TFIIB is only ∼9 Å away from the 5'-end of a trimeric RNA primer in a functional RNA polymerase II preinitiation complex

PloS One
Matthew J BickSeth A Darst

Abstract

Recent X-ray crystallographic studies of Pol II in complex with the general transcription factor (GTF) IIB have begun to provide insights into the mechanism of transcription initiation. These structures have also shed light on the architecture of the transcription preinitiation complex (PIC). However, structural characterization of a functional PIC is still lacking, and even the topological arrangement of the GTFs in the Pol II complex is a matter of contention. We have extended our activity-based affinity crosslinking studies, initially developed to investigate the interaction of bacterial RNA polymerase with σ, to the eukaryotic transcription machinery. Towards that end, we sought to identify GTFs that are within the Pol II active site in a functioning PIC. We provide biochemical evidence that TFIIB is located within ∼9 Å of the -2 site of promoter DNA, where it is positioned to play a role in de novo transcription initiation.

References

Jun 1, 1992·Journal of Bacteriology·M LonettoC A Gross
Jan 1, 1989·Molecular & General Genetics : MGG·R S JokerstA L Greenleaf
Jan 6, 1986·FEBS Letters·M C Schmidt, M M Hanna
Mar 1, 1987·Proceedings of the National Academy of Sciences of the United States of America·D SweetserR A Young
Sep 14, 1995·Nature·D B NikolovS K Burley
Apr 11, 1995·Proceedings of the National Academy of Sciences of the United States of America·Z W Sun, M Hampsey
Oct 1, 1993·Molecular and Cellular Biology·S MalikR G Roeder
Sep 1, 1996·Trends in Biochemical Sciences·R G Roeder
Apr 16, 1998·Proceedings of the National Academy of Sciences of the United States of America·S MalikR G Roeder
Aug 26, 1998·Proceedings of the National Academy of Sciences of the United States of America·K P KumarD Reinberg
Feb 7, 2001·Proceedings of the National Academy of Sciences of the United States of America·L MinakhinK Severinov
Apr 5, 2002·Molecular Cell·Elizabeth A CampbellSeth A Darst
May 10, 2002·Nature·Dmitry G VassylyevShigeyuki Yokoyama
Oct 7, 2003·Annual Review of Microbiology·Tanja M Gruber, Carol A Gross
Oct 29, 2003·Molecular Cell·Wen-Hsiang ChungFrancisco J Asturias
Nov 25, 2003·Methods in Enzymology·Sohail Malik, Robert G Roeder
Oct 19, 2005·Genes & Development·Wensheng Deng, Stefan G E Roberts
Jul 25, 2006·Critical Reviews in Biochemistry and Molecular Biology·Mary C Thomas, Cheng-Ming Chiang
Jul 17, 2007·Nature Structural & Molecular Biology·Hung-Ta ChenSteven Hahn
Aug 3, 2007·Proceedings of the National Academy of Sciences of the United States of America·Roger D Kornberg
May 5, 2009·Current Opinion in Cell Biology·Timothy W Sikorski, Stephen Buratowski
Jul 11, 2009·The Journal of Biological Chemistry·Nancy E ThompsonRichard R Burgess
Nov 10, 2009·Journal of Molecular Biology·William J Lane, Seth A Darst

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Citations

Aug 14, 2018·Nucleic Acids Research·Stefan DexlMichael Thomm
May 27, 2017·Science·Andrey FeklistovSeth A Darst
Mar 5, 2020·Proceedings of the National Academy of Sciences of the United States of America·Lingting LiYu Zhang

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Methods Mentioned

BETA
X-ray
electrophoresis
crosslinking studies

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