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TATA box binding protein

TBP, TFIID, TATA box-binding protein
Initiation of transcription by RNA polymerase II requires the activities of more than 70 polypeptides. The protein that coordinates these activities is transcription factor IID (TFIID), which binds to the core promoter to position the polymerase properly, serves as the scaffold for assembly of the remainder of the transcription complex, and acts as a channel for regulatory signals. TFIID is composed of the TATA-binding protein (TBP) and a group of evolutionarily conserved proteins known as TBP-associated factors or TAFs. TAFs may participate in basal transcription, serve as coactivators, function in promoter recognition or modify general transcription factors (GTFs) to facilitate complex assembly and transcription initiation. This gene encodes TBP, the TATA-binding protein. A distinctive feature of TBP is a long string of glutamines in the N-terminus. This region of the protein modulates the DNA binding activity of the C terminus, and modulation of DNA binding affects the rate of transcription complex formation and initiation of transcription. The number of CAG repeats encoding the polyglutamine tract is usually 32-39, and expansion of the number of repeats increases the length of the polyglutamine string and is associated with spinocerebellar ataxia 17, a neurodegenerative disorder classified as a polyglutamine disease. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Feb 2010] (from NCBI)
Top mentioned proteins: POLYMERASE, CAN, GAPDH, Histone, V1a
Papers using TBP antibodies
FireDock: fast interaction refinement in molecular docking.
Supplier
Jin Dong-Yan, In PLoS ONE, 2006
... anti-Bax N-20 (Santa Cruz), rabbit anti-eIF2α, rabbit anti-phospho-eIF2α/Ser51, rabbit anti-COX IV (Cell Signaling Technology), mouse anti-TBP (Abcam), and mouse anti-β-Actin (Sigma) ...
4-Hydroxy-2-nonenal-modified glyceraldehyde-3-phosphate dehydrogenase is degraded by cathepsin G.
Supplier
Hartl Dominik, In PLoS ONE, 2006
... ) antibody, and the mouse monoclonal antibody to β-actin and TATA binding protein TBP were obtained from Abcam (Cambridge, UK) ...
A single lentiviral vector platform for microRNA-based conditional RNA interference and coordinated transgene expression.
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Lee Jeannie T., In PLoS Genetics, 2005
... Antibodies against H3K9me2 (ab1220), H3K79me2 (ab3594), H3K79me3 (ab2621), H2A.ZK4acK7acK11ac (ab18262), PAF1 (ab20662), RPB1 (ab5408) and TBP (ab51841) were obtained from Abcam.
CHOP induces death by promoting protein synthesis and oxidation in the stressed endoplasmic reticulum.
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Gwinn Katrina, In PLoS ONE, 2003
... Further, human TBP gene was amplified from the p-15b16QTBP and p-15b59QTBP for re-cloning into pEGFPN3 vector (Clontech).
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Papers on TBP
The mRNA cap-binding protein Cbc1 is required for high and timely expression of genes by promoting the accumulation of gene-specific activators at promoters.
New
Alepuz et al., Burjassot, Spain. In Biochim Biophys Acta, Feb 2016
Here, we observe delayed global transcription kinetics in cbc1Δ during osmotic stress that correlates with delayed recruitment of TBP and RNA polymerase II to osmo-induced promoters.
The mammalian homologue of yeast AFG1 ATPase (Lactation elevated 1) mediates degradation of nuclear-encoded complex IV subunits.
New
Stiburek et al., Praha, Czech Republic. In Biochem J, Feb 2016
LACE1 is the human homologue of yeast mitochondrial Afg1 ATPase, a member of SEC18-NSF, PAS1, CDC48-VCP, TBP family.
Regulation of antisense transcription by NuA4 histone acetyltransferase and other chromatin regulatory factors.
New
Bhaumik et al., Carbondale, United States. In Mol Cell Biol, Feb 2016
UNASSIGNED: NuA4 histone lysine (K) acetyltransferase (KAT) promotes transcriptional initiation of TAF (TBP-associated factor)-dependent ribosomal protein genes.
An In Silico Approach to Investigation of the Source of Controversial Interpretations about Phenotypic Results of Human AhR-gene G1661A Polymorphism.
New
Mehrnejad et al., Sārī, Iran. In J Theor Biol, Feb 2016
Chromatin remodeling components and general transcription factors such as TATA-binding protein (TBP) are evoked on AhR-target genes by interaction with its flexible transactivation domain (TAD).
Transcription factors operate TATA-switches via rotational remodeling of local columnar chromatin structure.
New
Trifonov, Haifa, Israel. In J Biomol Struct Dyn, Feb 2016
UNASSIGNED: Our earlier study on the nucleosomes containing TBP binding sites (TATA-boxes) indicated that, generally, the same sequence which harbors the TATA-box, encodes simultaneously an alternative rotational setting of the box, so that the TATA element is either exposed (position "minor groove out") or hidden in position "minor groove in".
Redox Signaling by the RNA Polymerase III TFIIB-Related Factor Brf2.
New
Impact
Vannini et al., Lausanne, Switzerland. In Cell, Jan 2016
We have solved crystal structures of a human Brf2-TBP complex bound to natural promoters, obtaining a detailed view of the molecular interactions occurring at Brf2-dependent Pol III promoters and highlighting the general structural and functional conservation of human Pol II and Pol III pre-initiation complexes.
ChIP-nexus enables improved detection of in vivo transcription factor binding footprints.
New
Impact
Zeitlinger et al., Kansas City, United States. In Nat Biotechnol, Apr 2015
To better map transcription factor binding genome-wide at nucleotide resolution in vivo, we have developed a robust ChIP-exo protocol called ChIP-nexus (chromatin immunoprecipitation experiments with nucleotide resolution through exonuclease, unique barcode and single ligation), which utilizes an efficient DNA self-circularization step during library preparation.
[Regulatory Genomics: Integrated Experimental and Computer Approaches].
Review
New
Kolchanov et al., In Genetika, Apr 2015
These include (a) an analysis of the factors affecting the affinity of TBP (TATA-binding protein) for the TATA box; (b) research on the patterns of chromatin mark distributions and their role in the regulation of gene expression; (c) a study of 3D chromatin organization; (d) an estimation of the effects of polymorphisms on gene expression via high-resolution Chip-seq and DNase-seq techniques.
Evolution and diversification of the basal transcription machinery.
Review
New
Duttke, San Diego, United States. In Trends Biochem Sci, Mar 2015
Gradually it became apparent that the basal transcription machinery greatly diversified during evolution and new studies now demonstrate that diversification of the TATA-binding protein (TBP) family yielded specialized and largely independent transcription systems.
Tuning reactivity and mechanism in oxidation reactions by mononuclear nonheme iron(IV)-oxo complexes.
Impact
Fukuzumi et al., Seoul, South Korea. In Acc Chem Res, 2014
However, the difference in spin states between nonheme iron(IV)-oxo complexes with an octahedral geometry (with an S = 1 intermediate-spin state) or a trigonal bipyramidal (TBP) geometry (with an S = 2 high-spin state) does not lead to a significant change in reactivity in biomimetic systems.
[Advance in research on spinocerebellar ataxia 17].
Review
Gu et al., Beijing, China. In Zhonghua Yi Xue Yi Chuan Xue Za Zhi, 2014
The gene predisposing to SCA17 has been mapped and cloned, which encodes a TATA-binding protein (TBP).
More pieces to the puzzle: recent structural insights into class II transcription initiation.
Review
Berger et al., Grenoble, France. In Curr Opin Struct Biol, 2014
Crystal structures of the TATA-binding protein (TBP) bound to TBP-associated factor 1 (TAF1), RNAPII-TFIIB complexes and the Mediator head module were solved.
Targeting TBP-Associated Factors in Ovarian Cancer.
Review
Freiman et al., Providence, United States. In Front Oncol, 2013
Herein, we outline a hypothesis that TATA-box binding protein associated factors (TAFs), which compose the RNA Polymerase II initiation factor, TFIID, contribute to regulation of dedifferentiation states in ovarian cancer.
Genomic organization of human transcription initiation complexes.
Impact
Pugh et al., United States. In Nature, 2013
Here we address whether this non-coding transcription arises at promoters, and detail the interactions of initiation factors TATA box binding protein (TBP), transcription factor IIB (TFIIB) and RNA polymerase (Pol) II.
A central role for TFIID in the pluripotent transcription circuitry.
Impact
Timmers et al., Utrecht, Netherlands. In Nature, 2013
Here we show that knockdown of the transcription factor IID (TFIID) complex affects the pluripotent circuitry in mouse ES cells and inhibits reprogramming of fibroblasts.
Two-step mechanism for modifier of transcription 1 (Mot1) enzyme-catalyzed displacement of TATA-binding protein (TBP) from DNA.
GeneRIF
Auble et al., Evanston, United States. In J Biol Chem, 2012
In the absence of ATP, ternary complex stability arises from both Mot1-DNA and Mot1-TBP interactions.
Neuroprotective effects of granulocyte-colony stimulating factor in a novel transgenic mouse model of SCA17.
GeneRIF
Hsieh-Li et al., Taipei, Taiwan. In J Neurochem, 2011
Expression of the transgenic TBP in Purkinje cells is sufficient to produce cell degeneration and an ataxia phenotype, and constitutes a good model for analysis of neurodegeneration in spinocerebellar ataxia type 17.
Neuronal expression of TATA box-binding protein containing expanded polyglutamine in knock-in mice reduces chaperone protein response by impairing the function of nuclear factor-Y transcription factor.
GeneRIF
Li et al., Atlanta, United States. In Brain, 2011
This study demonstrated mutant TATA box-binding protein at the endogenous level affects neuronal function, with important implications for the pathogenesis and treatment of polyglutamine diseases.
Herpes simplex virus 1 ICP4 forms complexes with TFIID and mediator in virus-infected cells.
GeneRIF
DeLuca et al., Pittsburgh, United States. In J Virol, 2011
The data suggest that ICP4 interacts with components of TFIID and Mediator in the context of viral infection.
Core promoter recognition complex changes accompany liver development.
GeneRIF
Tjian et al., United States. In Proc Natl Acad Sci U S A, 2011
we show that the differentiation of fetal liver progenitors to adult hepatocytes involves a wholesale depletion of canonical cofactor required for Sp1 activation/Mediator and TFIID complexes at both the RNA and protein level
More papers using TBP antibodies
Impaired ubiquitin–proteasome system activity in the synapses of Huntington's disease mice
Supplier
Li Xiao-Jiang et al., In The Journal of Cell Biology, 2002
... International); TFIIB (Santa Cruz Biotechnology, Inc.); SNAP25 (Transduction Laboratories), PSD95 (Millipore), SDH (Invitrogen), Syntaxin (Sigma-Aldrich), TBP (Santa Cruz Biotechnology, Inc.), and rabbit anti-20S ...
Functional interaction between BLM helicase and 53BP1 in a Chk1-mediated pathway during S-phase arrest
Supplier
Harris Curtis C. et al., In The Journal of Cell Biology, 2001
... Anti-TBP: monoclonal 58C9 (Santa Cruz Biotechnology, Inc.) ...
Suppression of neuropil aggregates and neurological symptoms by an intracellular antibody implicates the cytoplasmic toxicity of mutant huntingtin
Supplier
Li Xiao-Jiang et al., In The Journal of Cell Biology, 1999
... Other antibodies used include mouse monoclonal antibodies to γ-tubulin (Sigma-Aldrich), NeuN (Millipore), syntaxin (Sigma-Aldrich), TBP (Santa Cruz Biotechnology, Inc.), GAPDH (Millipore), and ...
Mitochondrial depolarization is not required for neuronal apoptosis
Supplier
Giese Alf et al., In Neuro-Oncology, 1998
... Other antibodies used in the study included those against p21, mdm2, TBP (Santa Cruz Biotechnology), pig3 (Calbiochem), α-tubulin (Oncogene), ...
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