Literature DB >> 18411280

Control of the timing of promoter escape and RNA catalysis by the transcription factor IIb fingertip.

Khiem Tran1, Jay D Gralla.   

Abstract

Transcription factor IIB (TFIIB) recruits RNA polymerase II to promoters and inserts a finger domain into its active site, with unknown consequences. Here we show that that the tip of this finger is important for two transcription initiation functions. First, TFIIB acts as a catalytic cofactor for initial RNA bond formation. It does so via a pair of fingertip aspartates that can bind magnesium, placing TFIIB within a family of proteins that insert finger domains to alter the catalytic functions of RNA polymerase. Second, the TFIIB fingertip mediates the timing of the release of TFIIB that is associated with appropriate promoter escape. These initiation requirements may assist in RNA quality control by minimizing functional synthesis when RNA polymerase becomes inappropriately associated with the genome without having been recruited there by TFIIB.

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Year:  2008        PMID: 18411280      PMCID: PMC2414274          DOI: 10.1074/jbc.M801439200

Source DB:  PubMed          Journal:  J Biol Chem        ISSN: 0021-9258            Impact factor:   5.157


  43 in total

1.  A transcription reinitiation intermediate that is stabilized by activator.

Authors:  N Yudkovsky; J A Ranish; S Hahn
Journal:  Nature       Date:  2000-11-09       Impact factor: 49.962

2.  Molecular shapes of transcription factors TFIIB and VP16 in solution: implications for recognition.

Authors:  J G Grossmann; A J Sharff; P O'Hare; B Luisi
Journal:  Biochemistry       Date:  2001-05-29       Impact factor: 3.162

3.  Different phosphorylated forms of RNA polymerase II and associated mRNA processing factors during transcription.

Authors:  P Komarnitsky; E J Cho; S Buratowski
Journal:  Genes Dev       Date:  2000-10-01       Impact factor: 11.361

4.  UBF activates RNA polymerase I transcription by stimulating promoter escape.

Authors:  Kostya I Panov; J Karsten Friedrich; Jackie Russell; Joost C B M Zomerdijk
Journal:  EMBO J       Date:  2006-07-06       Impact factor: 11.598

5.  Region 3.2 of the sigma subunit contributes to the binding of the 3'-initiating nucleotide in the RNA polymerase active center and facilitates promoter clearance during initiation.

Authors:  Andrey Kulbachinskiy; Arkady Mustaev
Journal:  J Biol Chem       Date:  2006-05-10       Impact factor: 5.157

6.  Transcriptional noise and the fidelity of initiation by RNA polymerase II.

Authors:  Kevin Struhl
Journal:  Nat Struct Mol Biol       Date:  2007-02       Impact factor: 15.369

7.  The positions of TFIIF and TFIIE in the RNA polymerase II transcription preinitiation complex.

Authors:  Hung-Ta Chen; Linda Warfield; Steven Hahn
Journal:  Nat Struct Mol Biol       Date:  2007-07-15       Impact factor: 15.369

8.  TFB1 or TFB2 is sufficient for Thermococcus kodakaraensis viability and for basal transcription in vitro.

Authors:  Thomas J Santangelo; L'ubomíra Cubonová; Cindy L James; John N Reeve
Journal:  J Mol Biol       Date:  2006-12-30       Impact factor: 5.469

9.  A transcription-independent role for TFIIB in gene looping.

Authors:  Badri Nath Singh; Michael Hampsey
Journal:  Mol Cell       Date:  2007-09-07       Impact factor: 17.970

10.  Direct modulation of RNA polymerase core functions by basal transcription factors.

Authors:  Finn Werner; Robert O J Weinzierl
Journal:  Mol Cell Biol       Date:  2005-09       Impact factor: 4.272

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  15 in total

Review 1.  Rethinking the role of TFIIF in transcript initiation by RNA polymerase II.

Authors:  Donal S Luse
Journal:  Transcription       Date:  2012-07-01

2.  The TFIIB tip domain couples transcription initiation to events involved in RNA processing.

Authors:  Khiem Tran; Jay D Gralla
Journal:  J Biol Chem       Date:  2010-09-29       Impact factor: 5.157

3.  Transcription factor TFIIF is not required for initiation by RNA polymerase II, but it is essential to stabilize transcription factor TFIIB in early elongation complexes.

Authors:  Pavel Čabart; Andrea Újvári; Mahadeb Pal; Donal S Luse
Journal:  Proc Natl Acad Sci U S A       Date:  2011-09-06       Impact factor: 11.205

4.  TAF1B is a TFIIB-like component of the basal transcription machinery for RNA polymerase I.

Authors:  Srivatsava Naidu; J Karsten Friedrich; Jackie Russell; Joost C B M Zomerdijk
Journal:  Science       Date:  2011-09-16       Impact factor: 47.728

5.  Architecture of the yeast RNA polymerase II open complex and regulation of activity by TFIIF.

Authors:  James Fishburn; Steven Hahn
Journal:  Mol Cell Biol       Date:  2011-10-24       Impact factor: 4.272

6.  Minimal promoter systems reveal the importance of conserved residues in the B-finger of human transcription factor IIB.

Authors:  Nancy E Thompson; Bryan T Glaser; Katherine M Foley; Zachary F Burton; Richard R Burgess
Journal:  J Biol Chem       Date:  2009-07-09       Impact factor: 5.157

7.  Structure of an RNA polymerase II-TFIIB complex and the transcription initiation mechanism.

Authors:  Xin Liu; David A Bushnell; Dong Wang; Guillermo Calero; Roger D Kornberg
Journal:  Science       Date:  2009-11-12       Impact factor: 47.728

8.  Structure and function of the initially transcribing RNA polymerase II-TFIIB complex.

Authors:  Sarah Sainsbury; Jürgen Niesser; Patrick Cramer
Journal:  Nature       Date:  2012-11-14       Impact factor: 49.962

Review 9.  RNA polymerase II transcription: structure and mechanism.

Authors:  Xin Liu; David A Bushnell; Roger D Kornberg
Journal:  Biochim Biophys Acta       Date:  2012-09-18

Review 10.  Promoter clearance by RNA polymerase II.

Authors:  Donal S Luse
Journal:  Biochim Biophys Acta       Date:  2012-09-06
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