherent feature of Giardia lamblia promoters and contributes to an abundance of sterile antisense transcripts throughout the genome Nucleic Acids Res., April 3, 2007; 35(8): 2544 - 2553. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Tokusumi, Y. Ma, X. Song, R. H. Jacobson, and S. Takada The New Core Promoter Element XCPE1 (X Core Promoter Element 1) Directs Activator-, Mediator-, and TATA-Binding Protein-Dependent but TFIID-Independent RNA Polymerase II Transcription from TATA-Less Promoters Mol. Cell. Biol., March 1, 2007; 27(5): 1844 - 1858. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. L. Martowicz, J. A. Grass, and E. H. Bresnick GATA-1-mediated Transcriptional Repression Yields Persistent Transcription Factor IIB-Chromatin Complexes J. Biol. Chem., December 8, 2006; 281(49): 37345 - 37352. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. M. Lee and C.-t. Wu Enhancer-Promoter Communication at the yellow Gene of Drosophila melanogaster: Diverse Promoters Participate in and Regulate trans Interactions Genetics, December 1, 2006; 174(4): 1867 - 1880. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B. Schimanski, J. Brandenburg, T. N. Nguyen, M. J. Caimano, and A. Gunzl A TFIIB-like protein is indispensable for spliced leader RNA gene transcription in Trypanosoma brucei Nucleic Acids Res., March 22, 2006; 34(6): 1676 - 1684. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 R. Fujita, T. Matsuyama, J. Yamagishi, K. Sahara, S. Asano, and H. Bando Expression of Autographa californica Multiple Nucleopolyhedrovirus Genes in Mammalian Cells and Upregulation of the Host {beta}-Actin Gene J. Virol., March 1, 2006; 80(5): 2390 - 2395. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. B. Palenchar, W. Liu, P. M. Palenchar, and V. Bellofatto A Divergent Transcription Factor TFIIB in Trypanosomes Is Required for RNA Polymerase II-Dependent Spliced Leader RNA Transcription and Cell Viability Eukaryot. Cell, February 1, 2006; 5(2): 293 - 300. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
H. Faiger, M. Ivanchenko, I. Cohen, and T. E. Haran TBP flanking sequences: asymmetry of binding, long-range effects and consensus sequences Nucleic Acids Res., January 10, 2006; 34(1): 104 - 119. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
H.-T. Lai, H. Chen, C. Li, K. J. McNamara-Schroeder, and W. E. Stumph The PSEA promoter element of the Drosophila U1 snRNA gene is sufficient to bring DmSNAPc into contact with 20 base pairs of downstream DNA Nucleic Acids Res., November 27, 2005; 33(20): 6579 - 6586. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D.-H. Lee, N. Gershenzon, M. Gupta, I. P. Ioshikhes, D. Reinberg, and B. A. Lewis Functional Characterization of Core Promoter Elements: the Downstream Core Element Is Recognized by TAF1 Mol. Cell. Biol., November 1, 2005; 25(21): 9674 - 9686. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 W. Deng and S. G.E. Roberts A core promoter element downstream of the TATA box that is recognized by TFIIB Genes & Dev., October 15, 2005; 19(20): 2418 - 2423. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
F. Werner and R. O. J. Weinzierl Direct Modulation of RNA Polymerase Core Functions by Basal Transcription Factors Mol. Cell. Biol., September 15, 2005; 25(18): 8344 - 8355. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. P. Lee, K. Howcroft, A. Kotekar, H. H. Yang, K. H. Buetow, and D. S. Singer ATG deserts define a novel core promoter subclass Genome Res., September 1, 2005; 15(9): 1189 - 1197. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. Florquin, Y. Saeys, S. Degroeve, P. Rouze, and Y. Van de Peer Large-scale structural analysis of the core promoter in mammalian and plant genomes Nucleic Acids Res., July 27, 2005; 33(13): 4255 - 4264. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. L. Hodges, J. H. Leslie, N. Mosammaparast, Y. Guo, J. Shabanowitz, D. F. Hunt, and L. F. Pemberton Nuclear Import of TFIIB Is Mediated by Kap114p, a Karyopherin with Multiple Cargo-binding Domains Mol. Biol. Cell, July 1, 2005; 16(7): 3200 - 3210. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 N. I. Gershenzon and I. P. Ioshikhes Synergy of human Pol II core promoter elements revealed by statistical sequence analysis Bioinformatics, April 15, 2005; 21(8): 1295 - 1300. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Jeronimo, M.-F. Langelier, M. Zeghouf, M. Cojocaru, D. Bergeron, D. Baali, D. Forget, S. Mnaimneh, A. P. Davierwala, J. Pootoolal, et al. RPAP1, a Novel Human RNA Polymerase II-Associated Protein Affinity Purified with Recombinant Wild-Type and Mutated Polymerase Subunits Mol. Cell. Biol., August 15, 2004; 24(16): 7043 - 7058. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Y. Lim, B. Santoso, T. Boulay, E. Dong, U. Ohler, and J. T. Kadonaga The MTE, a new core promoter element for transcription by RNA polymerase II Genes & Dev., July 1, 2004; 18(13): 1606 - 1617. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
T. C. Tubon, W. P. Tansey, and W. Herr A Nonconserved Surface of the TFIIB Zinc Ribbon Domain Plays a Direct Role in RNA Polymerase II Recruitment Mol. Cell. Biol., April 1, 2004; 24(7): 2863 - 2874. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. A. Glossop, T. R. Dafforn, and S. G. E. Roberts A conformational change in TFIIB is required for activator-mediated assembly of the preinitiation complex Nucleic Acids Res., March 22, 2004; 32(5): 1829 - 1835. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 D. A. Bushnell, K. D. Westover, R. E. Davis, and R. D. Kornberg Structural Basis of Transcription: An RNA Polymerase II-TFIIB Cocrystal at 4.5 Angstroms Science, February 13, 2004; 303(5660): 983 - 988. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
D. Forget, M.-F. Langelier, C. Therien, V. Trinh, and B. Coulombe Photo-Cross-Linking of a Purified Preinitiation Complex Reveals Central Roles for the RNA Polymerase II Mobile Clamp and TFIIE in Initiation Mechanisms Mol. Cell. Biol., February 1, 2004; 24(3): 1122 - 1131. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. McLeod, C. D. Smart, and W. E. Fry Core Promoter Structure in the Oomycete Phytophthora infestans Eukaryot. Cell, February 1, 2004; 3(1): 91 - 99. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. B. Renfrow, N. Naryshkin, L. M. Lewis, H.-T. Chen, R. H. Ebright, and R. A. Scott Transcription Factor B Contacts Promoter DNA Near the Transcription Start Site of the Archaeal Transcription Initiation Complex J. Biol. Chem., January 23, 2004; 279(4): 2825 - 2831. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. Meinhart, J. Blobel, and P. Cramer An Extended Winged Helix Domain in General Transcription Factor E/IIE{alpha} J. Biol. Chem., November 28, 2003; 278(48): 48267 - 48274. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Z. Chen and J. L. Manley Core Promoter Elements and TAFs Contribute to the Diversity of Transcriptional Activation in Vertebrates Mol. Cell. Biol., October 15, 2003; 23(20): 7350 - 7362. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 C. A. Stewart, J. van Bergen, and J. Trowsdale Different and Divergent Regulation of the KIR2DL4 and KIR3DL1 Promoters J. Immunol., June 15, 2003; 170(12): 6073 - 6081. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
T. K. Howcroft, A. Raval, J. D. Weissman, A. Gegonne, and D. S. Singer Distinct Transcriptional Pathways Regulate Basal and Activated Major Histocompatibility Complex Class I Expression Mol. Cell. Biol., May 15, 2003; 23(10): 3377 - 3391. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
T. Lagrange, M.-A. Hakimi, D. Pontier, F. Courtois, J. P. Alcaraz, D. Grunwald, E. Lam, and S. Lerbs-Mache Transcription Factor IIB (TFIIB)-Related Protein (pBrp), a Plant-Specific Member of the TFIIB-Related Protein Family Mol. Cell. Biol., May 1, 2003; 23(9): 3274 - 3286. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Huang, E. McGillicuddy, M. Weindel, S. Dong, and R. J. Maraia The fission yeast TFIIB-related factor limits RNA polymerase III to a TATA-dependent pathway of TBP recruitment Nucleic Acids Res., April 15, 2003; 31(8): 2108 - 2116. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. V. Spencer and K. M. Arndt A TATA Binding Protein Mutant with Increased Affinity for DNA Directs Transcription from a Reversed TATA Sequence In Vivo Mol. Cell. Biol., December 15, 2002; 22(24): 8744 - 8755. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. E.F. Butler and J. T. Kadonaga The RNA polymerase II core promoter: a key component in the regulation of gene expression Genes & Dev., October 15, 2002; 16(20): 2583 - 2592. [Full Text] [PDF]
|
|
|
|
|
|
J. A. Fairley, R. Evans, N. A. Hawkes, and S. G. E. Roberts Core Promoter-Dependent TFIIB Conformation and a Role for TFIIB Conformation in Transcription Start Site Selection Mol. Cell. Biol., October 1, 2002; 22(19): 6697 - 6705. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. Cabart and S. Murphy Assembly of Human Small Nuclear RNA Gene-specific Transcription Factor IIIB Complex de Novo On and Off Promoter J. Biol. Chem., July 19, 2002; 277(30): 26831 - 26838. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Abrescia, E. De Gregorio, M. Frontini, R. Mantovani, and P. Di Nocera A Novel Intragenic Sequence Enhances Initiator-dependent Transcription in Human Embryonic Kidney 293 Cells J. Biol. Chem., May 24, 2002; 277(22): 19594 - 19599. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. A. Ehley, C. Melander, D. Herman, E. E. Baird, H. A. Ferguson, J. A. Goodrich, P. B. Dervan, and J. M. Gottesfeld Promoter Scanning for Transcription Inhibition with DNA-Binding Polyamides Mol. Cell. Biol., March 15, 2002; 22(6): 1723 - 1733. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 D. A. Wassarman and F. Sauer TAFII250: a transcription toolbox J. Cell Sci., March 10, 2002; 114(16): 2895 - 2902. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. P. Magill, S. P. Jackson, and S. D. Bell Identification of a Conserved Archaeal RNA Polymerase Subunit Contacted by the Basal Transcription Factor TFB J. Biol. Chem., December 7, 2001; 276(50): 46693 - 46696. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. Evans, J. A. Fairley, and S. G.E. Roberts Activator-mediated disruption of sequence-specific DNA contacts by the general transcription factor TFIIB Genes & Dev., November 15, 2001; 15(22): 2945 - 2949. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. Cabart and S. Murphy BRFU, a TFIIB-like Factor, Is Directly Recruited to the TATA-box of Polymerase III Small Nuclear RNA Gene Promoters through Its Interaction with TATA-binding Protein J. Biol. Chem., November 9, 2001; 276(46): 43056 - 43064. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Hamada, Y. Huang, T. M. Lowe, and R. J. Maraia Widespread Use of TATA Elements in the Core Promoters for RNA Polymerases III, II, and I in Fission Yeast Mol. Cell. Biol., October 15, 2001; 21(20): 6870 - 6881. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. E.F. Butler and J. T. Kadonaga Enhancer-promoter specificity mediated by DPE or TATA core promoter motifs Genes & Dev., October 1, 2001; 15(19): 2515 - 2519. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. L. Faitar, S. A. Brodie, and A. S. Ponticelli Promoter-Specific Shifts in Transcription Initiation Conferred by Yeast TFIIB Mutations Are Determined by the Sequence in the Immediate Vicinity of the Start Sites Mol. Cell. Biol., July 15, 2001; 21(14): 4427 - 4440. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. E. Laurance, D. B. Starr, E. F. Michelotti, E. Cheung, C. Gonzalez, A. W. Tam, J. Deikman, C. A. Edwards, and A. J. Bardwell Specific down-regulation of an engineered human cyclin D1 promoter by a novel DNA-binding ligand in intact cells Nucleic Acids Res., February 1, 2001; 29(3): 652 - 661. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 F. Pfeifer, J. Zotzel, B. Kurenbach, R. Röder, and P. Zimmermann A p-loop motif and two basic regions in the regulatory protein GvpD are important for the repression of gas vesicle formation in the archaeon Haloferax mediterranei Microbiology, January 1, 2001; 147(1): 63 - 73. [Abstract] [Full Text]
|
|
|
|
|
|
D. L. Pappas Jr. and M. Hampsey Functional Interaction between Ssu72 and the Rpb2 Subunit of RNA Polymerase II in Saccharomyces cerevisiae Mol. Cell. Biol., November 15, 2000; 20(22): 8343 - 8351. [Abstract] [Full Text]
|
|
|
|
|
|
P. J. Willy, R. Kobayashi, and J. T. Kadonaga A Basal Transcription Factor That Activates or Represses Transcription Science, November 3, 2000; 290(5493): 982 - 984. [Abstract] [Full Text]
|
|
|
|
|
|
A. K. Kutach and J. T. Kadonaga The Downstream Promoter Element DPE Appears To Be as Widely Used as the TATA Box in Drosophila Core Promoters Mol. Cell. Biol., July 1, 2000; 20(13): 4754 - 4764. [Abstract] [Full Text]
|
|
|
|
|
|
T. Kim, R. H. Ebright, and D. Reinberg Mechanism of ATP-Dependent Promoter Melting by Transcription Factor IIH Science, May 26, 2000; 288(5470): 1418 - 1421. [Abstract] [Full Text]
|
|
|
|
|
|
B. S. Wolner and J. D. Gralla Roles for Non-TATA Core Promoter Sequences in Transcription and Factor Binding Mol. Cell. Biol., May 15, 2000; 20(10): 3608 - 3615. [Abstract] [Full Text]
|
|
|
|
|
|
A. Knutson, E. Castano, T. Oelgeschlager, R. G. Roeder, and G. Westin Downstream Promoter Sequences Facilitate the Formation of a Specific Transcription Factor IID-Promoter Complex Topology Required for Efficient Transcription from the Megalin/Low Density Lipoprotein Receptor-related Protein 2 Promoter J. Biol. Chem., May 5, 2000; 275(19): 14190 - 14197. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
N. Paran, A. Ori, I. Haviv, and Y. Shaul A Composite Polyadenylation Signal with TATA Box Function Mol. Cell. Biol., February 1, 2000; 20(3): 834 - 841. [Abstract] [Full Text]
|
|
|
|
|
|
