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histone butyrylation

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https://www.readbyqxmd.com/read/27834733/quantitative-proteomics-reveals-fundamental-regulatory-differences-in-oncogenic-hras-and-idh1-driven-astrocytoma
#1
Sophia Doll, Anatoly Urisman, Juan A Oses-Prieto, David Arnott, Alma L Burlingame
Glioblastoma multiformes (GBMs) are high-grade astrocytomas and the most common brain malignancies. Primary GBMs are often associated with disturbed RAS signaling, and expression of oncogenic HRAS results in a malignant phenotype in glioma cell lines. Secondary GBMs arise from lower-grade astrocytomas, have slower progression than primary tumors, and contain IDH1 mutations in over 70% of cases. Despite significant amount of accumulating genomic and transcriptomic data, the fundamental mechanistic differences of gliomagenesis in these two types of high-grade astrocytoma remain poorly understood...
November 10, 2016: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/27820805/structure-of-p300-in-complex-with-acyl-coa-variants
#2
Zuzanna Kaczmarska, Esther Ortega, Afsaneh Goudarzi, He Huang, Sunjoo Kim, José A Márquez, Yingming Zhao, Saadi Khochbin, Daniel Panne
Histone acetylation plays an important role in transcriptional activation. Histones are also modified by chemically diverse acylations that are frequently deposited by p300, a transcriptional coactivator that uses a number of different acyl-CoA cofactors. Here we report that while p300 is a robust acetylase, its activity gets weaker with increasing acyl-CoA chain length. Crystal structures of p300 in complex with propionyl-, crotonyl-, or butyryl-CoA show that the aliphatic portions of these cofactors are bound in the lysine substrate-binding tunnel in a conformation that is incompatible with substrate transfer...
October 31, 2016: Nature Chemical Biology
https://www.readbyqxmd.com/read/27775714/selective-recognition-of-histone-crotonylation-by-double-phd-fingers-of-moz-and-dpf2
#3
Xiaozhe Xiong, Tatyana Panchenko, Shuang Yang, Shuai Zhao, Peiqiang Yan, Wenhao Zhang, Wei Xie, Yuanyuan Li, Yingming Zhao, C David Allis, Haitao Li
Recognition of histone covalent modifications by 'reader' modules constitutes a major mechanism for epigenetic regulation. A recent upsurge of newly discovered histone lysine acylations, such as crotonylation (Kcr), butyrylation (Kbu), and propionylation (Kpr), greatly expands the coding potential of histone lysine modifications. Here we demonstrate that the histone acetylation-binding double PHD finger (DPF) domains of human MOZ (also known as KAT6A) and DPF2 (also known as BAF45d) accommodate a wide range of histone lysine acylations with the strongest preference for Kcr...
December 2016: Nature Chemical Biology
https://www.readbyqxmd.com/read/27377381/structural-basis-for-acyl-group-discrimination-by-human-gcn5l2
#4
Alison E Ringel, Cynthia Wolberger
Gcn5 is a conserved acetyltransferase that regulates transcription by acetylating the N-terminal tails of histones. Motivated by recent studies identifying a chemically diverse array of lysine acyl modifications in vivo, the acyl-chain specificity of the acetyltransferase human Gcn5 (Gcn5L2) was examined. Whereas Gcn5L2 robustly catalyzes lysine acetylation, the acyltransferase activity of Gcn5L2 becomes progressively weaker with increasing acyl-chain length. To understand how Gcn5 discriminates between different acyl-CoA molecules, structures of the catalytic domain of human Gcn5L2 bound to propionyl-CoA and butyryl-CoA were determined...
July 2016: Acta Crystallographica. Section D, Structural Biology
https://www.readbyqxmd.com/read/27105114/molecular-coupling-of-histone-crotonylation-and-active-transcription-by-af9-yeats-domain
#5
Yuanyuan Li, Benjamin R Sabari, Tatyana Panchenko, Hong Wen, Dan Zhao, Haipeng Guan, Liling Wan, He Huang, Zhanyun Tang, Yingming Zhao, Robert G Roeder, Xiaobing Shi, C David Allis, Haitao Li
Recognition of histone covalent modifications by chromatin-binding protein modules ("readers") constitutes a major mechanism for epigenetic regulation, typified by bromodomains that bind acetyllysine. Non-acetyl histone lysine acylations (e.g., crotonylation, butyrylation, propionylation) have been recently identified, but readers that prefer these acylations have not been characterized. Here we report that the AF9 YEATS domain displays selectively higher binding affinity for crotonyllysine over acetyllysine...
April 21, 2016: Molecular Cell
https://www.readbyqxmd.com/read/27105113/dynamic-competing-histone-h4-k5k8-acetylation-and-butyrylation-are-hallmarks-of-highly-active-gene-promoters
#6
Afsaneh Goudarzi, Di Zhang, He Huang, Sophie Barral, Oh Kwang Kwon, Shankang Qi, Zhanyun Tang, Thierry Buchou, Anne-Laure Vitte, Tieming He, Zhongyi Cheng, Emilie Montellier, Jonathan Gaucher, Sandrine Curtet, Alexandra Debernardi, Guillaume Charbonnier, Denis Puthier, Carlo Petosa, Daniel Panne, Sophie Rousseaux, Robert G Roeder, Yingming Zhao, Saadi Khochbin
Recently discovered histone lysine acylation marks increase the functional diversity of nucleosomes well beyond acetylation. Here, we focus on histone butyrylation in the context of sperm cell differentiation. Specifically, we investigate the butyrylation of histone H4 lysine 5 and 8 at gene promoters where acetylation guides the binding of Brdt, a bromodomain-containing protein, thereby mediating stage-specific gene expression programs and post-meiotic chromatin reorganization. Genome-wide mapping data show that highly active Brdt-bound gene promoters systematically harbor competing histone acetylation and butyrylation marks at H4 K5 and H4 K8...
April 21, 2016: Molecular Cell
https://www.readbyqxmd.com/read/26365797/a-subset-of-human-bromodomains-recognizes-butyryllysine-and-crotonyllysine-histone-peptide-modifications
#7
E Megan Flynn, Oscar W Huang, Florence Poy, Mariano Oppikofer, Steve F Bellon, Yong Tang, Andrea G Cochran
Bromodomains are epigenetic readers that are recruited to acetyllysine residues in histone tails. Recent studies have identified non-acetyl acyllysine modifications, raising the possibility that these might be read by bromodomains. Profiling the nearly complete human bromodomain family revealed that while most human bromodomains bind only the shorter acetyl and propionyl marks, the bromodomains of BRD9, CECR2, and the second bromodomain of TAF1 also recognize the longer butyryl mark. In addition, the TAF1 second bromodomain is capable of binding crotonyl marks...
October 6, 2015: Structure
https://www.readbyqxmd.com/read/25870829/histone-acylation-beyond-acetylation-terra-incognita-in-chromatin-biology
#8
REVIEW
Sophie Rousseaux, Saadi Khochbin
Histone acetylation, one of the first and best studied histone post-translational modifications (PTMs), as well as the factors involved in its deposition (writers), binding (readers) and removal (erasers), have been shown to act at the heart of regulatory circuits controlling essential cellular functions. The identification of a variety of competing histone lysine-modifying acyl groups including propionyl, butyryl, 2-hydroxyisobutyryl, crotonyl, malonyl, succinyl and glutaryl, raises numerous questions on their functional significance, the molecular systems that manage their establishment, removal and interplay with the well-known acetylation-based mechanisms...
2015: Cell Journal
https://www.readbyqxmd.com/read/25234497/comparative-analysis-of-histone-h3-and-h4-post-translational-modifications-of-esophageal-squamous-cell-carcinoma-with-different-invasive-capabilities
#9
COMPARATIVE STUDY
Kai Zhang, Liyan Li, Mengxiao Zhu, Guojuan Wang, Jianjun Xie, Yunlong Zhao, Enguo Fan, Liyan Xu, Enmin Li
UNLABELLED: Eukaryotic DNA is packaged into a chromatin with the help of four core histones (H2A, H2B, H3, and H4). Diverse histone post-translational modifications (PTMs) are hence involved in the regulation of gene transcription. However, how this regulation does work is still poorly understood and lacks details. Here we used the mass spectrometry-based proteomics approach to perform a comparative analysis of histone marks at a global level in two phenotypes of esophageal squamous cell carcinoma (ESCC) with different invasiveness...
January 1, 2015: Journal of Proteomics
https://www.readbyqxmd.com/read/25160476/saha-regulates-histone-acetylation-butyrylation-and-protein-expression-in-neuroblastoma
#10
Guofeng Xu, Jun Wang, Zhixiang Wu, Lili Qian, Lunzhi Dai, Xuelian Wan, Minjia Tan, Yingming Zhao, Yeming Wu
Emerging evidence suggests that suberoylanilide hydroxamic acid (SAHA), a clinically approved HDAC inhibitor for cutaneous T-cell lymphoma, shows promising clinical benefits in neuroblastoma, the most common extra cranial solid neoplasm with limited choice of therapeutic intervention. However, the molecular mechanism under which the compound exerts its antitumor effect remains elusive. Here we report a quantitative proteomics study that determines changes of protein expression, histone lysine acetylation, and butyrylation in response to SAHA treatment...
October 3, 2014: Journal of Proteome Research
https://www.readbyqxmd.com/read/24760130/structural-basis-for-the-site-specific-incorporation-of-lysine-derivatives-into-proteins
#11
Veronika Flügel, Milan Vrabel, Sabine Schneider
Posttranslational modifications (PTMs) of proteins determine their structure-function relationships, interaction partners, as well as their fate in the cell and are crucial for many cellular key processes. For instance chromatin structure and hence gene expression is epigenetically regulated by acetylation or methylation of lysine residues in histones, a phenomenon known as the 'histone code'. Recently it was shown that these lysine residues can furthermore be malonylated, succinylated, butyrylated, propionylated and crotonylated, resulting in significant alteration of gene expression patterns...
2014: PloS One
https://www.readbyqxmd.com/read/23888955/comprehensive-analysis-for-histone-acetylation-of-human-colon-cancer-cells-treated-with-a-novel-hdac-inhibitor
#12
Yunlong Zhao, Xiuli Fang, Ye Wang, Junmei Zhang, Sheng Jiang, Zhe Liu, Zhenyi Ma, Liyan Xu, Enmin Li, Kai Zhang
Extensive evidence suggests that dysregulation of histone lysine acetylation is intimately linked with the development of cancer in epigenetic level. Histone acetylation on lysine is regulated mainly by the "pencil"--Histone acetyltransferases (HATs) and the "eraser"--Histone deacetylases HDACs. Dramatic elevation of global histone deacetylation is considered as a biomarker for cancer. Therefore, current antitumor drug design often targets HDACs, inhibiting overexpressed HDAC in tumor cells with natural or synthesized small molecules like largazole...
2014: Current Pharmaceutical Design
https://www.readbyqxmd.com/read/23876777/regulatory-roles-of-metabolites-in-cell-signaling-networks
#13
REVIEW
Feng Li, Wei Xu, Shimin Zhao
Mounting evidence suggests that cellular metabolites, in addition to being sources of fuel and macromolecular substrates, are actively involved in signaling and epigenetic regulation. Many metabolites, such as cyclic AMP, which regulates phosphorylation/dephosphorylation, have been identified to modulate DNA and histone methylation and protein stability. Metabolite-driven cellular regulation occurs through two distinct mechanisms: proteins allosterically bind or serve as substrates for protein signaling pathways, and metabolites covalently modify proteins to regulate their functions...
July 20, 2013: Journal of Genetics and Genomics, Yi Chuan Xue Bao
https://www.readbyqxmd.com/read/23192406/synthesis-of-%C3%AE%C2%B5-n-propionyl-%C3%AE%C2%B5-n-butyryl-and-%C3%AE%C2%B5-n-crotonyl-lysine-containing-histone-h3-using-the-pyrrolysine-system
#14
Michael J Gattner, Milan Vrabel, Thomas Carell
Recently new lysine modifications were detected in histones and other proteins. Using the pyrrolysine amber suppression system we genetically inserted three of the new amino acids ε-N-propionyl-, ε-N-butyryl-, and ε-N-crotonyl-lysine site specifically into histone H3. The lysine at position 9 (H3 K9), which is known to be highly modified in chromatin, was replaced by these unnatural amino acids.
January 14, 2013: Chemical Communications: Chem Comm
https://www.readbyqxmd.com/read/22822071/stimulation-of-histone-deacetylase-activity-by-metabolites-of-intermediary-metabolism
#15
Maria Vogelauer, Abigail S Krall, Matthew A McBrian, Jing-Yu Li, Siavash K Kurdistani
Histone deacetylases (HDACs) function in a wide range of molecular processes, including gene expression, and are of significant interest as therapeutic targets. Although their native complexes, subcellular localization, and recruitment mechanisms to chromatin have been extensively studied, much less is known about whether the enzymatic activity of non-sirtuin HDACs can be regulated by natural metabolites. Here, we show that several coenzyme A (CoA) derivatives, such as acetyl-CoA, butyryl-CoA, HMG-CoA, and malonyl-CoA, as well as NADPH but not NADP(+), NADH, or NAD(+), act as allosteric activators of recombinant HDAC1 and HDAC2 in vitro following a mixed activation kinetic...
September 14, 2012: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/22731715/microbial-butyrate-and-its-role-for-barrier-function-in-the-gastrointestinal-tract
#16
Svenja Plöger, Friederike Stumpff, Gregory B Penner, Jörg-Dieter Schulzke, Gotthold Gäbel, Holger Martens, Zanming Shen, Dorothee Günzel, Joerg R Aschenbach
Butyrate production in the large intestine and ruminant forestomach depends on bacterial butyryl-CoA/acetate-CoA transferase activity and is highest when fermentable fiber and nonstructural carbohydrates are balanced. Gastrointestinal epithelia seem to use butyrate and butyrate-induced endocrine signals to adapt proliferation, apoptosis, and differentiation to the growth of the bacterial community. Butyrate has a potential clinical application in the treatment of inflammatory bowel disease (IBD; ulcerative colitis)...
July 2012: Annals of the New York Academy of Sciences
https://www.readbyqxmd.com/read/22693562/identification-of-combinatorial-patterns-of-post-translational-modifications-on-individual-histones-in-the-mouse-brain
#17
Ry Y Tweedie-Cullen, Andrea M Brunner, Jonas Grossmann, Safa Mohanna, David Sichau, Paolo Nanni, Christian Panse, Isabelle M Mansuy
Post-translational modifications (PTMs) of proteins are biochemical processes required for cellular functions and signalling that occur in every sub-cellular compartment. Multiple protein PTMs exist, and are established by specific enzymes that can act in basal conditions and upon cellular activity. In the nucleus, histone proteins are subjected to numerous PTMs that together form a histone code that contributes to regulate transcriptional activity and gene expression. Despite their importance however, histone PTMs have remained poorly characterised in most tissues, in particular the brain where they are thought to be required for complex functions such as learning and memory formation...
2012: PloS One
https://www.readbyqxmd.com/read/21849506/orphan-macrodomain-protein-human-c6orf130-is-an-o-acyl-adp-ribose-deacylase-solution-structure-and-catalytic-properties
#18
Francis C Peterson, Dawei Chen, Betsy L Lytle, Marianna N Rossi, Ivan Ahel, John M Denu, Brian F Volkman
Post-translational modification of proteins/histones by lysine acylation has profound effects on the physiological function of modified proteins. Deacylation by NAD(+)-dependent sirtuin reactions yields as a product O-acyl-ADP-ribose, which has been implicated as a signaling molecule in modulating cellular processes. Macrodomain-containing proteins are reported to bind NAD(+)-derived metabolites. Here, we describe the structure and function of an orphan macrodomain protein, human C6orf130. This unique 17-kDa protein is a stand-alone macrodomain protein that occupies a distinct branch in the phylogenic tree...
October 14, 2011: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/21243716/kat-ching-metabolism-by-the-tail-insight-into-the-links-between-lysine-acetyltransferases-and-metabolism
#19
REVIEW
Brittany N Albaugh, Kevin M Arnold, John M Denu
Post-translational modifications of histones elicit structural and functional changes within chromatin that regulate various epigenetic processes. Epigenetic mechanisms rely on enzymes whose activities are driven by coenzymes and metabolites from intermediary metabolism. Lysine acetyltransferases (KATs) catalyze the transfer of acetyl groups from acetyl-CoA to epsilon amino groups. Utilization of this critical metabolite suggests these enzymes are modulated by the metabolic status of the cell. This review highlights studies linking KATs to metabolism...
January 24, 2011: Chembiochem: a European Journal of Chemical Biology
https://www.readbyqxmd.com/read/20715035/interaction-of-propionylated-and-butyrylated-histone-h3-lysine-marks-with-brd4-bromodomains
#20
Friederike Vollmuth, Matthias Geyer
No abstract text is available yet for this article.
September 10, 2010: Angewandte Chemie
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