Published in Nature on July 08, 2004
Progression through the RNA polymerase II CTD cycle. Mol Cell (2009) 5.62
Molecular architecture of the human pre-mRNA 3' processing complex. Mol Cell (2009) 3.52
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"Cotranscriptionality": the transcription elongation complex as a nexus for nuclear transactions. Mol Cell (2009) 3.28
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Yeast Sen1 helicase protects the genome from transcription-associated instability. Mol Cell (2011) 2.59
The RNA polymerase II CTD coordinates transcription and RNA processing. Genes Dev (2012) 2.55
The Spt6 SH2 domain binds Ser2-P RNAPII to direct Iws1-dependent mRNA splicing and export. Genes Dev (2007) 2.36
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CTD-dependent dismantling of the RNA polymerase II elongation complex by the pre-mRNA 3'-end processing factor, Pcf11. Genes Dev (2005) 1.73
Determinants for dephosphorylation of the RNA polymerase II C-terminal domain by Scp1. Mol Cell (2006) 1.71
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Rtr1 is a CTD phosphatase that regulates RNA polymerase II during the transition from serine 5 to serine 2 phosphorylation. Mol Cell (2009) 1.68
Structural insights to how mammalian capping enzyme reads the CTD code. Mol Cell (2011) 1.64
Threonine-4 of mammalian RNA polymerase II CTD is targeted by Polo-like kinase 3 and required for transcriptional elongation. EMBO J (2012) 1.55
Solution structure of the Set2-Rpb1 interacting domain of human Set2 and its interaction with the hyperphosphorylated C-terminal domain of Rpb1. Proc Natl Acad Sci U S A (2005) 1.49
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Mutations in UVSSA cause UV-sensitive syndrome and destabilize ERCC6 in transcription-coupled DNA repair. Nat Genet (2012) 1.42
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Functional coupling of last-intron splicing and 3'-end processing to transcription in vitro: the poly(A) signal couples to splicing before committing to cleavage. Mol Cell Biol (2007) 1.33
Direct interactions between the Paf1 complex and a cleavage and polyadenylation factor are revealed by dissociation of Paf1 from RNA polymerase II. Eukaryot Cell (2008) 1.32
Cooperative interaction of transcription termination factors with the RNA polymerase II C-terminal domain. Nat Struct Mol Biol (2010) 1.32
Ssu72 phosphatase-dependent erasure of phospho-Ser7 marks on the RNA polymerase II C-terminal domain is essential for viability and transcription termination. J Biol Chem (2012) 1.30
RNA polymerase II transcription elongation control. Chem Rev (2013) 1.27
Exploring the binding diversity of intrinsically disordered proteins involved in one-to-many binding. Protein Sci (2013) 1.23
The transcriptional coactivator PC4/Sub1 has multiple functions in RNA polymerase II transcription. EMBO J (2005) 1.22
Pin1 modulates RNA polymerase II activity during the transcription cycle. Genes Dev (2007) 1.20
Novel protein folds and their nonsequential structural analogs. Protein Sci (2008) 1.19
RNA polymerase II C-terminal heptarepeat domain Ser-7 phosphorylation is established in a mediator-dependent fashion. J Biol Chem (2009) 1.12
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Polyadenylation releases mRNA from RNA polymerase II in a process that is licensed by splicing. RNA (2009) 1.06
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Genes involved in pre-mRNA 3'-end formation and transcription termination revealed by a lin-15 operon Muv suppressor screen. Proc Natl Acad Sci U S A (2008) 1.05
Molecular basis for coordinating transcription termination with noncoding RNA degradation. Mol Cell (2014) 1.03
Mechanism for Aar2p function as a U5 snRNP assembly factor. Genes Dev (2011) 1.01
Structural and kinetic analysis of prolyl-isomerization/phosphorylation cross-talk in the CTD code. ACS Chem Biol (2012) 1.01
Serine phosphorylation and proline isomerization in RNAP II CTD control recruitment of Nrd1. Genes Dev (2012) 1.00
The spt5 C-terminal region recruits yeast 3' RNA cleavage factor I. Mol Cell Biol (2012) 0.99
Control of the RNA polymerase II phosphorylation state in promoter regions by CTD interaction domain-containing proteins RPRD1A and RPRD1B. Transcription (2012) 0.99
Delineating the structural blueprint of the pre-mRNA 3'-end processing machinery. Mol Cell Biol (2014) 0.96
Complete determination of the Pin1 catalytic domain thermodynamic cycle by NMR lineshape analysis. J Biomol NMR (2011) 0.94
Structural biology of poly(A) site definition. Wiley Interdiscip Rev RNA (2011) 0.94
Nuclear pre-mRNA 3'-end processing regulates synapse and axon development in C. elegans. Development (2010) 0.94
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A genetic screen for terminator function in yeast identifies a role for a new functional domain in termination factor Nab3. Nucleic Acids Res (2012) 0.91
Cap completion and C-terminal repeat domain kinase recruitment underlie the initiation-elongation transition of RNA polymerase II. Mol Cell Biol (2013) 0.91
Structural basis for Spt5-mediated recruitment of the Paf1 complex to chromatin. Proc Natl Acad Sci U S A (2013) 0.91
Crystal structure of the HEAT domain from the Pre-mRNA processing factor Symplekin. J Mol Biol (2009) 0.91
Terminate and make a loop: regulation of transcriptional directionality. Trends Biochem Sci (2014) 0.91
The structure of the Candida albicans Ess1 prolyl isomerase reveals a well-ordered linker that restricts domain mobility. Biochemistry (2005) 0.90
Recruitment of mRNA cleavage/polyadenylation machinery by the yeast chromatin protein Sin1p/Spt2p. Proc Natl Acad Sci U S A (2006) 0.90
RPRD1A and RPRD1B are human RNA polymerase II C-terminal domain scaffolds for Ser5 dephosphorylation. Nat Struct Mol Biol (2014) 0.90
Structural analysis and dimerization potential of the human TAF5 subunit of TFIID. Proc Natl Acad Sci U S A (2007) 0.90
Cajal bodies are linked to genome conformation. Nat Commun (2016) 0.89
Structure and biological importance of the Spn1-Spt6 interaction, and its regulatory role in nucleosome binding. Mol Cell (2010) 0.89
RNA polymerase II CTD phosphopeptides compete with RNA for the interaction with Pcf11. RNA (2006) 0.88
RNA polymerase II termination involves C-terminal-domain tyrosine dephosphorylation by CPF subunit Glc7. Nat Struct Mol Biol (2014) 0.87
The exosome component Rrp6 is required for RNA polymerase II termination at specific targets of the Nrd1-Nab3 pathway. PLoS Genet (2015) 0.87
novel modifications on C-terminal domain of RNA polymerase II can fine-tune the phosphatase activity of Ssu72. ACS Chem Biol (2013) 0.86
Reconstitution of CF IA from overexpressed subunits reveals stoichiometry and provides insights into molecular topology. Biochemistry (2011) 0.86
Heterochromatin protein 1 gamma and IκB kinase alpha interdependence during tumour necrosis factor gene transcription elongation in activated macrophages. Nucleic Acids Res (2012) 0.86
The RNA polymerase II C-terminal domain-interacting domain of yeast Nrd1 contributes to the choice of termination pathway and couples to RNA processing by the nuclear exosome. J Biol Chem (2013) 0.85
Overlapping enhancer/promoter and transcriptional termination signals in the lentiviral long terminal repeat. Retrovirology (2007) 0.84
A conserved ncRNA-binding protein recruits silencing factors to heterochromatin through an RNAi-independent mechanism. Genes Dev (2013) 0.84
The Ess1 prolyl isomerase: traffic cop of the RNA polymerase II transcription cycle. Biochim Biophys Acta (2014) 0.84
The C-terminal domain of Rpb1 functions on other RNA polymerase II subunits. Mol Cell (2013) 0.83
Fcp1 dephosphorylation of the RNA polymerase II C-terminal domain is required for efficient transcription of heat shock genes. Mol Cell Biol (2012) 0.83
Tyrosine-1 and threonine-4 phosphorylation marks complete the RNA polymerase II CTD phospho-code. RNA Biol (2012) 0.82
Coupled RNA polymerase II transcription and 3' end formation with yeast whole-cell extracts. RNA (2010) 0.81
Termination of Transcription of Short Noncoding RNAs by RNA Polymerase II. Annu Rev Biochem (2015) 0.81
Rct1, a nuclear RNA recognition motif-containing cyclophilin, regulates phosphorylation of the RNA polymerase II C-terminal domain. Mol Cell Biol (2007) 0.81
UVSSA and USP7, a new couple in transcription-coupled DNA repair. Chromosoma (2013) 0.81
Evolution of the genetic code by incorporation of amino acids that improved or changed protein function. J Mol Evol (2013) 0.81
Pcf11 orchestrates transcription termination pathways in yeast. Genes Dev (2015) 0.79
A phosphorylation pattern-recognizing antibody specifically reacts to RNA polymerase II bound to exons. Exp Mol Med (2016) 0.78
Activation of a novel ubiquitin-independent proteasome pathway when RNA polymerase II encounters a protein roadblock. Mol Cell Biol (2013) 0.78
New links between mRNA polyadenylation and diverse nuclear pathways. Mol Cells (2014) 0.77
Proteomics studies of the interactome of RNA polymerase II C-terminal repeated domain. BMC Res Notes (2015) 0.77
Bio-molecular architects: a scaffold provided by the C-terminal domain of eukaryotic RNA polymerase II. Nano Rev (2010) 0.77
Architecture and RNA binding of the human negative elongation factor. Elife (2016) 0.77
The Nrd1-like protein Seb1 coordinates cotranscriptional 3' end processing and polyadenylation site selection. Genes Dev (2016) 0.76
Context-dependent modulation of Pol II CTD phosphatase SSUP-72 regulates alternative polyadenylation in neuronal development. Genes Dev (2015) 0.76
Cross-talk of phosphorylation and prolyl isomerization of the C-terminal domain of RNA Polymerase II. Molecules (2014) 0.76
Polyadenylation site selection: linking transcription and RNA processing via a conserved carboxy-terminal domain (CTD)-interacting protein. Curr Genet (2016) 0.76
Systematic identification of phosphorylation-mediated protein interaction switches. PLoS Comput Biol (2017) 0.75
Cysteine-Rich Atrial Secretory Protein from the Snail Achatina achatina: Purification and Structural Characterization. PLoS One (2015) 0.75
Paf1 Has Distinct Roles in Transcription Elongation and Differential Transcript Fate. Mol Cell (2017) 0.75
The conserved protein Seb1 drives transcription termination by binding RNA polymerase II and nascent RNA. Nat Commun (2017) 0.75
The Drosophila retinoblastoma binding protein 6 family member has two isoforms and is potentially involved in embryonic patterning. Int J Mol Sci (2015) 0.75
Complete RNA polymerase II elongation complex structure and its interactions with NTP and TFIIS. Mol Cell (2004) 4.20
Architecture of the RNA polymerase II-TFIIF complex revealed by cross-linking and mass spectrometry. EMBO J (2010) 3.40
Architecture of the RNA polymerase II-TFIIS complex and implications for mRNA cleavage. Cell (2003) 3.30
Uniform transitions of the general RNA polymerase II transcription complex. Nat Struct Mol Biol (2010) 3.25
RNA polymerase II-TFIIB structure and mechanism of transcription initiation. Nature (2009) 2.98
Functional architecture of RNA polymerase I. Cell (2007) 2.86
A structural perspective of CTD function. Genes Dev (2005) 2.85
Structures of complete RNA polymerase II and its subcomplex, Rpb4/7. J Biol Chem (2004) 2.52
Structural basis of transcription inhibition by alpha-amanitin and implications for RNA polymerase II translocation. Nat Struct Mol Biol (2008) 2.47
Architecture of initiation-competent 12-subunit RNA polymerase II. Proc Natl Acad Sci U S A (2003) 2.39
Dynamic transcriptome analysis measures rates of mRNA synthesis and decay in yeast. Mol Syst Biol (2011) 2.37
Structural basis of transcription: alpha-amanitin-RNA polymerase II cocrystal at 2.8 A resolution. Proc Natl Acad Sci U S A (2002) 2.37
Architecture of the RNA polymerase-Spt4/5 complex and basis of universal transcription processivity. EMBO J (2011) 2.22
Structural basis of RNA polymerase II backtracking, arrest and reactivation. Nature (2011) 2.19
CTD tyrosine phosphorylation impairs termination factor recruitment to RNA polymerase II. Science (2012) 2.05
Structural basis of transcription: mismatch-specific fidelity mechanisms and paused RNA polymerase II with frayed RNA. Mol Cell (2009) 2.00
Mechanism of translesion transcription by RNA polymerase II and its role in cellular resistance to DNA damage. Mol Cell (2012) 1.96
Iwr1 directs RNA polymerase II nuclear import. Mol Cell (2011) 1.88
Conservation between the RNA polymerase I, II, and III transcription initiation machineries. Mol Cell (2012) 1.86
A nano-positioning system for macromolecular structural analysis. Nat Methods (2008) 1.84
Structure of human mitochondrial RNA polymerase. Nature (2011) 1.82
CPD damage recognition by transcribing RNA polymerase II. Science (2007) 1.80
A cytoplasmic complex mediates specific mRNA recognition and localization in yeast. PLoS Biol (2011) 1.78
Comparative dynamic transcriptome analysis (cDTA) reveals mutual feedback between mRNA synthesis and degradation. Genome Res (2012) 1.77
RNA polymerase fidelity and transcriptional proofreading. Curr Opin Struct Biol (2009) 1.77
Molecular basis of RNA-dependent RNA polymerase II activity. Nature (2007) 1.71
Structure of an archaeal RNA polymerase. J Mol Biol (2007) 1.65
Single-molecule tracking of mRNA exiting from RNA polymerase II. Proc Natl Acad Sci U S A (2007) 1.59
Molecular basis of RNA polymerase III transcription repression by Maf1. Cell (2010) 1.57
Structure of a bifunctional DNA primase-polymerase. Nat Struct Mol Biol (2004) 1.52
Structure and function of the initially transcribing RNA polymerase II-TFIIB complex. Nature (2012) 1.48
Structure and mechanism of RNA polymerase II CTD phosphatases. Mol Cell (2004) 1.46
Transcriptome surveillance by selective termination of noncoding RNA synthesis. Cell (2013) 1.43
Structure and TBP binding of the Mediator head subcomplex Med8-Med18-Med20. Nat Struct Mol Biol (2006) 1.43
RNA polymerase I structure and transcription regulation. Nature (2013) 1.42
RNA polymerase I contains a TFIIF-related DNA-binding subcomplex. Mol Cell (2010) 1.40
Structural biology of RNA polymerase III: subcomplex C17/25 X-ray structure and 11 subunit enzyme model. Mol Cell (2006) 1.39
Spt4/5 stimulates transcription elongation through the RNA polymerase clamp coiled-coil motif. Nucleic Acids Res (2010) 1.38
Global analysis of eukaryotic mRNA degradation reveals Xrn1-dependent buffering of transcript levels. Mol Cell (2013) 1.35
Mechanism of transcriptional stalling at cisplatin-damaged DNA. Nat Struct Mol Biol (2007) 1.32
Nano positioning system reveals the course of upstream and nontemplate DNA within the RNA polymerase II elongation complex. Nucleic Acids Res (2009) 1.32
Structural basis of initial RNA polymerase II transcription. EMBO J (2011) 1.29
Structural biology of RNA polymerase III: mass spectrometry elucidates subcomplex architecture. Structure (2007) 1.19
A conserved mediator hinge revealed in the structure of the MED7.MED21 (Med7.Srb7) heterodimer. J Biol Chem (2005) 1.17
Structure of the Mediator head module. Nature (2012) 1.17
Structure-function analysis of the RNA polymerase cleft loops elucidates initial transcription, DNA unwinding and RNA displacement. Nucleic Acids Res (2007) 1.17
Crosslinking-MS analysis reveals RNA polymerase I domain architecture and basis of rRNA cleavage. Nucleic Acids Res (2012) 1.17
A movie of RNA polymerase II transcription. Cell (2012) 1.17
A movie of the RNA polymerase nucleotide addition cycle. Curr Opin Struct Biol (2009) 1.17
Structure and in vivo requirement of the yeast Spt6 SH2 domain. J Mol Biol (2009) 1.16
Identification, structure, and functional requirement of the Mediator submodule Med7N/31. EMBO J (2008) 1.14
Structure of an RNA polymerase II-RNA inhibitor complex elucidates transcription regulation by noncoding RNAs. Nat Struct Mol Biol (2005) 1.14
Structure and carboxyl-terminal domain (CTD) binding of the Set2 SRI domain that couples histone H3 Lys36 methylation to transcription. J Biol Chem (2005) 1.14
Template misalignment in multisubunit RNA polymerases and transcription fidelity. Mol Cell (2006) 1.13
An extended winged helix domain in general transcription factor E/IIE alpha. J Biol Chem (2003) 1.13
A structural perspective on Mediator function. Curr Opin Cell Biol (2012) 1.13
The phosphatidylserine receptor from Hydra is a nuclear protein with potential Fe(II) dependent oxygenase activity. BMC Cell Biol (2004) 1.10
Periodic mRNA synthesis and degradation co-operate during cell cycle gene expression. Mol Syst Biol (2014) 1.10
Molecular basis of Rrn3-regulated RNA polymerase I initiation and cell growth. Genes Dev (2011) 1.09
Structural basis of transcription elongation. Biochim Biophys Acta (2012) 1.09
Structure and VP16 binding of the Mediator Med25 activator interaction domain. Nat Struct Mol Biol (2011) 1.08
Genome-associated RNA polymerase II includes the dissociable Rpb4/7 subcomplex. J Biol Chem (2008) 1.08
Fluorescence detection of nucleic acids and proteins in multi-component crystals. Acta Crystallogr D Biol Crystallogr (2006) 1.07
Structure of human mitochondrial RNA polymerase elongation complex. Nat Struct Mol Biol (2013) 1.06
Torpedo nuclease Rat1 is insufficient to terminate RNA polymerase II in vitro. J Biol Chem (2009) 1.05
Molecular basis of transcriptional mutagenesis at 8-oxoguanine. J Biol Chem (2009) 1.04
The mRNA transcription/processing factor Ssu72 is a potential tyrosine phosphatase. J Biol Chem (2003) 1.03
Structure-system correlation identifies a gene regulatory Mediator submodule. Genes Dev (2008) 1.03
Dynamic architecture of a minimal RNA polymerase II open promoter complex. Mol Cell (2012) 1.01
A tandem SH2 domain in transcription elongation factor Spt6 binds the phosphorylated RNA polymerase II C-terminal repeat domain (CTD). J Biol Chem (2010) 1.00
The spt5 C-terminal region recruits yeast 3' RNA cleavage factor I. Mol Cell Biol (2012) 0.99
Multisubunit RNA polymerases melt only a single DNA base pair downstream of the active site. J Biol Chem (2007) 0.99
Model of the Mediator middle module based on protein cross-linking. Nucleic Acids Res (2013) 0.98
A novel intermediate in transcription initiation by human mitochondrial RNA polymerase. Nucleic Acids Res (2014) 0.98
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Mediator head subcomplex Med11/22 contains a common helix bundle building block with a specific function in transcription initiation complex stabilization. Nucleic Acids Res (2011) 0.96
RNA polymerase III subunit architecture and implications for open promoter complex formation. Proc Natl Acad Sci U S A (2012) 0.96
A conformational switch underlies ClpP protease function. Angew Chem Int Ed Engl (2011) 0.96
Preparation and topology of the Mediator middle module. Nucleic Acids Res (2010) 0.95
The transcription elongation factor Bur1-Bur2 interacts with replication protein A and maintains genome stability during replication stress. J Biol Chem (2010) 0.94
Site specific phosphorylation of yeast RNA polymerase I. Nucleic Acids Res (2007) 0.94
Biogenesis of multisubunit RNA polymerases. Trends Biochem Sci (2012) 0.94
Structure-function studies of the RNA polymerase II elongation complex. Acta Crystallogr D Biol Crystallogr (2009) 0.93
Multiplexed proteomics mapping of yeast RNA polymerase II and III allows near-complete sequence coverage and reveals several novel phosphorylation sites. Anal Chem (2008) 0.93
Measurement of genome-wide RNA synthesis and decay rates with Dynamic Transcriptome Analysis (DTA). Bioinformatics (2012) 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
The RNA polymerase trigger loop functions in all three phases of the transcription cycle. Nucleic Acids Res (2013) 0.90
Drosophila miR-277 controls branched-chain amino acid catabolism and affects lifespan. RNA Biol (2013) 0.89
The dynamic machinery of mRNA elongation. Curr Opin Struct Biol (2005) 0.89
MC EMiNEM maps the interaction landscape of the Mediator. PLoS Comput Biol (2012) 0.87
Recruitment of TREX to the transcription machinery by its direct binding to the phospho-CTD of RNA polymerase II. PLoS Genet (2013) 0.87
Proteins: how RNA polymerases work. Curr Opin Struct Biol (2009) 0.86
Mediator phosphorylation prevents stress response transcription during non-stress conditions. J Biol Chem (2012) 0.85
BRF1 mutations alter RNA polymerase III-dependent transcription and cause neurodevelopmental anomalies. Genome Res (2015) 0.85
DNA photodamage recognition by RNA polymerase II. FEBS Lett (2007) 0.85
The archaeal RNA polymerase subunit P and the eukaryotic polymerase subunit Rpb12 are interchangeable in vivo and in vitro. Mol Microbiol (2008) 0.85
The RNA polymerase II C-terminal domain-interacting domain of yeast Nrd1 contributes to the choice of termination pathway and couples to RNA processing by the nuclear exosome. J Biol Chem (2013) 0.85
The archaeo-eukaryotic primase of plasmid pRN1 requires a helix bundle domain for faithful primer synthesis. Nucleic Acids Res (2010) 0.84