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Molecular and Cellular Biology Volume 16, 1996 - Issue 4
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Research Article

A Three-Step Pathway of Transcription Initiation Leading to Promoter Clearance at an Activated RNA Polymerase II Promoter

Ying JiangDepartment of Chemistry and Biochemistry and Molecular Biology Institute, University of California at Los Angeles, Los Angeles, California90095-1569
,
Ming YanDepartment of Chemistry and Biochemistry and Molecular Biology Institute, University of California at Los Angeles, Los Angeles, California90095-1569
&
Jay D. GrallaDepartment of Chemistry and Biochemistry and Molecular Biology Institute, University of California at Los Angeles, Los Angeles, California90095-1569Correspondence[email protected]
Pages 1614-1621 | Received 30 Oct 1995, Accepted 11 Jan 1996, Published online: 29 Mar 2023

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Ying Liu, Charles Kung, James Fishburn, Aseem Z. Ansari, Kevan M. Shokat & Steven Hahn. (2004) Two Cyclin-Dependent Kinases Promote RNA Polymerase II Transcription and Formation of the Scaffold Complex. Molecular and Cellular Biology 24:4, pages 1721-1735.
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Branden S. Wolner & Jay D. Gralla. (2000) Roles for Non-TATA Core Promoter Sequences in Transcription and Factor Binding. Molecular and Cellular Biology 20:10, pages 3608-3615.
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Ernesto Guzmán & John T. Lis. (1999) Transcription Factor TFIIH Is Required for Promoter Melting In Vivo. Molecular and Cellular Biology 19:8, pages 5652-5658.
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T. C. Kuhlman, H. Cho, D. Reinberg & N. Hernandez. (1999) The General Transcription Factors IIA, IIB, IIF, and IIE Are Required for RNA Polymerase II Transcription from the Human U1 Small Nuclear RNA Promoter. Molecular and Cellular Biology 19:3, pages 2130-2141.
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Raphael Sandaltzopoulos & Peter B. Becker. (1998) Heat Shock Factor Increases the Reinitiation Rate from Potentiated Chromatin Templates. Molecular and Cellular Biology 18:1, pages 361-367.
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Articles from other publishers (33)

Marc Morgan, Ramin Shiekhattar, Ali Shilatifard & Shannon M. Lauberth. (2022) It’s a DoG-eat-DoG world—altered transcriptional mechanisms drive downstream-of-gene (DoG) transcript production. Molecular Cell 82:11, pages 1981-1991.
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Abhijit S. Deshmukh, Pallabi Mitra & Mulaka Maruthi. (2016) Cdk7 mediates RPB1-driven mRNA synthesis in Toxoplasma gondii. Scientific Reports 6:1.
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James Fishburn, Eric Galburt & Steven Hahn. (2016) Transcription Start Site Scanning and the Requirement for ATP during Transcription Initiation by RNA Polymerase II. Journal of Biological Chemistry 291:25, pages 13040-13047.
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Joshua E. Mayfield, Nathaniel T. Burkholder & Yan Jessie Zhang. (2016) Dephosphorylating eukaryotic RNA polymerase II. Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics 1864:4, pages 372-387.
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Jeffry L. Corden. (2013) RNA Polymerase II C-Terminal Domain: Tethering Transcription to Transcript and Template. Chemical Reviews 113:11, pages 8423-8455.
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Martin Heidemann, Corinna Hintermair, Kirsten Voß & Dirk Eick. (2013) Dynamic phosphorylation patterns of RNA polymerase II CTD during transcription. Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms 1829:1, pages 55-62.
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Philip J. J. Robinson, David A. Bushnell, Michael J. Trnka, Alma L. Burlingame & Roger D. Kornberg. (2012) Structure of the Mediator Head module bound to the carboxy-terminal domain of RNA polymerase II. Proceedings of the National Academy of Sciences 109:44, pages 17931-17935.
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T. Max, M. Søgaard & Jesper Q. Svejstrup. (2007) Hyperphosphorylation of the C-terminal Repeat Domain of RNA Polymerase II Facilitates Dissociation of Its Complex with Mediator. Journal of Biological Chemistry 282:19, pages 14113-14120.
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Elenita I. Kanin, Ryan T. Kipp, Charles KungMatthew SlatteryAgnes Viale, Steven Hahn, Kevan M. ShokatAseem Z. Ansari. (2007) Chemical inhibition of the TFIIH-associated kinase Cdk7/Kin28 does not impair global mRNA synthesis. Proceedings of the National Academy of Sciences 104:14, pages 5812-5817.
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Frédéric Coin & Jean Marc Egly. 2003. RNA Polymerases and Associated Factors, Part C. RNA Polymerases and Associated Factors, Part C 713 733 .
Sohail Malik & Robert G. Roeder. 2003. Handbook of Cell Signaling. Handbook of Cell Signaling 11 19 .
Arik Dvir. (2002) Promoter escape by RNA polymerase II. Biochimica et Biophysica Acta (BBA) - Gene Structure and Expression 1577:2, pages 208-223.
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Heather A Ferguson, Jennifer F Kugel & James A Goodrich. (2001) Kinetic and mechanistic analysis of the RNA polymerase II transcription reaction at the human interleukin-2 promoter. Journal of Molecular Biology 314:5, pages 993-1006.
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Jeffrey D. Parvin & Stephen F. Anderson. 2001. Leukocyte Recruitment, Endothelial Cell Adhesion Molecules, and Transcriptional Control. Leukocyte Recruitment, Endothelial Cell Adhesion Molecules, and Transcriptional Control 229 261 .
Jennifer F. Kugel & James A. Goodrich. (2000) A Kinetic Model for the Early Steps of RNA Synthesis by Human RNA Polymerase II. Journal of Biological Chemistry 275:51, pages 40483-40491.
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Brenda F Kahl, Han Li & Marvin R Paule. (2000) DNA melting and promoter clearance by eukaryotic RNA polymerase I 1 1Edited by R. Ebright. Journal of Molecular Biology 299:1, pages 75-89.
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Denis Ostapenko & Opher Gileadi. (2000) Rad25p, a DNA helicase subunit of yeast transcription factor TFIIH, is required for promoter escape in vivo. Gene 245:1, pages 109-117.
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Ming Yan & Jay D. Gralla. (1999) The Use of ATP and Initiating Nucleotides during Postrecruitment Steps at the Activated Adenovirus E4 Promoter. Journal of Biological Chemistry 274:49, pages 34819-34824.
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Philippe Frit, Etienne Bergmann & Jean-Marc Egly. (1999) Transcription factor IIH: A key player in the cellular response to DNA damage. Biochimie 81:1-2, pages 27-38.
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Gad Yagil, Frida Shimron & Michael Tal. (1998) DNA unwinding in the CYC1 and DED1 yeast promoters. Gene 225:1-2, pages 153-162.
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K. Prasanna Kumar, Sasha Akoulitchev & Danny Reinberg. (1998) Promoter-proximal stalling results from the inability to recruit transcription factor IIH to the transcription complex and is a regulated event. Proceedings of the National Academy of Sciences 95:17, pages 9767-9772.
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Jennifer F. Kugel & James A. Goodrich. (1998) Promoter escape limits the rate of RNA polymerase II transcription and is enhanced by TFIIE, TFIIH, and ATP on negatively supercoiled DNA. Proceedings of the National Academy of Sciences 95:16, pages 9232-9237.
Crossref
D. REINBERG, G. ORPHANIDES, R. EBRIGHT, S. AKOULITCHEV, J. CARCAMO, H. CHO, P. CORTES, R. DRAPKIN, O. FLORES, I. HA, J.A. INOSTROZA, S. KIM, T.-K. KIM, P. KUMAR, T. LAGRANGE, G. LEROY, H. LU, D.-M. MA, E. MALDONADO, A. MERINO, F. MERMELSTEIN, I. OLAVE, M. SHELDON, R. SHIEKHATTAR, N. STONE, X. SUN, L. WEIS, K. YEUNG & L. ZAWEL. (1998) The RNA Polymerase II General Transcription Factors: Past, Present, and Future. Cold Spring Harbor Symposia on Quantitative Biology 63:0, pages 83-105.
Crossref
Pilar Tijerina & Michael H. Sayre. (1998) A Debilitating Mutation in Transcription Factor IIE with Differential Effects on Gene Expression in Yeast. Journal of Biological Chemistry 273:2, pages 1107-1113.
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Vincent Moncollin, Paul Vichi & Jean-Marc Egly. 1998. DNA Damage and Repair. DNA Damage and Repair 143 159 .
Steven A. Brown & Robert E. Kingston. (1997) Disruption of downstream chromatin directed by a transcriptional activator. Genes & Development 11:23, pages 3116-3121.
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Hiroshi Sakurai & Toshio Fukasawa. (1997) Yeast Gal11 and Transcription Factor IIE Function through a Common Pathway in Transcriptional Regulation. Journal of Biological Chemistry 272:51, pages 32663-32669.
Crossref
Branden S. Wolner & Jay D. Gralla. (1997) Promoter Activation via a Cyclic AMP Response Element in Vitro. Journal of Biological Chemistry 272:51, pages 32301-32307.
Crossref
Susumu Inamoto, Neil Segil, Zhen-Qiang Pan, Makoto Kimura & Robert G. Roeder. (1997) The Cyclin-dependent Kinase-activating Kinase (CAK) Assembly Factor, MAT1, Targets and Enhances CAK Activity on the POU Domains of Octamer Transcription Factors. Journal of Biological Chemistry 272:47, pages 29852-29858.
Crossref
Marcel Tijsterman, Richard A. Verhage, Pieter van de Putte, Judith G. Tasseron-de Jong & Jaap Brouwer. (1997) Transitions in the coupling of transcription and nucleotide excision repair within RNA polymerase II-transcribed genes of Saccharomyces cerevisiae . Proceedings of the National Academy of Sciences 94:15, pages 8027-8032.
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A N Gerber, T R Klesert, D A Bergstrom & S J Tapscott. (1997) Two domains of MyoD mediate transcriptional activation of genes in repressive chromatin: a mechanism for lineage determination in myogenesis.. Genes & Development 11:4, pages 436-450.
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Camilo A. Parada & Robert G. Roeder. (1996) Enhanced processivity of RNA polymerase II triggered by Tat-induced phosphorylation of its carboxy-terminal domain. Nature 384:6607, pages 375-378.
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Jay D. Gralla. 1996. RNA Polymerase and Associated Factors Part A. RNA Polymerase and Associated Factors Part A 99 110 .

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