(Q50173461)

English

Structural dissection of an interaction between transcription initiation and termination factors implicated in promoter-terminator cross-talk.

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scholarly article

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Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29158257%20AND%20SRC:MED&resulttype=core&format=json

3 April 2020

Structural dissection of an interaction between transcription initiation and termination factors implicated in promoter-terminator cross-talk (English)

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29158257%20AND%20SRC:MED&resulttype=core&format=json

3 April 2020

1 reference

GOA release 2020-03-11

General transcription factor IIB

1 reference

GOA release 2020-03-11

negative regulation of protein binding

1 reference

GOA release 2020-03-11

Transcription factor TFIIB YPR086W

1 reference

GOA release 2020-03-11

RNA polymerase II subunit A C-terminal domain phosphatase YNL222W

1 reference

GOA release 2020-03-11

3

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29158257%20AND%20SRC:MED&resulttype=core&format=json

3 April 2020

5

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Europe PubMed Central

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29158257%20AND%20SRC:MED&resulttype=core&format=json

3 April 2020

author name string

Matthew Bratkowski

1

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3 April 2020

Ilona Christy Unarta

2

1 reference

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PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29158257%20AND%20SRC:MED&resulttype=core&format=json

3 April 2020

Murtada Shubbar

4

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PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29158257%20AND%20SRC:MED&resulttype=core&format=json

3 April 2020

Xin Liu

6

1 reference

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PMC publication ID

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3 April 2020

language of work or name

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publication date

20 November 2017

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3 April 2020

Journal of Biological Chemistry

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3 April 2020

293

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3 April 2020

5

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Europe PubMed Central

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3 April 2020

1651-1665

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29158257%20AND%20SRC:MED&resulttype=core&format=json

3 April 2020

GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit

1 reference

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26 August 2018

A gene loop containing the floral repressor FLC is disrupted in the early phase of vernalization

1 reference

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26 August 2018

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

1 reference

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26 August 2018

Gene loops enhance transcriptional directionality

1 reference

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26 August 2018

XPG and XPF endonucleases trigger chromatin looping and DNA demethylation for accurate expression of activated genes

1 reference

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26 August 2018

High-precision isothermal titration calorimetry with automated peak-shape analysis.

1 reference

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26 August 2018

Ssu72 phosphatase-dependent erasure of phospho-Ser7 marks on the RNA polymerase II C-terminal domain is essential for viability and transcription termination.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Transcriptional regulation in Saccharomyces cerevisiae: transcription factor regulation and function, mechanisms of initiation, and roles of activators and coactivators.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Crystallographic study of a site-specifically cross-linked protein complex with a genetically incorporated photoreactive amino acid

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Crosstalk between mRNA 3' end processing and transcription initiation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Control of eukaryotic gene expression: gene loops and transcriptional memory.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Crystal structure of the human symplekin-Ssu72-CTD phosphopeptide complex

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

The HADDOCK web server for data-driven biomolecular docking

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Improved side-chain torsion potentials for the Amber ff99SB protein force field

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Features and development of Coot

1 reference

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26 August 2018

Phosphorylation of TFIIB links transcription initiation and termination.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

PHENIX: a comprehensive Python-based system for macromolecular structure solution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Molecular replacement with MOLREP

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Structure of an RNA Polymerase II-TFIIB Complex and the Transcription Initiation Mechanism

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Gene loops function to maintain transcriptional memory through interaction with the nuclear pore complex

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

A physiological role for gene loops in yeast.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

An enhanced system for unnatural amino acid mutagenesis in E. coli

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

RNA polymerase II-TFIIB structure and mechanism of transcription initiation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Structure of the C-terminal domain of transcription factor IIB from Trypanosoma brucei

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Dynamic interactions between the promoter and terminator regions of the mammalian BRCA1 gene

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Transcription-dependent gene looping of the HIV-1 provirus is dictated by recognition of pre-mRNA processing signals

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Intranuclear distribution and local dynamics of RNA polymerase II during transcription activation.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Version 1.2 of the Crystallography and NMR system

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

A transcription-independent role for TFIIB in gene looping.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Cell-type-specific expression of the human CD68 gene is associated with changes in Pol II phosphorylation and short-range intrachromosomal gene looping

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Canonical sampling through velocity rescaling

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

HKL-3000: the integration of data reduction and structure solution--from diffraction images to an initial model in minutes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

A role for the CPF 3'-end processing machinery in RNAP II-dependent gene looping

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

A core promoter element downstream of the TATA box that is recognized by TFIIB.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Conserved and specific functions of mammalian ssu72

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Structural properties of the promiscuous VP16 activation domain

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Gene loops juxtapose promoters and terminators in yeast

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Ssu72 Is an RNA polymerase II CTD phosphatase

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

A conformational change in TFIIB is required for activator-mediated assembly of the preinitiation complex.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Structural basis of transcription: an RNA polymerase II-TFIIB cocrystal at 4.5 Angstroms

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Strange bedfellows: polyadenylation factors at the promoter

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Functional interactions between the transcription and mRNA 3′ end processing machineries mediated by Ssu72 and Sub1

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Refinement of protein structures in explicit solvent

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Polyadenylation: a tail of two complexes.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

A role for SSU72 in balancing RNA polymerase II transcription elongation and termination

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Addition of a photocrosslinking amino acid to the genetic code of Escherichiacoli

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

A motif shared by TFIIF and TFIIB mediates their interaction with the RNA polymerase II carboxy-terminal domain phosphatase Fcp1p in Saccharomyces cerevisiae

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Influence of non-bonded parameters on the quality of NMR structures: a new force field for NMR structure calculation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Intramolecular interaction of yeast TFIIB in transcription control

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

The conformation of the transcription factor TFIIB modulates the response to transcriptional activators in vivo

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Structural basis of preinitiation complex assembly on human pol II promoters

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Mutational analysis of yeast TFIIB. A functional relationship between Ssu72 and Sub1/Tsp1 defined by allele-specific interactions with TFIIB.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Crystallography & NMR System: A New Software Suite for Macromolecular Structure Determination

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Human general transcription factor TFIIB: conformational variability and interaction with VP16 activation domain

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

New core promoter element in RNA polymerase II-dependent transcription: sequence-specific DNA binding by transcription factor IIB

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Bidirectional binding of the TATA box binding protein to the TATA box

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Transcription factor TFIID recruits factor CPSF for formation of 3' end of mRNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Synthetic enhancement of a TFIIB defect by a mutation in SSU72, an essential yeast gene encoding a novel protein that affects transcription start site selection in vivo

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Activator-induced conformational change in general transcription factor TFIIB.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Crystal structure of a TFIIB-TBP-TATA-element ternary complex

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Solution structure of the C-terminal core domain of human TFIIB: similarity to cyclin A and interaction with TATA-binding protein

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Recycling of the general transcription factors during RNA polymerase II transcription

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

A role for activator-mediated TFIIB recruitment in diverse aspects of transcriptional regulation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5798296

26 August 2018

Interaction between an acidic activator and transcription factor TFIIB is required for transcriptional activation

1 reference

https://pubmed.ncbi.nlm.nih.gov/29158257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

TATA box mimicry by TFIID: autoinhibition of pol II transcription

1 reference

https://pubmed.ncbi.nlm.nih.gov/29158257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Termination factor-mediated DNA loop between termination and initiation sites drives mitochondrial rRNA synthesis

1 reference

https://pubmed.ncbi.nlm.nih.gov/29158257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Characterization of sua7 mutations defines a domain of TFIIB involved in transcription start site selection in yeast

1 reference

https://pubmed.ncbi.nlm.nih.gov/29158257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A transcription reinitiation intermediate that is stabilized by activator

1 reference

https://pubmed.ncbi.nlm.nih.gov/29158257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The activity of COOH-terminal domain phosphatase is regulated by a docking site on RNA polymerase II and by the general transcription factors IIF and IIB

1 reference

https://pubmed.ncbi.nlm.nih.gov/29158257

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1074/JBC.M117.811521

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29158257%20AND%20SRC:MED&resulttype=core&format=json

3 April 2020

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29158257%20AND%20SRC:MED&resulttype=core&format=json

3 April 2020

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29158257%20AND%20SRC:MED&resulttype=core&format=json

3 April 2020

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