Published in Mol Cell on July 01, 2005
Direct observation of base-pair stepping by RNA polymerase. Nature (2005) 6.29
Initial transcription by RNA polymerase proceeds through a DNA-scrunching mechanism. Science (2006) 4.36
Abortive initiation and productive initiation by RNA polymerase involve DNA scrunching. Science (2006) 3.76
Genome-wide structure and organization of eukaryotic pre-initiation complexes. Nature (2012) 3.58
The positions of TFIIF and TFIIE in the RNA polymerase II transcription preinitiation complex. Nat Struct Mol Biol (2007) 3.00
RNA polymerase II-TFIIB structure and mechanism of transcription initiation. Nature (2009) 2.98
Pol II waiting in the starting gates: Regulating the transition from transcription initiation into productive elongation. Biochim Biophys Acta (2010) 2.86
Structure of an RNA polymerase II-TFIIB complex and the transcription initiation mechanism. Science (2009) 2.43
A DNA-tethered cleavage probe reveals the path for promoter DNA in the yeast preinitiation complex. Nat Struct Mol Biol (2006) 2.13
Getting up to speed with transcription elongation by RNA polymerase II. Nat Rev Mol Cell Biol (2015) 1.97
Structural visualization of key steps in human transcription initiation. Nature (2013) 1.91
Structure of promoter-bound TFIID and model of human pre-initiation complex assembly. Nature (2016) 1.81
RNA polymerase II acts as an RNA-dependent RNA polymerase to extend and destabilize a non-coding RNA. EMBO J (2013) 1.68
B2 RNA and Alu RNA repress transcription by disrupting contacts between RNA polymerase II and promoter DNA within assembled complexes. Proc Natl Acad Sci U S A (2009) 1.65
Single-molecule tracking of mRNA exiting from RNA polymerase II. Proc Natl Acad Sci U S A (2007) 1.59
TFIIB and the regulation of transcription by RNA polymerase II. Chromosoma (2007) 1.53
Architecture of an RNA polymerase II transcription pre-initiation complex. Science (2013) 1.52
Structure and function of the initially transcribing RNA polymerase II-TFIIB complex. Nature (2012) 1.48
Cooperative assembly of IFI16 filaments on dsDNA provides insights into host defense strategy. Proc Natl Acad Sci U S A (2013) 1.43
Structural insights into transcription initiation by RNA polymerase II. Trends Biochem Sci (2013) 1.27
Kinetic competition between elongation rate and binding of NELF controls promoter-proximal pausing. Mol Cell (2013) 1.19
Structure-function analysis of the RNA polymerase cleft loops elucidates initial transcription, DNA unwinding and RNA displacement. Nucleic Acids Res (2007) 1.17
Initiation complex structure and promoter proofreading. Science (2011) 1.13
Near-atomic resolution visualization of human transcription promoter opening. Nature (2016) 1.12
Phosphorylation of TFIIB links transcription initiation and termination. Curr Biol (2010) 1.12
Identification of a regulator of transcription elongation as an accessory factor for the human Mediator coactivator. Proc Natl Acad Sci U S A (2007) 1.10
TAF1B is a TFIIB-like component of the basal transcription machinery for RNA polymerase I. Science (2011) 1.05
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. Proc Natl Acad Sci U S A (2011) 1.05
Real-time observation of the initiation of RNA polymerase II transcription. Nature (2015) 1.04
Control of the timing of promoter escape and RNA catalysis by the transcription factor IIb fingertip. J Biol Chem (2008) 1.02
RNA polymerase II transcription: structure and mechanism. Biochim Biophys Acta (2012) 1.01
Crystal Structure of a Transcribing RNA Polymerase II Complex Reveals a Complete Transcription Bubble. Mol Cell (2015) 1.01
Mediator-regulated transcription through the +1 nucleosome. Mol Cell (2012) 0.97
Efficient and rapid nucleosome traversal by RNA polymerase II depends on a combination of transcript elongation factors. J Biol Chem (2010) 0.97
Measuring spatial preferences at fine-scale resolution identifies known and novel cis-regulatory element candidates and functional motif-pair relationships. Nucleic Acids Res (2009) 0.96
RNA G-Quadruplexes in the model plant species Arabidopsis thaliana: prevalence and possible functional roles. Nucleic Acids Res (2010) 0.92
Cap completion and C-terminal repeat domain kinase recruitment underlie the initiation-elongation transition of RNA polymerase II. Mol Cell Biol (2013) 0.91
Single-molecule studies of transcription: from one RNA polymerase at a time to the gene expression profile of a cell. J Mol Biol (2011) 0.91
APOBEC3A and APOBEC3B Preferentially Deaminate the Lagging Strand Template during DNA Replication. Cell Rep (2016) 0.90
The RNA polymerase trigger loop functions in all three phases of the transcription cycle. Nucleic Acids Res (2013) 0.90
An 8 nt RNA triggers a rate-limiting shift of RNA polymerase II complexes into elongation. EMBO J (2006) 0.90
Crosslink Mapping at Amino Acid-Base Resolution Reveals the Path of Scrunched DNA in Initial Transcribing Complexes. Mol Cell (2015) 0.90
BRCA1 Regulates IFI16 Mediated Nuclear Innate Sensing of Herpes Viral DNA and Subsequent Induction of the Innate Inflammasome and Interferon-β Responses. PLoS Pathog (2015) 0.89
The functions of TFIIF during initiation and transcript elongation are differentially affected by phosphorylation by casein kinase 2. J Biol Chem (2011) 0.88
Transcription of in vitro assembled chromatin templates in a highly purified RNA polymerase II system. Methods (2009) 0.86
TATA-binding protein and transcription factor IIB induce transcript slipping during early transcription by RNA polymerase II. J Biol Chem (2009) 0.85
New insights into the mechanism of initial transcription: the T7 RNA polymerase mutant P266L transitions to elongation at longer RNA lengths than wild type. J Biol Chem (2012) 0.85
Promoter clearance by RNA polymerase II. Biochim Biophys Acta (2012) 0.85
Rethinking the role of TFIIF in transcript initiation by RNA polymerase II. Transcription (2012) 0.84
Inactivated RNA polymerase II open complexes can be reactivated with TFIIE. J Biol Chem (2011) 0.84
Uncoupling Promoter Opening from Start-Site Scanning. Mol Cell (2015) 0.84
Activation and reactivation of the RNA polymerase II trigger loop for intrinsic RNA cleavage and catalysis. Transcription (2014) 0.84
Insights into the mechanism of initial transcription in Escherichia coli RNA polymerase. J Biol Chem (2013) 0.83
New insights into the role of TFIIB in transcription initiation. Transcription (2010) 0.81
Functional interactions of the RNA polymerase II-interacting proteins Gdown1 and TFIIF. J Biol Chem (2014) 0.79
Emergence and expansion of TFIIB-like factors in the plant kingdom. Gene (2013) 0.79
Studying DNA-protein interactions with single-molecule Förster resonance energy transfer. Protoplasma (2013) 0.78
The RNA polymerase II preinitiation complex. Through what pathway is the complex assembled? Transcription (2014) 0.77
What have single-molecule studies taught us about gene expression? Genes Dev (2016) 0.76
Gdown1 Associates Efficiently with RNA Polymerase II after Promoter Clearance and Displaces TFIIF during Transcript Elongation. PLoS One (2016) 0.75
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 (2015) 0.75
Transcription Start Site Scanning and the Requirement for ATP during Transcription Initiation by RNA Polymerase II. J Biol Chem (2016) 0.75
Nucleosomes can form a polar barrier to transcript elongation by RNA polymerase II. Mol Cell (2006) 2.92
RNA emerging from the active site of RNA polymerase II interacts with the Rpb7 subunit. Nat Struct Mol Biol (2005) 1.48
RNA polymerase II transcription complexes may become arrested if the nascent RNA is shortened to less than 50 nucleotides. J Biol Chem (2002) 1.27
Amino acid substitutions in yeast TFIIF confer upstream shifts in transcription initiation and altered interaction with RNA polymerase II. Mol Cell Biol (2004) 1.26
Mechanism of transcription through a nucleosome by RNA polymerase II. Biochim Biophys Acta (2012) 1.19
Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation. PLoS One (2008) 1.16
Histone Sin mutations promote nucleosome traversal and histone displacement by RNA polymerase II. EMBO Rep (2010) 1.15
Functions of Saccharomyces cerevisiae TFIIF during transcription start site utilization. Mol Cell Biol (2008) 1.12
Strong natural pausing by RNA polymerase II within 10 bases of transcription start may result in repeated slippage and reextension of the nascent RNA. Mol Cell Biol (2002) 1.12
Yeast RNA polymerase II lacking the Rpb9 subunit is impaired for interaction with transcription factor IIF. J Biol Chem (2003) 1.09
Histone N-terminal tails interfere with nucleosome traversal by RNA polymerase II. J Biol Chem (2008) 1.06
Newly Initiated RNA encounters a factor involved in splicing immediately upon emerging from within RNA polymerase II. J Biol Chem (2004) 1.06
A functional role for the switch 2 region of yeast RNA polymerase II in transcription start site utilization and abortive initiation. J Biol Chem (2005) 1.06
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. Proc Natl Acad Sci U S A (2011) 1.05
The initiation-elongation transition: lateral mobility of RNA in RNA polymerase II complexes is greatly reduced at +8/+9 and absent by +23. Proc Natl Acad Sci U S A (2003) 1.03
Characterization of a novel RNA polymerase II arrest site which lacks a weak 3' RNA-DNA hybrid. Nucleic Acids Res (2004) 0.97
Transcription factors IIS and IIF enhance transcription efficiency by differentially modifying RNA polymerase pausing dynamics. Proc Natl Acad Sci U S A (2014) 0.89
The functions of TFIIF during initiation and transcript elongation are differentially affected by phosphorylation by casein kinase 2. J Biol Chem (2011) 0.88
Genetic interactions between TFIIF and TFIIS. Genetics (2006) 0.85
Evidence that RNA polymerase II and not TFIIB is responsible for the difference in transcription initiation patterns between Saccharomyces cerevisiae and Schizosaccharomyces pombe. Nucleic Acids Res (2012) 0.85
Inactivated RNA polymerase II open complexes can be reactivated with TFIIE. J Biol Chem (2011) 0.84
Yeast and Human RNA polymerase II elongation complexes: evidence for functional differences and postinitiation recruitment of factors. Eukaryot Cell (2003) 0.81
Improved methods for expression and purification of Saccharomyces cerevisiae TFIIF and TFIIH; identification of a functional Escherichia coli promoter and internal translation initiation within the N-terminal coding region of the TFIIF TFG1 subunit. Protein Expr Purif (2009) 0.81
Functional interactions of the RNA polymerase II-interacting proteins Gdown1 and TFIIF. J Biol Chem (2014) 0.79