292 results on '"Hening Lin"'
Search Results
2. NLRP3 Cys126 palmitoylation by ZDHHC7 promotes inflammasome activation
- Author
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Tao Yu, Dan Hou, Jiaqi Zhao, Xuan Lu, Wendy K. Greentree, Qian Zhao, Min Yang, Don-Gerard Conde, Maurine E. Linder, and Hening Lin
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CP: Immunology ,Biology (General) ,QH301-705.5 - Abstract
Summary: Nucleotide oligomerization domain (NOD)-like receptor protein 3 (NLRP3) inflammasome hyperactivation contributes to many human chronic inflammatory diseases, and understanding how NLRP3 inflammasome is regulated can provide strategies to treat inflammatory diseases. Here, we demonstrate that NLRP3 Cys126 is palmitoylated by zinc finger DHHC-type palmitoyl transferase 7 (ZDHHC7), which is critical for NLRP3-mediated inflammasome activation. Perturbing NLRP3 Cys126 palmitoylation by ZDHHC7 knockout, pharmacological inhibition, or modification site mutation diminishes NLRP3 activation in macrophages. Furthermore, Cys126 palmitoylation is vital for inflammasome activation in vivo. Mechanistically, ZDHHC7-mediated NLRP3 Cys126 palmitoylation promotes resting NLRP3 localizing on the trans-Golgi network (TGN) and activated NLRP3 on the dispersed TGN, which is indispensable for recruitment and oligomerization of the adaptor ASC (apoptosis-associated speck-like protein containing a CARD). The activation of NLRP3 by ZDHHC7 is different from the termination effect mediated by ZDHHC12, highlighting versatile regulatory roles of S-palmitoylation. Our study identifies an important regulatory mechanism of NLRP3 activation that suggests targeting ZDHHC7 or the NLRP3 Cys126 residue as a potential therapeutic strategy to treat NLRP3-related human disorders.
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- 2024
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3. Golgi stress induces SIRT2 to counteract Shigella infection via defatty-acylation
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Miao Wang, Yugang Zhang, Garrison P. Komaniecki, Xuan Lu, Ji Cao, Mingming Zhang, Tao Yu, Dan Hou, Nicole A. Spiegelman, Ming Yang, Ian R. Price, and Hening Lin
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Science - Abstract
Here the authors revealed a role for the protein deacetylase SIRT2 in Golgi stress, particularly induced by bacterial infection. Shigella secrete effector proteins such as IcsB, which transfers fatty acyl groups to modify host proteins to evade host immune surveillance. The upregulated SIRT2 counteracts this function by removing the fatty acyl groups and enhancing the killing of Shigella.
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- 2022
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4. Simultaneous inhibition of Sirtuin 3 and cholesterol homeostasis targets acute myeloid leukemia stem cells by perturbing fatty acid β-oxidation and inducing lipotoxicity
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Cristiana O’Brien, Tianyi Ling, Jacob M. Berman, Rachel Culp-Hill, Julie A. Reisz, Vincent Rondeau, Soheil Jahangiri, Jonathan St-Germain, Vinitha Macwan, Audrey Astori, Andy Zeng, Jun Young Hong, Meng Li, Min Yang, Sadhan Jana, Fabia Gamboni, Emily Tsao, Weiyi Liu, John E. Dick, Hening Lin, Ari Melnick, Anastasia Tikhonova, Andrea Arruda, Mark D. Minden, Brian Raught, Angelo D'Alessandro, and Courtney L. Jones
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Diseases of the blood and blood-forming organs ,RC633-647.5 - Abstract
Outcomes for patients with acute myeloid leukemia (AML) remain poor due to the inability of current therapeutic regimens to fully eradicate disease-initiating leukemia stem cells (LSC). Previous studies have demonstrated that oxidative phosphorylation (OXPHOS) is an essential process that is targetable in LSC. Sirtuin 3 (SIRT3), a mitochondrial deacetylase with a multi-faceted role in metabolic regulation, has been shown to regulate OXPHOS in cancer models; however, it has not yet been studied in the context of LSC. Thus, we sought to identify if SIRT3 is important for LSC function. Using RNAi and a SIRT3 inhibitor (YC8-02), we demonstrate that SIRT3 is a critical target for the survival of primary human LSC but is not essential for normal human hematopoietic stem and progenitor cell function. In order to elucidate the molecular mechanisms by which SIRT3 is essential in LSC we combined transcriptomic, proteomic, and lipidomic approaches, showing that SIRT3 is important for LSC function through the regulation of fatty acid oxidation (FAO) which is required to support OXPHOS and ATP production in human LSC. Further, we discovered two approaches to further sensitize LSC to SIRT3 inhibition. First, we found that LSC tolerate the toxic effects of fatty acid accumulation induced by SIRT3 inhibition by upregulating cholesterol esterification. Disruption of cholesterol homeostasis sensitizes LSC to YC8-02 and potentiates LSC death. Second, SIRT3 inhibition sensitizes LSC to the BCL-2 inhibitor venetoclax. Together, these findings establish SIRT3 as a regulator of lipid metabolism and potential therapeutic target in primitive AML cells.
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- 2023
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5. Altered succinylation of mitochondrial proteins, APP and tau in Alzheimer’s disease
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Yun Yang, Victor Tapias, Diana Acosta, Hui Xu, Huanlian Chen, Ruchika Bhawal, Elizabeth T. Anderson, Elena Ivanova, Hening Lin, Botir T. Sagdullaev, Jianer Chen, William L. Klein, Kirsten L. Viola, Sam Gandy, Vahram Haroutunian, M. Flint Beal, David Eliezer, Sheng Zhang, and Gary E. Gibson
- Subjects
Science - Abstract
Succinylation is a metabolism-associated post-translational protein modification. Here the authors describe changes to the succinylation of proteins in the brain of individuals with Alzheimer’s disease.
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- 2022
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6. NMT1 and NMT2 are lysine myristoyltransferases regulating the ARF6 GTPase cycle
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Tatsiana Kosciuk, Ian R. Price, Xiaoyu Zhang, Chengliang Zhu, Kayla N. Johnson, Shuai Zhang, Steve L. Halaby, Garrison P. Komaniecki, Min Yang, Caroline J. DeHart, Paul M. Thomas, Neil L. Kelleher, J. Christopher Fromme, and Hening Lin
- Subjects
Science - Abstract
Lysine fatty acylation is an important protein posttranslational modification but mammalian lysine fatty acyl transferases have remained unknown so far. Here the authors report that the human N-terminal glycine myristoyltransferases 1 and 2 catalyze the addition of myristoyl chains to specific lysine residues and show that they myristoylate ARF6 lysine 3, which explains the unusual membrane binding properties of ARF6.
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- 2020
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7. Sirtuin Modulators in Cellular and Animal Models of Human Diseases
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Jun Young Hong and Hening Lin
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sirtuin ,inhibitor ,activator ,cancer ,neurodeganaration ,cardiovacsular diseases ,Therapeutics. Pharmacology ,RM1-950 - Abstract
Sirtuins use NAD+ to remove various acyl groups from protein lysine residues. Through working on different substrate proteins, they display many biological functions, including regulation of cell proliferation, genome stability, metabolism, and cell migration. There are seven sirtuins in humans, SIRT1-7, each with unique enzymatic activities, regulatory mechanisms, subcellular localizations, and substrate scopes. They have been indicated in many human diseases, including cancer, neurodegeneration, microbial infection, metabolic and autoimmune diseases. Consequently, interests in development of sirtuin modulators have increased in the past decade. In this brief review, we specifically summarize genetic and pharmacological modulations of sirtuins in cancer, neurological, and cardiovascular diseases. We further anticipate this review will be helpful for scrutinizing the significance of sirtuins in the studied diseases.
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- 2021
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8. Lysine Fatty Acylation: Regulatory Enzymes, Research Tools, and Biological Function
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Garrison Komaniecki and Hening Lin
- Subjects
lysine fatty acylation ,protein lipidation ,sirtuin ,HDAC ,RTX toxin ,NMT ,Biology (General) ,QH301-705.5 - Abstract
Post-translational acylation of lysine side chains is a common mechanism of protein regulation. Modification by long-chain fatty acyl groups is an understudied form of lysine acylation that has gained increasing attention recently due to the characterization of enzymes that catalyze the addition and removal this modification. In this review we summarize what has been learned about lysine fatty acylation in the approximately 30 years since its initial discovery. We report on what is known about the enzymes that regulate lysine fatty acylation and their physiological functions, including tumorigenesis and bacterial pathogenesis. We also cover the effect of lysine fatty acylation on reported substrates. Generally, lysine fatty acylation increases the affinity of proteins for specific cellular membranes, but the physiological outcome depends greatly on the molecular context. Finally, we will go over the experimental tools that have been used to study lysine fatty acylation. While much has been learned about lysine fatty acylation since its initial discovery, the full scope of its biological function has yet to be realized.
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- 2021
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9. Comparative Nucleotide-Dependent Interactome Analysis Reveals Shared and Differential Properties of KRas4a and KRas4b
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Xiaoyu Zhang, Ji Cao, Seth P. Miller, Hui Jing, and Hening Lin
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Chemistry ,QD1-999 - Abstract
The KRAS gene encodes two isoforms, KRas4a and KRas4b. Differences in the signaling functions of the two KRas proteins are poorly understood. Here we report the comparative and nucleotide-dependent interactomes of KRas4a and KRas4b. Many previously unknown interacting proteins were identified, with some interacting with both isoforms while others prefer only one. For example, v-ATPase a2 and eIF2Bδ interact with only KRas4b. Consistent with the v-ATPase interaction, KRas4b has a significant lysosomal localization. Comparing WT and constitutively active G12D mutant KRas, we examined differences in the effector proteins of the KRas4a and KRas4b. Interestingly, KRas4a binds RAF1 stronger than KRas4b. Correspondingly, KRas4a can better promote ERK phosphorylation and anchorage-independent growth than KRas4b. The interactome data represent a useful resource to understand the differences between KRas4a and KRas4b and to discover new function or regulation for them. A similar proteomic approach would be useful for studying numerous other small GTPases.
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- 2017
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10. SIRT2 and lysine fatty acylation regulate the transforming activity of K-Ras4a
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Hui Jing, Xiaoyu Zhang, Stephanie A Wisner, Xiao Chen, Nicole A Spiegelman, Maurine E Linder, and Hening Lin
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K-Ras ,lysine fatty acylation ,sirtuin ,post-translational modification ,Medicine ,Science ,Biology (General) ,QH301-705.5 - Abstract
Ras proteins play vital roles in numerous biological processes and Ras mutations are found in many human tumors. Understanding how Ras proteins are regulated is important for elucidating cell signaling pathways and identifying new targets for treating human diseases. Here we report that one of the K-Ras splice variants, K-Ras4a, is subject to lysine fatty acylation, a previously under-studied protein post-translational modification. Sirtuin 2 (SIRT2), one of the mammalian nicotinamide adenine dinucleotide (NAD)-dependent lysine deacylases, catalyzes the removal of fatty acylation from K-Ras4a. We further demonstrate that SIRT2-mediated lysine defatty-acylation promotes endomembrane localization of K-Ras4a, enhances its interaction with A-Raf, and thus promotes cellular transformation. Our study identifies lysine fatty acylation as a previously unknown regulatory mechanism for the Ras family of GTPases that is distinct from cysteine fatty acylation. These findings highlight the biological significance of lysine fatty acylation and sirtuin-catalyzed protein lysine defatty-acylation.
- Published
- 2017
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11. SIRT6 regulates Ras-related protein R-Ras2 by lysine defatty-acylation
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Xiaoyu Zhang, Nicole A Spiegelman, Ornella D Nelson, Hui Jing, and Hening Lin
- Subjects
Ras ,acylation ,sirtuin ,defatty-acylation ,Medicine ,Science ,Biology (General) ,QH301-705.5 - Abstract
The Ras family of GTPases are important in cell signaling and frequently mutated in human tumors. Understanding their regulation is thus important for studying biology and human diseases. Here, we report that a novel posttranslational mechanism, reversible lysine fatty acylation, regulates R-Ras2, a member of the Ras family. SIRT6, a sirtuin with established tumor suppressor function, regulates the lysine fatty acylation of R-Ras2. In mouse embryonic fibroblasts (MEFs), Sirt6 knockout (KO) increased R-Ras2 lysine fatty acylation. Lysine fatty acylation promotes the plasma membrane localization of R-Ras2 and its interaction with phosphatidylinositol 3-kinase PI3K, leading to activated Akt and increased cell proliferation. Our study establishes lysine fatty acylation as a previously unknown mechanism that regulates the Ras family of GTPases and provides an important mechanism by which SIRT6 functions as a tumor suppressor.
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- 2017
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12. MAVS Cys508 palmitoylation promotes its aggregation on the mitochondrial outer membrane and antiviral innate immunity.
- Author
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Yinong Liu, Dan Hou, Wenzhe Chen, Xuan Lu, Komaniecki, Garrison P., Yilai Xu, Tao Yu, Zhang, Sophia M., Linder, Maurine E., and Hening Lin
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RNA virus infections ,VIRAL proteins ,MITOCHONDRIAL membranes ,MEMBRANE proteins ,NATURAL immunity - Abstract
Cysteine palmitoylation or S-palmitoylation catalyzed by the ZDHHC family of acyltransferases regulates the biological function of numerous mammalian proteins as well as viral proteins. However, understanding of the role of S-palmitoylation in antiviral immunity against RNA viruses remains very limited. The adaptor protein MAVS forms functionally essential prion-like aggregates upon activation by viral RNA-sensing RIG-I-like receptors. Here, we identify that MAVS, a C-terminal tail-anchored mitochondrial outer membrane protein, is S-palmitoylated by ZDHHC7 at Cys508, a residue adjacent to the tail-anchor transmembrane helix. Using superresolution microscopy and other biochemical techniques, we found that the mitochondrial localization of MAVS at resting state mainly depends on its transmembrane tail-anchor, without regulation by Cys508 S-palmitoylation. However, upon viral infection, MAVS S-palmitoylation stabilizes its aggregation on the mitochondrial outer membrane and thus promotes subsequent propagation of antiviral signaling. We further show that inhibition of MAVS S-palmitoylation increases the host susceptibility to RNA virus infection, highlighting the importance of S-palmitoylation in the antiviral innate immunity. Also, our results indicate ZDHHC7 as a potential therapeutic target for MAVS-related autoimmune diseases. [ABSTRACT FROM AUTHOR]
- Published
- 2024
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13. Sirt2 inhibition improves gut epithelial barrier integrity and protects mice from colitis.
- Author
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Dan Hou, Tao Yu, Xuan Lu, Jun Young Hong, Min Yang, Yanlin Zi, Thanh Tu Ho, and Hening Lin
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SIRTUINS ,INFLAMMATORY bowel diseases ,COLITIS ,ACYL group ,ACETYL group ,GENETIC counseling - Abstract
Sirt2 is a nicotinamide adenine dinucleotide (NAD+)- dependent protein lysine deacylase that can remove both acetyl group and long- chain fatty acyl groups from lysine residues of many proteins. It was reported to affect inflammatory bowel disease (IBD) symptoms in a mouse model. However, conflicting roles were reported, with genetic knockout aggravating while pharmacological inhibition alleviating IBD symptoms. These seemingly conflicting reports cause confusion and deter further efforts in developing Sirt2 inhibitors as a potential treatment strategy for IBD. We investigated these conflicting reports and elucidated the role of Sirt2 in the mouse model of IBD. We essentially replicated these conflicting results and confirmed that Sirt2 inhibitors' protective effect is not through off- targets as two very different Sirt2 inhibitors (TM and AGK2) showed similar protection in the IBD mouse model. We believe that the differential effects of inhibitors and knockout are due to the fact that the Sirt2 inhibitors only inhibit some but not all the activities of Sirt2. This hypothesis is confirmed by the observation that a PROTAC degrader of Sirt2 did not protect mice in the IBD model, similar to Sirt2 knockout. Our study provides an interesting example where genetic knockout and pharmacological inhibition do not align and emphasizes the importance of developing substrate- dependent inhibitors. Importantly, we showed that the effect of Sirt2 inhibition in IBD is through regulating the gut epithelium barrier by inhibiting Arf6- mediated endocytosis of E- cadherin, a protein important for the intestinal epithelial integrity. This mechanistic understanding further supports Sirt2 as a promising therapeutic target for treating IBD. [ABSTRACT FROM AUTHOR]
- Published
- 2024
- Full Text
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14. A Fluorescence Polarization Assay for Macrodomains Facilitates the Identification of Potent Inhibitors of the SARS-CoV-2 Macrodomain
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Ananya Anmangandla, Sadhan Jana, Kewen Peng, Shamar D. Wallace, Saket R. Bagde, Bryon S. Drown, Jiashu Xu, Paul J. Hergenrother, J. Christopher Fromme, and Hening Lin
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Molecular Medicine ,General Medicine ,Biochemistry - Published
- 2023
15. A Turn-On Fluorescent Amino Acid Sensor Reveals Chloroquine’s Effect on Cellular Amino Acids via Inhibiting Cathepsin L
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Michael R. Smith, Le Zhang, Yizhen Jin, Min Yang, Anusha Bade, Kevin D. Gillis, Sadhan Jana, Ramesh Naidu Bypaneni, Timothy E. Glass, and Hening Lin
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General Chemical Engineering ,General Chemistry - Published
- 2023
16. Structural Basis of Sirtuin 6-Catalyzed Nucleosome Deacetylation
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Zhipeng A. Wang, Jonathan W. Markert, Samuel D. Whedon, Maheeshi Yapa Abeywardana, Kwangwoon Lee, Hanjie Jiang, Carolay Suarez, Hening Lin, Lucas Farnung, and Philip A. Cole
- Subjects
Colloid and Surface Chemistry ,General Chemistry ,Biochemistry ,Catalysis - Published
- 2023
17. Astrocyte Elevated Gene-1 Cys75 S-Palmitoylation by ZDHHC6 Regulates Its Biological Activity
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Garrison Komaniecki, Maria Del Carmen Camarena, Eric Gelsleichter, Rachel Mendoza, Mark Subler, Jolene J. Windle, Mikhail G. Dozmorov, Zhao Lai, Devanand Sarkar, and Hening Lin
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Biochemistry - Published
- 2022
18. Christopher T. Walsh: A Prolific Scientist, Effective Academic Leader, and Responsive Mentor
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Hening Lin
- Subjects
Molecular Medicine ,General Medicine ,Biochemistry - Published
- 2023
19. Amino acid and protein specificity of protein fatty acylation in Caenorhabditis elegans.
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Bingsen Zhang, Yan Yu, Fox, Bennett W., Yinong Liu, Thirumalaikumar, Venkatesh P., Skirycz, Aleksandra, Hening Lin, and Schroeder, Frank C.
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CAENORHABDITIS elegans ,AMINO acids ,ACYLATION ,MILKFAT ,AMINO acid residues ,ACYL group - Abstract
Protein lipidation plays critical roles in regulating protein function and localization. However, the chemical diversity and specificity of fatty acyl group utilization have not been investigated using untargeted approaches, and it is unclear to what extent structures and biosynthetic origins of S-acyl moieties differ from N-and O-fatty acylation. Here, we show that fatty acylation patterns in Caenorhabditis elegans differ markedly between different amino acid residues. Hydroxylamine capture revealed predominant cysteine S-acylation with 15-methylhexadecanoic acid (isoC17:0), a monomethyl branched-chain fatty acid (mmBCFA) derived from endogenous leucine catabolism. In contrast, enzymatic protein hydrolysis showed that N-terminal glycine was acylated almost exclusively with straight-chain myristic acid, whereas lysine was acylated preferentially with two different mmBCFAs and serine was acylated promiscuously with a broad range of fatty acids, including eicosapentaenoic acid. Global profiling of fatty acylated proteins using a set of click chemistry-capable alkyne probes for branched-and straight-chain fatty acids uncovered 1,013 S-acylated proteins and 510 hydroxylamine-resistant N-or O-acylated proteins. Subsets of S-acylated proteins were labeled almost exclusively by either a branched-chain or a straight-chain probe, demonstrating acylation specificity at the protein level. Acylation specificity was confirmed for selected examples, including the S-acyltransferase DHHC-10. Last, homology searches for the identified acylated proteins revealed a high degree of conservation of acylation site patterns across metazoa. Our results show that protein fatty acylation patterns integrate distinct branches of lipid metabolism in a residue-and protein-specific manner, providing a basis for mechanistic studies at both the amino acid and protein levels. [ABSTRACT FROM AUTHOR]
- Published
- 2024
- Full Text
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20. Supplementary Data from Translational Activation of ATF4 through Mitochondrial Anaplerotic Metabolic Pathways Is Required for DLBCL Growth and Survival
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Ari M. Melnick, Hening Lin, Shawn M. Davidson, Leandro Cerchietti, Zhengming Chen, Ling Wang, Hao Shen, Cihangir Duy, Noel R. Park, Jun Young Hong, Matthew R. Teater, and Meng Li
- Abstract
Supplementary Data from Translational Activation of ATF4 through Mitochondrial Anaplerotic Metabolic Pathways Is Required for DLBCL Growth and Survival
- Published
- 2023
21. Data from Translational Activation of ATF4 through Mitochondrial Anaplerotic Metabolic Pathways Is Required for DLBCL Growth and Survival
- Author
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Ari M. Melnick, Hening Lin, Shawn M. Davidson, Leandro Cerchietti, Zhengming Chen, Ling Wang, Hao Shen, Cihangir Duy, Noel R. Park, Jun Young Hong, Matthew R. Teater, and Meng Li
- Abstract
Diffuse large B-cell lymphomas (DLBCL) are broadly dependent on anaplerotic metabolism regulated by mitochondrial SIRT3. Herein we find that translational upregulation of ATF4 is coupled with anaplerotic metabolism in DLBCLs due to nutrient deprivation caused by SIRT3 driving rapid flux of glutamine into the tricarboxylic acid (TCA) cycle. SIRT3 depletion led to ATF4 downregulation and cell death, which was rescued by ectopic ATF4 expression. Mechanistically, ATF4 translation is inhibited in SIRT3-deficient cells due to the increased pools of amino acids derived from compensatory autophagy and decreased glutamine consumption by the TCA cycle. Absence of ATF4 further aggravates this state through downregulation of its target genes, including genes for amino acid biosynthesis and import. Collectively, we identify a SIRT3–ATF4 axis required to maintain survival of DLBCL cells by enabling them to optimize amino acid uptake and utilization. Targeting ATF4 translation can potentiate the cytotoxic effect of SIRT3 inhibitor to DLBCL cells.Significance:We discovered the link between SIRT3 and ATF4 in DLBCL cells, which connected lymphoma amino acid metabolism with ATF4 translation via metabolic stress signals. SIRT3–ATF4 axis is required in DLBCL cells regardless of subtype, which indicates a common metabolic vulnerability in DLBCLs and can serve as a therapeutic target.This article is highlighted in the In This Issue feature, p. 1
- Published
- 2023
22. Simultaneous Inhibition of SIRT3 and Cholesterol Homeostasis Targets AML Stem Cells By Perturbing Fatty Acid β-Oxidation and Inducing Lipotoxicity
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Cristiana O'Brien, Tianyi Ling, Jacob Berman, Rachel Culp-Hill, Julie A. Reisz, Vincent Rondeau, Soheil Jahangiri, Jonathan St-Germain, Vinitha Macwan, Audrey Astori, Andy G.X. Zeng, Jun Young Hong, Meng Li, Min Yang, Sadhan Jana, John E. Dick, Hening Lin, Ari Melnick, Anastasia N Tikhonova, Andrea Arruda, Mark D. Minden, Brian Raught, Angelo D'Alessandro, and Courtney L Jones
- Subjects
Immunology ,Cell Biology ,Hematology ,Biochemistry - Published
- 2022
23. Histone H2B Deacylation Selectivity: Exploring Chromatin’s Dark Matter with an Engineered Sortase
- Author
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Zhipeng A. Wang, Samuel D. Whedon, Mingxuan Wu, Siyu Wang, Edward A. Brown, Ananya Anmangandla, Liam Regan, Kwangwoon Lee, Jianfeng Du, Jun Young Hong, Louise Fairall, Taylor Kay, Hening Lin, Yingming Zhao, John W. R. Schwabe, and Philip A. Cole
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Histones ,Colloid and Surface Chemistry ,Sirtuins ,General Chemistry ,Biochemistry ,Chromatin ,Histone Deacetylases ,Catalysis ,Nucleosomes - Abstract
We describe a new method to produce histone H2B by semisynthesis with an engineered sortase transpeptidase. N-Terminal tail site-specifically modified acetylated, lactylated, and β-hydroxybutyrylated histone H2Bs were incorporated into nucleosomes and investigated as substrates of histone deacetylase (HDAC) complexes and sirtuins. A wide range of rates and site-specificities were observed by these enzyme forms suggesting distinct biological roles in regulating chromatin structure and epigenetics.
- Published
- 2022
24. Identification of potential HDAC11 deacylase substrates by affinity pulldown MS
- Author
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Yandong Zhang, Qian Zhao, and Hening Lin
- Published
- 2023
25. Use of alkyne-tagged myristic acid to detect N-terminal myristoylation
- Author
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Yilai Xu and Hening Lin
- Published
- 2023
26. NAD+-consuming enzymes in immune defense against viral infection
- Author
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Jialin Shang, Michael R. Smith, Ananya Anmangandla, and Hening Lin
- Subjects
Immunology & Inflammation ,Poly (ADP-Ribose) Polymerase-1 ,macrodomain ,virus ,Viral Nonstructural Proteins ,Antiviral Agents ,Biochemistry ,immune response ,PARP ,sirtuins ,Protein Domains ,Host-Microbe Interactions ,Humans ,Review Articles ,Molecular Biology ,Armadillo Domain Proteins ,Post-Translational Modifications ,SARS-CoV-2 ,COVID-19 ,Cell Biology ,NAD ,NAD+-consuming enzymes ,ADP-ribosyl Cyclase 1 ,Immunity, Innate ,COVID-19 Drug Treatment ,Cytoskeletal Proteins ,Metabolism ,Virus Diseases - Abstract
The COVID-19 pandemic reminds us that in spite of the scientific progress in the past century, there is a lack of general antiviral strategies. In analogy to broad-spectrum antibiotics as antibacterial agents, developing broad spectrum antiviral agents would buy us time for the development of vaccines and treatments for future viral infections. In addition to targeting viral factors, a possible strategy is to understand host immune defense mechanisms and develop methods to boost the antiviral immune response. Here we summarize the role of NAD+-consuming enzymes in the immune defense against viral infections, with the hope that a better understanding of this process could help to develop better antiviral therapeutics targeting these enzymes. These NAD+-consuming enzymes include PARPs, sirtuins, CD38, and SARM1. Among these, the antiviral function of PARPs is particularly important and will be a focus of this review. Interestingly, NAD+ biosynthetic enzymes are also implicated in immune responses. In addition, many viruses, including SARS-CoV-2 contain a macrodomain-containing protein (NSP3 in SARS-CoV-2), which serves to counteract the antiviral function of host PARPs. Therefore, NAD+ and NAD+-consuming enzymes play crucial roles in immune responses against viral infections and detailed mechanistic understandings in the future will likely facilitate the development of general antiviral strategies.
- Published
- 2021
27. Attenuation of NLRP3 Inflammasome Activation by Indirubin-Derived PROTAC Targeting HDAC6
- Author
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Di Chen, Zhuoxian Cao, Yong-Long Zhao, Jie Wang, Yi Wang, Yan Li, Hening Lin, Shuxian Lin, Zhicheng Gu, Bin He, Yongjun Li, and Ting Liu
- Subjects
Indoles ,Inflammasomes ,Histone Deacetylase 6 ,Biochemistry ,Structure-Activity Relationship ,chemistry.chemical_compound ,Drug Development ,NLR Family, Pyrin Domain-Containing 3 Protein ,medicine ,Animals ,Humans ,Cytotoxicity ,Natural product ,Proteolysis targeting chimera ,General Medicine ,HDAC6 ,Ligand (biochemistry) ,Pomalidomide ,Thalidomide ,Cell biology ,Histone Deacetylase Inhibitors ,Mice, Inbred C57BL ,chemistry ,Cell culture ,Proteolysis ,Molecular Medicine ,Indirubin ,K562 Cells ,HeLa Cells ,medicine.drug - Abstract
Histone deacetylase 6 (HDAC6) is a potential therapeutic target for treating several diseases. A recent study revealed that HDAC6 is important for NLRP3 inflammasome activation, suggesting that targeting HDAC6 could be useful for treating many inflammatory disorders. Using the proteolysis targeting chimera (PROTAC) strategy, we herein report an HDAC6 degrader with low cytotoxicity by tethering a selective HDAC6 inhibitor derived from a natural product, indirubin, with pomalidomide, a CRBN E3 ligand. Our HDAC6 degrader efficiently and selectively decreased HDAC6 levels in several cell lines, including activated THP-1 cells. Application of this HDAC6 degrader attenuated NLRP3 inflammasome activation in LPS-induced mice, which for the first time demonstrates that HDAC6 PROTAC could be a novel strategy to treat NLRP3 inflammasome-associated diseases.
- Published
- 2021
28. Translational Activation of ATF4 through Mitochondrial Anaplerotic Metabolic Pathways Is Required for DLBCL Growth and Survival
- Author
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Zhengming Chen, Leandro Cerchietti, Ling Wang, Matthew R. Teater, Hening Lin, Meng Li, Ari Melnick, Jun Young Hong, Shawn M. Davidson, Noel R Park, Cihangir Duy, and Hao Shen
- Subjects
chemistry.chemical_classification ,Programmed cell death ,Chemistry ,Glutamine ,Citric Acid Cycle ,Autophagy ,Translation (biology) ,General Medicine ,Activating Transcription Factor 4 ,Mitochondria ,Cell biology ,Citric acid cycle ,Downregulation and upregulation ,Sirtuin 3 ,Humans ,Lymphoma, Large B-Cell, Diffuse ,Amino Acids ,Flux (metabolism) ,Amino acid synthesis - Abstract
Abstract Diffuse large B-cell lymphomas (DLBCL) are broadly dependent on anaplerotic metabolism regulated by mitochondrial SIRT3. Herein we find that translational upregulation of ATF4 is coupled with anaplerotic metabolism in DLBCLs due to nutrient deprivation caused by SIRT3 driving rapid flux of glutamine into the tricarboxylic acid (TCA) cycle. SIRT3 depletion led to ATF4 downregulation and cell death, which was rescued by ectopic ATF4 expression. Mechanistically, ATF4 translation is inhibited in SIRT3-deficient cells due to the increased pools of amino acids derived from compensatory autophagy and decreased glutamine consumption by the TCA cycle. Absence of ATF4 further aggravates this state through downregulation of its target genes, including genes for amino acid biosynthesis and import. Collectively, we identify a SIRT3–ATF4 axis required to maintain survival of DLBCL cells by enabling them to optimize amino acid uptake and utilization. Targeting ATF4 translation can potentiate the cytotoxic effect of SIRT3 inhibitor to DLBCL cells. Significance: We discovered the link between SIRT3 and ATF4 in DLBCL cells, which connected lymphoma amino acid metabolism with ATF4 translation via metabolic stress signals. SIRT3–ATF4 axis is required in DLBCL cells regardless of subtype, which indicates a common metabolic vulnerability in DLBCLs and can serve as a therapeutic target. This article is highlighted in the In This Issue feature, p. 1
- Published
- 2021
29. IGF2BP2 promotes cancer progression by degrading the RNA transcript encoding a v-ATPase subunit
- Author
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Arash Latifkar, Fangyu Wang, James J. Mullmann, Elena Panizza, Irma R. Fernandez, Lu Ling, Andrew D. Miller, Claudia Fischbach, Robert S. Weiss, Hening Lin, Richard A. Cerione, and Marc A. Antonyak
- Subjects
Vacuolar Proton-Translocating ATPases ,Multidisciplinary ,Sirtuin 1 ,Neoplasms ,Cell Line, Tumor ,Humans ,RNA ,RNA-Binding Proteins ,Lysosomes ,Neoplastic Processes - Abstract
IGF2BP2 binds to a number of RNA transcripts and has been suggested to function as a tumor promoter, although little is known regarding the mechanisms that regulate its roles in RNA metabolism. Here we demonstrate that IGF2BP2 binds to the 3′ untranslated region of the transcript encoding ATP6V1A, a catalytic subunit of the vacuolar ATPase (v-ATPase), and serves as a substrate for the NAD + -dependent deacetylase SIRT1, which regulates how IGF2BP2 affects the stability of the ATP6V1A transcript. When sufficient levels of SIRT1 are expressed, it catalyzes the deacetylation of IGF2BP2, which can bind to the ATP6V1A transcript but does not mediate its degradation. However, when SIRT1 expression is low, the acetylated form of IGF2BP2 accumulates, and upon binding to the ATP6V1A transcript recruits the XRN2 nuclease, which catalyzes transcript degradation. Thus, the stability of the ATP6V1A transcript is significantly compromised in breast cancer cells when SIRT1 expression is low or knocked-down. This leads to a reduction in the expression of functional v-ATPase complexes in cancer cells and to an impairment in their lysosomal activity, resulting in the production of a cellular secretome consisting of increased numbers of exosomes enriched in ubiquitinated protein cargo and soluble hydrolases, including cathepsins, that together combine to promote tumor cell survival and invasiveness. These findings describe a previously unrecognized role for IGF2BP2 in mediating the degradation of a messenger RNA transcript essential for lysosomal function and highlight how its sirtuin-regulated acetylation state can have significant biological and disease consequences.
- Published
- 2022
30. Dph3 Enables Aerobic Diphthamide Biosynthesis by Donating One Iron Atom to Transform a [3Fe–4S] to a [4Fe–4S] Cluster in Dph1–Dph2
- Author
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Dan Su, Kyle M. Lancaster, Sean H. Majer, Rachael E. Coleman, Michael K. Fenwick, Brian R. Crane, Siddarth Chandrasekaran, Jack H. Freed, Boris Dzikovski, Hening Lin, and Yugang Zhang
- Subjects
Iron-Sulfur Proteins ,S-Adenosylmethionine ,Saccharomyces cerevisiae Proteins ,Stereochemistry ,Iron ,Saccharomyces cerevisiae ,010402 general chemistry ,01 natural sciences ,Biochemistry ,Catalysis ,chemistry.chemical_compound ,Colloid and Surface Chemistry ,Peptide Elongation Factor 2 ,Biosynthesis ,Cluster (physics) ,Histidine ,DPH1 ,chemistry.chemical_classification ,biology ,Communication ,Diphthamide ,Dithionite ,General Chemistry ,Yeast ,Enzyme assay ,0104 chemical sciences ,Repressor Proteins ,Enzyme ,Catalytic cycle ,chemistry ,biology.protein - Abstract
All radical S-adenosylmethionine (radical-SAM) enzymes, including the noncanonical radical-SAM enzyme diphthamide biosynthetic enzyme Dph1–Dph2, require at least one [4Fe–4S](Cys)3 cluster for activity. It is well-known in the radical-SAM enzyme community that the [4Fe–4S](Cys)3 cluster is extremely air-sensitive and requires strict anaerobic conditions to reconstitute activity in vitro. Thus, how such enzymes function in vivo in the presence of oxygen in aerobic organisms is an interesting question. Working on yeast Dph1–Dph2, we found that consistent with the known oxygen sensitivity, the [4Fe–4S] cluster is easily degraded into a [3Fe–4S] cluster. Remarkably, the small iron-containing protein Dph3 donates one Fe atom to convert the [3Fe–4S] cluster in Dph1–Dph2 to a functional [4Fe–4S] cluster during the radical-SAM enzyme catalytic cycle. This mechanism to maintain radical-SAM enzyme activity in aerobic environments is likely general, and Dph3-like proteins may exist to keep other radical-SAM enzymes functional in aerobic environments.
- Published
- 2021
31. Understanding the Function of Mammalian Sirtuins and Protein Lysine Acylation
- Author
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Miao Wang and Hening Lin
- Subjects
0301 basic medicine ,Acylation ,Lysine ,complex mixtures ,Biochemistry ,03 medical and health sciences ,Succinylation ,0302 clinical medicine ,Animals ,Humans ,Sirtuins ,Epigenetics ,Histone Acetyltransferases ,Mammals ,biology ,Chemistry ,Acetylation ,Acetyltransferases ,Histone acetyltransferase ,Chromatin ,030104 developmental biology ,biology.protein ,bacteria ,Fatty acylation ,Protein Processing, Post-Translational ,030217 neurology & neurosurgery ,Function (biology) - Abstract
Protein lysine acetylation is an important posttranslational modification that regulates numerous biological processes. Targeting lysine acetylation regulatory factors, such as acetyltransferases, deacetylases, and acetyl-lysine recognition domains, has been shown to have potential for treating human diseases, including cancer and neurological diseases. Over the past decade, many other acyl-lysine modifications, such as succinylation, crotonylation, and long-chain fatty acylation, have also been investigated and shown to have interesting biological functions. Here, we provide an overview of the functions of different acyl-lysine modifications in mammals. We focus on lysine acetylation as it is well characterized, and principles learned from acetylation are useful for understanding the functions of other lysine acylations. We pay special attention to the sirtuins, given that the study of sirtuins has provided a great deal of information about the functions of lysine acylation. We emphasize the regulation of sirtuins to illustrate that their regulation enables cells to respond to various signals and stresses.
- Published
- 2021
32. Substrate-selective small-molecule modulators of enzymes: Mechanisms and opportunities
- Author
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Hening Lin
- Subjects
Biochemistry ,Analytical Chemistry - Abstract
Small-molecule inhibitors of enzymes are widely used tools in reverse chemical genetics to probe biology and explore therapeutic opportunities. They are often compared with genetic knockdown or knockout and are expected to produce phenotypes similar to the genetic perturbations. This review aims to highlight that small molecule inhibitors of enzymes and genetic perturbations may not necessarily produce the same phenotype due to the possibility of substrate-selective or substrate-dependent effects of the inhibitors. Examples of substrate-selective inhibitors and the mechanisms for the substrate-selective effects are discussed. Substrate-selective modulators of enzymes have distinct advantages and cannot be easily replaced with biologics. Thus, they present an exciting opportunity for chemical biologists and medicinal chemists.
- Published
- 2022
33. Abstract 3720: Cysteine palmitoylation of astrocyte elevated gene-1/Metadherin (AEG-1/MTDH) regulates its biological and immunological activity
- Author
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Maria Del Carmen Camarena, Garrison Komaniecki, Debashri Manna, Rachel Mendoza, Mark A. Subler, Jolene J. Windle, Mikhail G. Dozmorov, Hening Lin, and Devanand Sarkar
- Subjects
Cancer Research ,Oncology - Abstract
Non-alcoholic steatohepatitis (NASH) is a major risk factor for hepatocellular carcinoma (HCC). Astrocyte elevated gene-1/Metadherin (AEG-1/MTDH) augments steatosis, inflammation, and tumorigenesis, thereby promoting the whole spectrum of this disease process. Targeting AEG-1 is a potential interventional strategy for NASH and HCC. Thus, proper understanding of the regulation of this molecule is essential. We found that AEG-1 is palmitoylated at residue Cysteine75 (Cys75). Mutation of Cys75 to Serine (Ser) completely abolished AEG-1 palmitoylation.Systematic knockdown studies identified zinc finger DHHC-type palmitoyltransferase 6 (ZDHHC6) as the palmitoyltransferase catalyzing the process. To obtain insight into how palmitoylation regulates AEG-1 function, we generated a knock-in mouse by CRISPR/Cas9 in which Cys75 of AEG-1 was mutated to Ser (AEG-1-C75S). No developmental or anatomical abnormality was observed between AEG-1-wild type (AEG-1-WT) and AEG-1-C75S littermates. However, global gene expression analysis by RNA-sequencing unraveled that signaling pathways and upstream regulators, which contribute to cell proliferation, motility, inflammation,angiogenesis, and lipid accumulation, are activated in AEG-1-C75S hepatocytes compared toAEG-1-WT. Feeding these mice with high fat/high sugar diet for 20 weeks showed accumulation of T-regulatory cells and exhausted CD8 T-cells in the livers of AEG-1-C75S mice vs AEG-1-WT, and only in females, suggesting that inhibition of AEG-1 palmitoylation creates an immunosuppressive milieu favoring tumorigenesis. Collectively, these findings suggest that AEG-1-C75S functions as dominant positive, and palmitoylation restricts oncogenic and NASH-promoting functions of AEG-1. Studies are ongoing to unravel the mechanism by which palmitoylation restricts AEG-1 function, and to understand the sex-specific immune-modulatory role of AEG-1 palmitoylation in hepatocarcinogenesis. Citation Format: Maria Del Carmen Camarena, Garrison Komaniecki, Debashri Manna, Rachel Mendoza, Mark A. Subler, Jolene J. Windle, Mikhail G. Dozmorov, Hening Lin, Devanand Sarkar. Cysteine palmitoylation of astrocyte elevated gene-1/Metadherin (AEG-1/MTDH) regulates its biological and immunological activity. [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2023; Part 1 (Regular and Invited Abstracts); 2023 Apr 14-19; Orlando, FL. Philadelphia (PA): AACR; Cancer Res 2023;83(7_Suppl):Abstract nr 3720.
- Published
- 2023
34. Pharmacological and genetic perturbation establish SIRT5 as a promising target in breast cancer
- Author
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Dennis A Kutateladze, Hening Lin, Bo Li, Johan Auwerx, Yashira L Negrón Abril, Bin He, Jessica Jingyi Bai, Jun Young Hong, Ying-Ling Chiang, Ravi Dhawan, Fangyu Wang, Qingjie Zhao, Brenna Remick, Robert S. Weiss, Viviana Maymi, Richard A. Cerione, Irma Fernandez, Sushabhan Sadhukhan, Teresa L. Southard, James Mullmann, Min Yang, and Jing Hu
- Subjects
0301 basic medicine ,Cancer Research ,antioxidant ,medicine.disease_cause ,Mice ,Succinylation ,0302 clinical medicine ,Sirtuins ,Enzyme Inhibitors ,Mice, Knockout ,Mammary tumor ,Isocitrate Dehydrogenase ,030220 oncology & carcinogenesis ,Knockout mouse ,Sirtuin ,Heterografts ,Female ,regulators ,SIRT5 ,malonylation ,Breast Neoplasms ,Deacylase ,Biology ,Article ,03 medical and health sciences ,Breast cancer ,Cell Line, Tumor ,expression ,Breast Cancer ,Genetics ,medicine ,Animals ,Humans ,Molecular Biology ,Cancer ,medicine.disease ,Oxidative Stress ,030104 developmental biology ,Cancer research ,biology.protein ,desuccinylation ,progression ,demalonylase ,protein ,Reactive Oxygen Species ,Carcinogenesis ,metabolism - Abstract
SIRT5 is a member of the sirtuin family of NAD(+)-dependent protein lysine deacylases implicated in a variety of physiological processes. SIRT5 removes negatively charged malonyl, succinyl, and glutaryl groups from lysine residues and thereby regulates multiple enzymes involved in cellular metabolism and other biological processes. SIRT5 is overexpressed in human breast cancers and other malignancies, but little is known about the therapeutic potential of SIRT5 inhibition for treating cancer. Here we report that genetic SIRT5 disruption in breast cancer cell lines and mouse models caused increased succinylation of IDH2 and other metabolic enzymes, increased oxidative stress, and impaired transformation and tumorigenesis. We, therefore, developed potent, selective, and cell-permeable small-molecule SIRT5 inhibitors. SIRT5 inhibition suppressed the transformed properties of cultured breast cancer cells and significantly reduced mammary tumor growth in vivo, in both genetically engineered and xenotransplant mouse models. Considering that Sirt5 knockout mice are generally normal, with only mild phenotypes observed, these data establish SIRT5 as a promising target for treating breast cancer. The new SIRT5 inhibitors provide useful probes for future investigations of SIRT5 and an avenue for targeting SIRT5 as a therapeutic strategy.
- Published
- 2021
35. Oxygen level regulates N-terminal translation elongation of selected proteins through deoxyhypusine hydroxylation
- Author
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Yugang Zhang, Dan Su, Julia Zhu, Miao Wang, Yandong Zhang, Qin Fu, Sheng Zhang, and Hening Lin
- Subjects
Oxygen ,Peptide Initiation Factors ,Lysine ,Protein Biosynthesis ,Saccharomyces cerevisiae ,Hydroxylation ,Peptides ,General Biochemistry, Genetics and Molecular Biology ,Article - Abstract
Hypusine is a post-translational modification on eukaryotic translation initiation factor 5A (eIF5A). The last step of hypusine biosynthesis, deoxyhypusine hydroxylation, is an oxygen-dependent reaction. Here we show that deletion of the deoxyhypusine hydroxylase Lia1 compromises yeast respiration through translation downregulation of selected proteins in the respiration pathway. The translation suppression, because of the lack of deoxyhypusine hydroxylation, mainly affects translation of the N termini of the proteins, independent of the presence of proline residues but likely dependent on the interaction between the N-terminal nascent peptide and the ribosomal peptide exit tunnel. Proteomics and biochemical studies reveal that Lia1 deletion decreases N-terminal translation of proteins involved in mitochondrial respiration, oxidative stress response, and protein folding. Our work uncovers functions of the hypusine modification by considering the substrate requirement of the post-translational modification, highlights the unique challenges of translating the N termini of proteins, and reveals an oxygen-sensing mechanism in eukaryotic cells.
- Published
- 2022
36. IGF2BP2 Promotes Cancer Progression by Degrading the RNA Transcript Encoding a v‐ATPase Subunit
- Author
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Fangyu Wang, Arash Latifkar, James Mullmann, Elena Panizza, Irma Fernandez, Lu Ling, Andrew Miller, Claudia Fischbach, Robert Weiss, Hening Lin, Richard Cerione, and Marc Antonyak
- Subjects
Genetics ,Molecular Biology ,Biochemistry ,Biotechnology - Published
- 2022
37. How do aerobic organisms solve the oxygen sensitivity problem of [4Fe‐4S] in radical SAM enzymes?
- Author
-
Hening Lin
- Subjects
Genetics ,Molecular Biology ,Biochemistry ,Biotechnology - Published
- 2022
38. Editor's evaluation: Selective inhibition reveals the regulatory function of DYRK2 in protein synthesis and calcium entry
- Author
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Hening Lin
- Published
- 2022
39. Decision letter: Selective inhibition reveals the regulatory function of DYRK2 in protein synthesis and calcium entry
- Author
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Hening Lin
- Published
- 2022
40. Long-chain fatty acyl coenzyme A inhibits NME1/2 and regulates cancer metastasis
- Author
-
Shuai Zhang, Ornella D. Nelson, Ian R. Price, Chengliang Zhu, Xuan Lu, Irma R. Fernandez, Robert S. Weiss, and Hening Lin
- Subjects
Proteomics ,Multidisciplinary ,Proteome ,Neoplasms ,Humans ,Breast Neoplasms ,Female ,Acyl Coenzyme A ,NM23 Nucleoside Diphosphate Kinases ,Neoplasm Metastasis ,Endocytosis ,Protein Binding - Abstract
Significance The study provided a long-sought molecular mechanism that could explain the link between fatty acid metabolism and cancer metastasis. Further understanding may lead to new strategies to inhibit cancer metastasis. The chemical proteomic approach developed here will be useful for discovering other regulatory mechanisms of protein function by small molecule metabolites.
- Published
- 2022
41. Garcinol Is an HDAC11 Inhibitor
- Author
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Hening Lin, Thanh Tu Ho, Dan Su, and Se In Son
- Subjects
0301 basic medicine ,Antioxidant ,medicine.medical_treatment ,Anti-Inflammatory Agents ,Antineoplastic Agents ,Pharmacology ,01 natural sciences ,Biochemistry ,Antioxidants ,Histone Deacetylases ,Article ,03 medical and health sciences ,chemistry.chemical_compound ,medicine ,Humans ,IC50 ,Natural product ,biology ,Terpenes ,010405 organic chemistry ,HDAC11 ,General Medicine ,Histone acetyltransferase ,In vitro ,0104 chemical sciences ,Histone Deacetylase Inhibitors ,HEK293 Cells ,030104 developmental biology ,Mechanism of action ,chemistry ,biology.protein ,Molecular Medicine ,medicine.symptom ,Fatty acylation ,Garcinia - Abstract
Garcinol is a natural product from the Garcinia Indica fruit and is well-known as an antioxidant, anti-inflammatory, and anticancer agent. However, the understanding of its mechanism of action is still incomplete. It has been reported to be a histone acetyltransferase (HAT) inhibitor. Here, we surprisingly found that garcinol is a potent histone deacetylase 11 (HDAC11) inhibitor (IC50 ∼ 5 μM in vitro with the HPLC assay and IC50 ∼ 10 μM in the cellular SHMT2 fatty acylation assay), which is comparable to previously reported HDAC11 inhibitors. Additionally, among all the HDACs tested, garcinol specifically inhibits HDAC11 over other HDACs. HDAC11 is the only class IV HDAC, and there are very few inhibitors available for it. Therefore, this study provides a new HDAC11 inhibitor lead from natural products and may help explain the various biological activities of garcinol.
- Published
- 2020
42. A STAT3 palmitoylation cycle promotes TH17 differentiation and colitis
- Author
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Min Yang, Xiao Chen, Yuejie Xu, Mingming Zhang, Xuan Lu, Yilai Xu, Hening Lin, Maurine E. Linder, Garrison Paul Komaniecki, Xiaoping Zou, Tatsiana Kosciuk, and Lixing Zhou
- Subjects
0301 basic medicine ,Cell signaling ,Multidisciplinary ,biology ,Chemistry ,Cellular differentiation ,HEK 293 cells ,technology, industry, and agriculture ,Transport protein ,Cell biology ,03 medical and health sciences ,030104 developmental biology ,0302 clinical medicine ,Palmitoylation ,030220 oncology & carcinogenesis ,biology.protein ,Phosphorylation ,lipids (amino acids, peptides, and proteins) ,STAT3 ,Transcription factor - Abstract
Cysteine palmitoylation (S-palmitoylation) is a reversible post-translational modification that is installed by the DHHC family of palmitoyltransferases and is reversed by several acyl protein thioesterases1,2. Although thousands of human proteins are known to undergo S-palmitoylation, how this modification is regulated to modulate specific biological functions is poorly understood. Here we report that the key T helper 17 (TH17) cell differentiation stimulator, STAT33,4, is subject to reversible S-palmitoylation on cysteine 108. DHHC7 palmitoylates STAT3 and promotes its membrane recruitment and phosphorylation. Acyl protein thioesterase 2 (APT2, also known as LYPLA2) depalmitoylates phosphorylated STAT3 (p-STAT3) and enables it to translocate to the nucleus. This palmitoylation–depalmitoylation cycle enhances STAT3 activation and promotes TH17 cell differentiation; perturbation of either palmitoylation or depalmitoylation negatively affects TH17 cell differentiation. Overactivation of TH17 cells is associated with several inflammatory diseases, including inflammatory bowel disease (IBD). In a mouse model, pharmacological inhibition of APT2 or knockout of Zdhhc7—which encodes DHHC7—relieves the symptoms of IBD. Our study reveals not only a potential therapeutic strategy for the treatment of IBD but also a model through which S-palmitoylation regulates cell signalling, which might be broadly applicable for understanding the signalling functions of numerous S-palmitoylation events. The dynamic and reversible S-palmitoylation of the transcription factor STAT3 enhances its activation and promotes the differentiation of TH17 cells.
- Published
- 2020
43. Simultaneous Inhibition of SIRT2 Deacetylase and Defatty-Acylase Activities via a PROTAC Strategy
- Author
-
Hening Lin, Hui Jing, Jun Young Hong, Ji Cao, Ian R. Price, and Jessica Jingyi Bai
- Subjects
chemistry.chemical_classification ,biology ,010405 organic chemistry ,Chemistry ,Organic Chemistry ,Proteolysis targeting chimera ,Lysine ,SIRT2 ,01 natural sciences ,Biochemistry ,Small molecule ,0104 chemical sciences ,Biological pathway ,010404 medicinal & biomolecular chemistry ,Enzyme ,Acetylation ,Drug Discovery ,Sirtuin ,biology.protein - Abstract
[Image: see text] As a member of the sirtuin family of enzymes, SIRT2 promotes tumor growth and regulates various biological pathways through lysine deacetylation and defatty-acylation. In the past few years, many SIRT2-selective small molecule inhibitors have been developed, but none have demonstrated simultaneous inhibition of both SIRT2 activities in cells. To further scrutinize the physiological importance and significance of SIRT2 deacetylase and defatty-acylase activities, small molecules that can selectively inhibit both activities of SIRT2 in living cells are needed. Here, we have applied the Proteolysis Targeting Chimera (PROTAC) strategy and synthesized a new SIRT2 inhibitor (TM-P4-Thal) to degrade SIRT2 selectively, which led to simultaneous inhibition of its deacetylase and defatty-acylase activities in living cells. Additionally, this compound exemplifies the advantage of the PROTAC strategy that allows complete eradication of an enzyme and its activity in biological settings.
- Published
- 2020
44. Substrate-Dependent Modulation of SIRT2 by a Fluorescent Probe, 1-Aminoanthracene
- Author
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Brian P. Weiser, Jun Young Hong, David Bi, Hening Lin, Joseph Infanti, Prashit Parikh, Nicole Hinds, and Jie Yang
- Subjects
Anthracenes ,chemistry.chemical_classification ,Stereochemistry ,Lysine ,Substrate (chemistry) ,Peptide ,Plasma protein binding ,Ligands ,Biochemistry ,Recombinant Proteins ,Article ,Substrate Specificity ,Molecular Docking Simulation ,Sirtuin 2 ,Enzyme ,chemistry ,Acetylation ,parasitic diseases ,Humans ,Binding site ,Peptides ,Fluorescent Dyes ,Protein Binding ,Myristoylation - Abstract
Sirtuin isoform 2 (SIRT2) is an enzyme that catalyzes the removal of acyl groups from lysine residues. SIRT2's catalytic domain has a hydrophobic tunnel where its substrate acyl groups bind. Here, we report that the fluorescent probe 1-aminoanthracene (AMA) binds within SIRT2's hydrophobic tunnel in a substrate-dependent manner. AMA's interaction with SIRT2 was characterized by its enhanced fluorescence upon protein binding (>10-fold). AMA interacted weakly with SIRT2 alone in solution (Kd = 37 μM). However, when SIRT2 was equilibrated with a decanoylated peptide substrate, AMA's affinity for SIRT2 was enhanced ∼10-fold (Kd = 4 μM). The peptide's decanoyl chain and AMA co-occupied SIRT2's hydrophobic tunnel when bound to the protein. In contrast, binding of AMA to SIRT2 was competitive with a myristoylated substrate whose longer acyl chain occluded the entire tunnel. AMA competitively inhibited SIRT2 demyristoylase activity with an IC50 of 21 μM, which was significantly more potent than its inhibition of other deacylase activities. Finally, binding and structural analysis suggests that the AMA binding site in SIRT2's hydrophobic tunnel was structurally stabilized when SIRT2 interacted with a decanoylated or 4-oxononanoylated substrate, but AMA's binding site was less stable when SIRT2 was bound to an acetylated substrate. Our use of AMA to explore changes in SIRT2's hydrophobic tunnel that are induced by interactions with specific acylated substrates has implications for developing ligands that modulate SIRT2's substrate specificity.
- Published
- 2020
45. TiPARP forms nuclear condensates to degrade HIF-1α and suppress tumorigenesis
- Author
-
Hening Lin, Longying Dong, Lu Zhang, and Ji Cao
- Subjects
Ubiquitin-Protein Ligases ,Regulator ,Estrogen receptor ,Nucleoside Transport Proteins ,medicine.disease_cause ,Biochemistry ,Proto-Oncogene Proteins c-myc ,nuclear condensates ,Mice ,ADP-Ribosylation ,Ubiquitin ,Transcription (biology) ,Cell Line, Tumor ,TiPARP ,medicine ,Animals ,Humans ,Protein Interaction Domains and Motifs ,Transcription factor ,Cell Nucleus ,Feedback, Physiological ,Multidisciplinary ,biology ,Chemistry ,Tumor Suppressor Proteins ,HIF-1 ,Estrogen Receptor alpha ,Ubiquitination ,Biological Sciences ,Hypoxia-Inducible Factor 1, alpha Subunit ,Ubiquitin ligase ,Cell biology ,Gene Expression Regulation, Neoplastic ,Cell Transformation, Neoplastic ,ADP-ribosylation ,biology.protein ,Poly(ADP-ribose) Polymerases ,Carcinogenesis - Abstract
Significance Our study establishes TiPARP as a turning-off mechanism for a number of important transcription factors, including HIF-1, c-Myc, and estrogen receptor. The study also establishes that TiPARP forms nuclear condensates in an ADP ribosylation-dependent manner, which provides important insights to understand how condensates formation is regulated by protein posttranslational modifications. On the therapeutic front, our study suggests that small molecules that activate TiPARP can be anticancer agents., Precisely controlling the activation of transcription factors is crucial for physiology. After a transcription factor is activated and carries out its transcriptional activity, it also needs to be properly deactivated. Here, we report a deactivation mechanism of HIF-1 and several other oncogenic transcription factors. HIF-1 promotes the transcription of an ADP ribosyltransferase, TiPARP, which serves to deactivate HIF-1. Mechanistically, TiPARP forms distinct nuclear condensates or nuclear bodies in an ADP ribosylation-dependent manner. The TiPARP nuclear bodies recruit both HIF-1α and an E3 ubiquitin ligase HUWE1, which promotes the ubiquitination and degradation of HIF-1α. Similarly, TiPARP promotes the degradation of c-Myc and estrogen receptor. By suppressing HIF-1α and other oncogenic transcription factors, TiPARP exerts strong antitumor effects both in cell culture and in mouse xenograft models. Our work reveals TiPARP as a negative-feedback regulator for multiple oncogenic transcription factors, provides insights into the functions of protein ADP-ribosylation, and suggests activating TiPARP as an anticancer strategy.
- Published
- 2020
46. NMT1 and NMT2 are lysine myristoyltransferases regulating the ARF6 GTPase cycle
- Author
-
Hening Lin, Neil L. Kelleher, Shuai Zhang, J. Christopher Fromme, Kayla N. Johnson, Min Yang, Chengliang Zhu, Ian R. Price, Steve Halaby, Tatsiana Kosciuk, Garrison Paul Komaniecki, Xiaoyu Zhang, Caroline J. DeHart, and Paul M. Thomas
- Subjects
0301 basic medicine ,Cell biology ,Acylation ,Science ,Lysine ,General Physics and Astronomy ,GTPase ,SIRT2 ,Crystallography, X-Ray ,Biochemistry ,Myristic Acid ,complex mixtures ,General Biochemistry, Genetics and Molecular Biology ,Article ,Cell Line ,03 medical and health sciences ,Sirtuin 2 ,Transferase ,Humans ,Amino Acid Sequence ,lcsh:Science ,Myristoylation ,Multidisciplinary ,030102 biochemistry & molecular biology ,Chemistry ,ADP-Ribosylation Factors ,General Chemistry ,Enzymes ,030104 developmental biology ,HEK293 Cells ,Structural biology ,ADP-Ribosylation Factor 6 ,Enzyme mechanisms ,bacteria ,lcsh:Q ,lipids (amino acids, peptides, and proteins) ,NAD+ kinase ,Fatty acylation ,Acyltransferases - Abstract
Lysine fatty acylation in mammalian cells was discovered nearly three decades ago, yet the enzymes catalyzing it remain unknown. Unexpectedly, we find that human N-terminal glycine myristoyltransferases (NMT) 1 and 2 can efficiently myristoylate specific lysine residues. They modify ADP-ribosylation factor 6 (ARF6) on lysine 3 allowing it to remain on membranes during the GTPase cycle. We demonstrate that the NAD+-dependent deacylase SIRT2 removes the myristoyl group, and our evidence suggests that NMT prefers the GTP-bound while SIRT2 prefers the GDP-bound ARF6. This allows the lysine myrisotylation-demyristoylation cycle to couple to and promote the GTPase cycle of ARF6. Our study provides an explanation for the puzzling dissimilarity of ARF6 to other ARFs and suggests the existence of other substrates regulated by this previously unknown function of NMT. Furthermore, we identified a NMT/SIRT2-ARF6 regulatory axis, which may offer new ways to treat human diseases., Lysine fatty acylation is an important protein posttranslational modification but mammalian lysine fatty acyl transferases have remained unknown so far. Here the authors report that the human N-terminal glycine myristoyltransferases 1 and 2 catalyze the addition of myristoyl chains to specific lysine residues and show that they myristoylate ARF6 lysine 3, which explains the unusual membrane binding properties of ARF6.
- Published
- 2020
47. Structural Basis of the Substrate Selectivity of Viperin
- Author
-
Hening Lin, Michael K. Fenwick, Steven E. Ealick, Dan Su, and Min Dong
- Subjects
Models, Molecular ,Cytidine triphosphate ,Stereochemistry ,Cytidine Triphosphate ,viruses ,Uridine Triphosphate ,Crystallography, X-Ray ,Biochemistry ,Article ,Substrate Specificity ,Mice ,chemistry.chemical_compound ,Animals ,Moiety ,heterocyclic compounds ,Nucleotide ,Enzyme kinetics ,Uridine triphosphate ,chemistry.chemical_classification ,Molecular Structure ,Chemistry ,Proteins ,Uracil ,S-Adenosylhomocysteine ,Kinetics ,enzymes and coenzymes (carbohydrates) ,Enzyme ,Viperin ,Mutation - Abstract
Viperin is a radical S-adenosylmethionine (SAM) enzyme that inhibits viral replication by converting cytidine triphosphate (CTP) into 3'-deoxy-3',4'-didehydro-CTP and by additional undefined mechanisms operating through its N- and C-terminal domains. Here, we describe crystal structures of viperin bound to a SAM analogue and CTP or uridine triphosphate (UTP) and report kinetic parameters for viperin-catalyzed reactions with CTP or UTP as substrates. Viperin orients the C4' hydrogen atom of CTP and UTP similarly for abstraction by a 5'-deoxyadenosyl radical, but the uracil moiety introduces unfavorable interactions that prevent tight binding of UTP. Consistently, kcat is similar for CTP and UTP whereas the Km for UTP is much greater. The structures also show that nucleotide binding results in ordering of the C-terminal tail and reveal that this region contains a P-loop that binds the γ-phosphate of the bound nucleotide. Collectively, the results explain the selectivity for CTP and reveal a structural role for the C-terminal tail in binding CTP and UTP.
- Published
- 2020
48. An improved 4′-aminomethyltrioxsalen-based nucleic acid crosslinker for biotinylation of double-stranded DNA or RNA
- Author
-
Miao Wang, Hening Lin, Abdullah Ozer, Min Yang, Kevin Wielenberg, and John T. Lis
- Subjects
0301 basic medicine ,010405 organic chemistry ,General Chemical Engineering ,technology, industry, and agriculture ,RNA ,macromolecular substances ,General Chemistry ,01 natural sciences ,In vitro ,0104 chemical sciences ,03 medical and health sciences ,chemistry.chemical_compound ,030104 developmental biology ,chemistry ,Biochemistry ,Covalent bond ,Biotinylation ,Nucleic acid ,Moiety ,heterocyclic compounds ,Psoralen ,DNA - Abstract
Nucleic acid crosslinkers that covalently join complementary strands of DNA/RNA have applications in both pharmaceuticals and as biochemical probes. Psoralen is a popular crosslinking moiety that reacts with double stranded DNA and RNA upon exposure to longwave UV light. The commercially available compound EZ-link psoralen-PEG3-biotin has been used in numerous studies to crosslink DNA and double-stranded RNA for genome-wide investigations. Here we present a new probe, AP3B, which uses the psoralen derivative, 4′-aminomethyltrioxsalen, to crosslink and biotinylate nucleic acids. We show that AP3B is 4 to 5 times more effective at labeling DNA in cells and produces a comparable number of crosslinks with over 100 times less compound and less exposure to UV light in vitro than EZ-link psoralen-PEG3-biotin.
- Published
- 2020
49. Reversible lysine fatty acylation of an anchoring protein mediates adipocyte adrenergic signaling
- Author
-
Rushita A. Bagchi, Emma L. Robinson, Tianjing Hu, Ji Cao, Jun Young Hong, Charles A. Tharp, Hanan Qasim, Kathleen M. Gavin, Julie Pires da Silva, Jennifer L. Major, Bradley K. McConnell, Edward Seto, Hening Lin, and Timothy A. McKinsey
- Subjects
Male ,Mice, Inbred C57BL ,Mice, Knockout ,Mice ,Multidisciplinary ,Gene Expression Regulation ,3T3-L1 Cells ,Acylation ,Lysine ,Adipocytes ,Animals ,Humans ,Histone Deacetylases - Abstract
Significance Recently, histone deacetylase 11 (HDAC11) was shown to function as an enzyme that removes lipids such as myristoyl groups from lysines in proteins, yet only one substrate of HDAC11 has been reported. Here, we define gravin-α/A kinase–anchoring protein 12 as a second HDAC11 substrate. By demyristoylating gravin-α in adipocytes, HDAC11 prevents β-adrenergic receptors (β-ARs), which are G protein–coupled receptors (GPCRs), from translocating to membrane microdomains that are required for downstream protective signaling by protein kinase A (PKA). These findings demonstrate a role for reversible lysine myristoylation in the control of GPCR signaling and lay the foundation for developing therapeutics for obesity based on enhancing β-AR signaling in adipose tissue by manipulating the HDAC11:gravin-α axis.
- Published
- 2022
50. The Acyl-CoA Specificity of Human Lysine Acetyltransferase KAT2A
- Author
-
Ananya Anmangandla, Yuxiang Ren, Qin Fu, Sheng Zhang, and Hening Lin
- Subjects
Histones ,Lysine ,Humans ,Acetylation ,Lysine Acetyltransferases ,Biochemistry ,Protein Processing, Post-Translational ,Histone Acetyltransferases - Abstract
Protein post-translational modification sserve to regulate a broad range of cellular functions including signal transduction, transcription, and metabolism. Protein lysine residue sundergo many post-translational acylations and are regulated by a range of enzymes, such as histone acetyl transferases (HATs)and histone deacetylases (HDACs).KAT2A,well characterized as a lysine acetyltransferase for both histone and nonhistone substrates, has been reported to tolerate addition alacyl-CoA substrates, such as succinyl-CoA, and shows nonacetyl transferase activity in specific biologicalcontexts.In thiswork, we investigatethe acyl-CoA substrate preference of KAT2A and attempt to determine whether and to what extent addition alacyl-CoA substrates may be utilized by KAT2A in a cellula rcontext. We show that while KAT2A can bind and utilize malonyl-CoA, its activity with succinyl-CoA or glutaryl-CoA is very weak, and acetylation is still the most efficient activity for KAT2A in vitro and in cells., Biochemistry, 61 (17), ISSN:0006-2960, ISSN:1520-4995
- Published
- 2022
- Full Text
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