The code and beyond: transcription regulation by the RNA polymerase II carboxy-terminal domain

Distributive O-GlcNAcylation on the Highly Repetitive C-Terminal Domain of RNA Polymerase II

(2016) Lei Lu et al.   BIOCHEMISTRY

Splicing of Nascent RNA Coincides with Intron Exit from RNA Polymerase II

(2016) Fernando Carrillo Oesterreich et al.   CELL

RNA Polymerase II Regulates Topoisomerase 1 Activity to Favor Efficient Transcription

(2016) Laura Baranello et al.   CELL

Structure of a Complete Mediator-RNA Polymerase II Pre-Initiation Complex

(2016) Philip J. Robinson et al.   CELL

Phase separation in biology; functional organization of a higher order

(2016) Diana M. Mitrea et al.   Cell Communication and Signaling

Droplet organelles?

(2016) Edward M Courchaine et al.   EMBO JOURNAL

DNA Instability Maintains the Repeat Length of the Yeast RNA Polymerase II C-terminal Domain

(2016) Summer A. Morrill et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The RNA Polymerase II CTD: The Increasing Complexity of a Low-Complexity Protein Domain

(2016) Célia Jeronimo et al.   JOURNAL OF MOLECULAR BIOLOGY

Heptad-Specific Phosphorylation of RNA Polymerase II CTD

(2016) Roland Schüller et al.   MOLECULAR CELL

Direct Analysis of Phosphorylation Sites on the Rpb1 C-Terminal Domain of RNA Polymerase II

(2016) Hyunsuk Suh et al.   MOLECULAR CELL

Engineered Covalent Inactivation of TFIIH-Kinase Reveals an Elongation Checkpoint and Results in Widespread mRNA Stabilization

(2016) Juan B. Rodríguez-Molina et al.   MOLECULAR CELL

Strand‐specific, high‐resolution mapping of modified RNA polymerase II

(2016) Laura Milligan et al.   Molecular Systems Biology

The pol II CTD: new twists in the tail

(2016) Justyna Zaborowska et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Getting Access to Low-Complexity Domain Modifications

(2016) Roland Schüller et al.   TRENDS IN BIOCHEMICAL SCIENCES

The pol II CTD: new twists in the tail

(2016) Justyna Zaborowska et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Specific threonine-4 phosphorylation and function of RNA polymerase II CTD during M phase progression

(2016) Corinna Hintermair et al.   Scientific Reports

Comprehensive RNA Polymerase II Interactomes Reveal Distinct and Varied Roles for Each Phospho-CTD Residue

(2016) Kevin M. Harlen et al.   Cell Reports

Engineering an analog-sensitive CDK12 cell line using CRISPR/Cas

(2015) Bartlomiej Bartkowiak et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Native Elongating Transcript Sequencing Reveals Human Transcriptional Activity at Nucleotide Resolution

(2015) Andreas Mayer et al.   CELL

Mammalian NET-Seq Reveals Genome-wide Nascent Transcription Coupled to RNA Processing

(2015) Takayuki Nojima et al.   CELL

PAF1, a Molecular Regulator of Promoter-Proximal Pausing by RNA Polymerase II

(2015) Fei Xavier Chen et al.   CELL

The LC Domain of hnRNPA2 Adopts Similar Conformations in Hydrogel Polymers, Liquid-like Droplets, and Nuclei

(2015) Siheng Xiang et al.   CELL

A Liquid-to-Solid Phase Transition of the ALS Protein FUS Accelerated by Disease Mutation

(2015) Avinash Patel et al.   CELL

Characterization of Human Cyclin-Dependent Kinase 12 (CDK12) and CDK13 Complexes in C-Terminal Domain Phosphorylation, Gene Transcription, and RNA Processing

(2015) Kaiwei Liang et al.   MOLECULAR AND CELLULAR BIOLOGY

Residue-by-Residue View of In Vitro FUS Granules that Bind the C-Terminal Domain of RNA Polymerase II

(2015) Kathleen A. Burke et al.   MOLECULAR CELL

SMN and symmetric arginine dimethylation of RNA polymerase II C-terminal domain control termination

(2015) Dorothy Yanling Zhao et al.   NATURE

Transcription termination and the control of the transcriptome: why, where and how to stop

(2015) Odil Porrua et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Histone exchange, chromatin structure and the regulation of transcription

(2015) Swaminathan Venkatesh et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Getting up to speed with transcription elongation by RNA polymerase II

(2015) Iris Jonkers et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

RNA transcription modulates phase transition-driven nuclear body assembly

(2015) Joel Berry et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA polymerase II-associated factor 1 regulates the release and phosphorylation of paused RNA polymerase II

(2015) M. Yu et al.   SCIENCE

Liquid demixing of intrinsically disordered proteins is seeded by poly(ADP-ribose)

(2015) Matthias Altmeyer et al.   Nature Communications

Methylation of RNA polymerase II non-consensus Lysine residues marks early transcription in mammalian cells

(2015) João D Dias et al.   eLife

Liquid-Liquid Phase Separation in Biology

(2014) Anthony A. Hyman et al.   Annual Review of Cell and Developmental Biology

TFIIH Phosphorylation of the Pol II CTD Stimulates Mediator Dissociation from the Preinitiation Complex and Promoter Escape

(2014) Koon Ho Wong et al.   MOLECULAR CELL

Regulation of RNA polymerase II activation by histone acetylation in single living cells

(2014) Timothy J. Stasevich et al.   NATURE

Coupling mRNA processing with transcription in time and space

(2014) David L. Bentley   NATURE REVIEWS GENETICS

The maintenance of chromosome structure: positioning and functioning of SMC complexes

(2014) Kristian Jeppsson et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Kin28 regulates the transient association of Mediator with core promoters

(2014) Célia Jeronimo et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Threonine-4 of the budding yeast RNAP II CTD couples transcription with Htz1-mediated chromatin remodeling

(2014) E. Rosonina et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Individual letters of the RNA polymerase II CTD code govern distinct gene expression programs in fission yeast

(2014) B. Schwer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The structure and substrate specificity of human Cdk12/Cyclin K

(2014) Christian A. Bösken et al.   Nature Communications

Tyrosine phosphorylation of RNA polymerase II CTD is associated with antisense promoter transcription and active enhancers in mammalian cells

(2014) Nicolas Descostes et al.   eLife

RNAP II CTD tyrosine 1 performs diverse functions in vertebrate cells

(2014) Jing-Ping Hsin et al.   eLife

Genome-wide dynamics of Pol II elongation and its interplay with promoter proximal pausing, chromatin, and exons

(2014) Iris Jonkers et al.   eLife

DNA topology and transcription

(2014) Fedor Kouzine et al.   Nucleus

Phosphorylation-Regulated Binding of RNA Polymerase II to Fibrous Polymers of Low-Complexity Domains

(2013) Ilmin Kwon et al.   CELL

The Writers, Readers, and Functions of the RNA Polymerase II C-Terminal Domain Code

(2013) Célia Jeronimo et al.   CHEMICAL REVIEWS

RNA Polymerase II C-Terminal Domain: Tethering Transcription to Transcript and Template

(2013) Jeffry L. Corden   CHEMICAL REVIEWS

The RNA Polymerase II Carboxy-Terminal Domain (CTD) Code

(2013) Dirk Eick et al.   CHEMICAL REVIEWS

Specific Interaction of the Transcription Elongation Regulator TCERG1 with RNA Polymerase II Requires Simultaneous Phosphorylation at Ser2, Ser5, and Ser7within the Carboxyl-terminal Domain Repeat

(2013) Jiangxin Liu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Acetylation of RNA Polymerase II Regulates Growth-Factor-Induced Gene Transcription in Mammalian Cells

(2013) Sebastian Schröder et al.   MOLECULAR CELL

The C-Terminal Domain of Rpb1 Functions on Other RNA Polymerase II Subunits

(2013) Hyunsuk Suh et al.   MOLECULAR CELL

Topoisomerases facilitate transcription of long genes linked to autism

(2013) Ian F. King et al.   NATURE

Real-Time Dynamics of RNA Polymerase II Clustering in Live Human Cells

(2013) I. I. Cisse et al.   SCIENCE

Dynamic phosphorylation patterns of RNA polymerase II CTD during transcription

(2012) Martin Heidemann et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Transcription-associated histone modifications and cryptic transcription

(2012) Michaela Smolle et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Dissecting the role of low-complexity regions in the evolution of vertebrate proteins

(2012) Núria Radó-Trilla et al.   BMC EVOLUTIONARY BIOLOGY

Pol II CTD kinases Bur1 and Kin28 promote Spt5 CTR-independent recruitment of Paf1 complex

(2012) Hongfang Qiu et al.   EMBO JOURNAL

Threonine-4 of mammalian RNA polymerase II CTD is targeted by Polo-like kinase 3 and required for transcriptional elongation

(2012) Corinna Hintermair et al.   EMBO JOURNAL

FUS binds the CTD of RNA polymerase II and regulates its phosphorylation at Ser2

(2012) J. C. Schwartz et al.   GENES & DEVELOPMENT

The RNA polymerase II CTD coordinates transcription and RNA processing

(2012) J.-P. Hsin et al.   GENES & DEVELOPMENT

Evidence of the Involvement ofO-GlcNAc-modified Human RNA Polymerase II CTD in Transcriptionin Vitroandin Vivo

(2012) Stella M. Ranuncolo et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Universal RNA Polymerase II CTD Cycle Is Orchestrated by Complex Interplays between Kinase, Phosphatase, and Isomerase Enzymes along Genes

(2012) Alain R. Bataille et al.   MOLECULAR CELL

Promoter-proximal pausing of RNA polymerase II: emerging roles in metazoans

(2012) Karen Adelman et al.   NATURE REVIEWS GENETICS

CTD serine-2 plays a critical role in splicing and termination factor recruitment to RNA polymerase II in vivo

(2012) Bo Gu et al.   NUCLEIC ACIDS RESEARCH

Punctuation and syntax of the RNA polymerase II CTD code in fission yeast

(2012) B. Schwer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structure of the Mediator Head module bound to the carboxy-terminal domain of RNA polymerase II

(2012) P. J. J. Robinson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

BRD4 is an atypical kinase that phosphorylates Serine2 of the RNA Polymerase II carboxy-terminal domain

(2012) B. N. Devaiah et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CTD Tyrosine Phosphorylation Impairs Termination Factor Recruitment to RNA Polymerase II

(2012) A. Mayer et al.   SCIENCE

Serine-7 but not serine-5 phosphorylation primes RNA polymerase II CTD for P-TEFb recognition

(2012) Nadine Czudnochowski et al.   Nature Communications

The CTD code of RNA polymerase II: a structural view

(2012) Olga Jasnovidova et al.   Wiley Interdisciplinary Reviews-RNA

The RNA polymerase II C-terminal domain promotes splicing activation through recruitment of a U2AF65-Prp19 complex

(2011) C. J. David et al.   GENES & DEVELOPMENT

The Cyclin K/Cdk12 complex maintains genomic stability via regulation of expression of DNA damage response genes

(2011) D. Blazek et al.   GENES & DEVELOPMENT

Transcriptional Regulation inSaccharomyces cerevisiae: Transcription Factor Regulation and Function, Mechanisms of Initiation, and Roles of Activators and Coactivators

(2011) Steven Hahn et al.   GENETICS

The Set2-RPB1 Interaction Domain of Human RECQ5 Is Important for Transcription-Associated Genome Stability

(2011) M. Li et al.   MOLECULAR AND CELLULAR BIOLOGY

H3K4 Trimethylation by Set1 Promotes Efficient Termination by the Nrd1-Nab3-Sen1 Pathway

(2011) N. Terzi et al.   MOLECULAR AND CELLULAR BIOLOGY

Deciphering the RNA Polymerase II CTD Code in Fission Yeast

(2011) Beate Schwer et al.   MOLECULAR CELL

The C-Terminal Domain of RNA Polymerase II Is Modified by Site-Specific Methylation

(2011) R. J. Sims et al.   SCIENCE

RNAP II CTD Phosphorylated on Threonine-4 Is Required for Histone mRNA 3' End Processing

(2011) J.-P. Hsin et al.   SCIENCE

Low-complexity regions within protein sequences have position-dependent roles

(2010) Alain Coletta et al.   BMC Systems Biology

CDK12 is a transcription elongation-associated CTD kinase, the metazoan ortholog of yeast Ctk1

(2010) B. Bartkowiak et al.   GENES & DEVELOPMENT

A Tandem SH2 Domain in Transcription Elongation Factor Spt6 Binds the Phosphorylated RNA Polymerase II C-terminal Repeat Domain (CTD)

(2010) Mai Sun et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

RecQL5 Promotes Genome Stabilization through Two Parallel Mechanisms--Interacting with RNA Polymerase II and Acting as a Helicase

(2010) M. N. Islam et al.   MOLECULAR AND CELLULAR BIOLOGY

Recruitment Timing and Dynamics of Transcription Factors at the Hsp70 Loci in Living Cells

(2010) Katie L. Zobeck et al.   MOLECULAR CELL

Phosphorylated Pol II CTD Recruits Multiple HDACs, Including Rpd3C(S), for Methylation-Dependent Deacetylation of ORF Nucleosomes

(2010) Chhabi K. Govind et al.   MOLECULAR CELL

Global Analysis of Nascent RNA Reveals Transcriptional Pausing in Terminal Exons

(2010) Fernando Carrillo Oesterreich et al.   MOLECULAR CELL

Widespread transcription at neuronal activity-regulated enhancers

(2010) Tae-Kyung Kim et al.   NATURE

Gene-specific RNA polymerase II phosphorylation and the CTD code

(2010) Hyunmin Kim et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Chemical-genomic dissection of the CTD code

(2010) Joshua R Tietjen et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Cooperative interaction of transcription termination factors with the RNA polymerase II C-terminal domain

(2010) Bradley M Lunde et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Uniform transitions of the general RNA polymerase II transcription complex

(2010) Andreas Mayer et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

RECQ5 helicase associates with the C-terminal repeat domain of RNA polymerase II during productive elongation phase of transcription

(2010) Radhakrishnan Kanagaraj et al.   NUCLEIC ACIDS RESEARCH

DSIF and RNA Polymerase II CTD Phosphorylation Coordinate the Recruitment of Rpd3S to Actively Transcribed Genes

(2010) Simon Drouin et al.   PLoS Genetics

Cap and cap-binding proteins in the control of gene expression

(2010) Ivan Topisirovic et al.   Wiley Interdisciplinary Reviews-RNA

Phosphorylation of the Yeast Rpb1 C-terminal Domain at Serines 2, 5, and 7

(2009) Minkyu Kim et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

NuA4 Lysine Acetyltransferase Esa1 Is Targeted to Coding Regions and Stimulates Transcription Elongation with Gcn5

(2009) D. S. Ginsburg et al.   MOLECULAR AND CELLULAR BIOLOGY

Progression through the RNA Polymerase II CTD Cycle

(2009) Stephen Buratowski   MOLECULAR CELL

Protein modifications in transcription elongation

(2008) Stephen M. Fuchs et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

The Iws1:Spt6:CTD complex controls cotranscriptional mRNA biosynthesis and HYPB/Setd2-mediated histone H3K36 methylation

(2008) S. M. Yoh et al.   GENES & DEVELOPMENT

The Nrd1–Nab3–Sen1 termination complex interacts with the Ser5-phosphorylated RNA polymerase II C-terminal domain

(2008) Lidia Vasiljeva et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Mapping RNA exit channel on transcribing RNA polymerase II by FRET analysis

(2008) C.-Y. Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Divergent Transcription from Active Promoters

(2008) Amy C. Seila et al.   SCIENCE

Cracking the RNA polymerase II CTD code

(2008) Sylvain Egloff et al.   TRENDS IN GENETICS

Molecular evolution of the RNA polymerase II CTD

(2008) Rob D. Chapman et al.   TRENDS IN GENETICS