1
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Welsh CL, Madan LK. Allostery in Protein Tyrosine Phosphatases is Enabled by Divergent Dynamics. J Chem Inf Model 2024; 64:1331-1346. [PMID: 38346324 PMCID: PMC11144062 DOI: 10.1021/acs.jcim.3c01615] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/27/2024]
Abstract
Dynamics-driven allostery provides important insights into the working mechanics of proteins, especially enzymes. In this study, we employ this paradigm to answer a basic question: in enzyme superfamilies, where the catalytic mechanism, active sites, and protein fold are conserved, what accounts for the difference in the catalytic prowess of the individual members? We show that when subtle changes in sequence do not translate to changes in structure, they do translate to changes in dynamics. We use sequentially diverse PTP1B, TbPTP1, and YopH as representatives of the conserved protein tyrosine phosphatase (PTP) superfamily. Using amino acid network analysis of group behavior (community analysis) and influential node dominance on networks (eigenvector centrality), we explain the dynamic basis of the catalytic variations seen between the three proteins. Importantly, we explain how a dynamics-based blueprint makes PTP1B amenable to allosteric control and how the same is abstracted in TbPTP1 and YopH.
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Affiliation(s)
- Colin L Welsh
- Department of Cell and Molecular Pharmacology & Experimental Therapeutics, College of Medicine, Medical University of South Carolina, Charleston, South Carolina 29425, United States
| | - Lalima K Madan
- Department of Cell and Molecular Pharmacology & Experimental Therapeutics, College of Medicine, Medical University of South Carolina, Charleston, South Carolina 29425, United States
- Hollings Cancer Center, Medical University of South Carolina, Charleston, South Carolina 29425, United States
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2
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Welsh CL, Madan LK. Allostery in Protein Tyrosine Phosphatases is Enabled by Divergent Dynamics. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.07.23.550226. [PMID: 37547015 PMCID: PMC10402003 DOI: 10.1101/2023.07.23.550226] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 08/08/2023]
Abstract
Dynamics-driven allostery provides important insights into the working mechanics of proteins, especially enzymes. In this study we employ this paradigm to answer a basic question: in enzyme superfamilies where the catalytic mechanism, active sites and protein fold are conserved, what accounts for the difference in the catalytic prowess of the individual members? We show that when subtle changes in sequence do not translate to changes in structure, they do translate to changes in dynamics. We use sequentially diverse PTP1B, TbPTP1, and YopH as the representatives of the conserved Protein Tyrosine Phosphatase (PTP) superfamily. Using amino acid network analysis of group behavior (community analysis) and influential node dominance on networks (eigenvector centrality), we explain the dynamic basis of catalytic variations seen between the three proteins. Importantly, we explain how a dynamics-based blueprint makes PTP1B amenable to allosteric control and how the same is abstracted in TbPTP1 and YopH.
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3
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Deshpande TA, Martínez-Málaga J, Priefer R. Dithiocarbamates as potential PTP1B inhibitors for diabetes management. RESULTS IN CHEMISTRY 2022. [DOI: 10.1016/j.rechem.2022.100372] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022] Open
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4
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Sledzieski S, Singh R, Cowen L, Berger B. D-SCRIPT translates genome to phenome with sequence-based, structure-aware, genome-scale predictions of protein-protein interactions. Cell Syst 2021; 12:969-982.e6. [PMID: 34536380 PMCID: PMC8586911 DOI: 10.1016/j.cels.2021.08.010] [Citation(s) in RCA: 42] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2021] [Revised: 08/01/2021] [Accepted: 08/19/2021] [Indexed: 11/29/2022]
Abstract
We combine advances in neural language modeling and structurally motivated design to develop D-SCRIPT, an interpretable and generalizable deep-learning model, which predicts interaction between two proteins using only their sequence and maintains high accuracy with limited training data and across species. We show that a D-SCRIPT model trained on 38,345 human PPIs enables significantly improved functional characterization of fly proteins compared with the state-of-the-art approach. Evaluating the same D-SCRIPT model on protein complexes with known 3D structure, we find that the inter-protein contact map output by D-SCRIPT has significant overlap with the ground truth. We apply D-SCRIPT to screen for PPIs in cow (Bos taurus) at a genome-wide scale and focusing on rumen physiology, identify functional gene modules related to metabolism and immune response. The predicted interactions can then be leveraged for function prediction at scale, addressing the genome-to-phenome challenge, especially in species where little data are available.
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Affiliation(s)
- Samuel Sledzieski
- Computer Science and Artificial Intelligence Lab., Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Rohit Singh
- Computer Science and Artificial Intelligence Lab., Massachusetts Institute of Technology, Cambridge, MA 02139, USA
| | - Lenore Cowen
- Department of Computer Science, Tufts University, Medford, MA 02155, USA.
| | - Bonnie Berger
- Computer Science and Artificial Intelligence Lab., Massachusetts Institute of Technology, Cambridge, MA 02139, USA; Department of Mathematics, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
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Phosphorylation Dynamics of JNK Signaling: Effects of Dual-Specificity Phosphatases (DUSPs) on the JNK Pathway. Int J Mol Sci 2019; 20:ijms20246157. [PMID: 31817617 PMCID: PMC6941053 DOI: 10.3390/ijms20246157] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2019] [Revised: 11/30/2019] [Accepted: 12/04/2019] [Indexed: 02/06/2023] Open
Abstract
Protein phosphorylation affects conformational change, interaction, catalytic activity, and subcellular localization of proteins. Because the post-modification of proteins regulates diverse cellular signaling pathways, the precise control of phosphorylation states is essential for maintaining cellular homeostasis. Kinases function as phosphorylating enzymes, and phosphatases dephosphorylate their target substrates, typically in a much shorter time. The c-Jun N-terminal kinase (JNK) signaling pathway, a mitogen-activated protein kinase pathway, is regulated by a cascade of kinases and in turn regulates other physiological processes, such as cell differentiation, apoptosis, neuronal functions, and embryonic development. However, the activation of the JNK pathway is also implicated in human pathologies such as cancer, neurodegenerative diseases, and inflammatory diseases. Therefore, the proper balance between activation and inactivation of the JNK pathway needs to be tightly regulated. Dual specificity phosphatases (DUSPs) regulate the magnitude and duration of signal transduction of the JNK pathway by dephosphorylating their substrates. In this review, we will discuss the dynamics of phosphorylation/dephosphorylation, the mechanism of JNK pathway regulation by DUSPs, and the new possibilities of targeting DUSPs in JNK-related diseases elucidated in recent studies.
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6
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Moura M, Conde C. Phosphatases in Mitosis: Roles and Regulation. Biomolecules 2019; 9:E55. [PMID: 30736436 PMCID: PMC6406801 DOI: 10.3390/biom9020055] [Citation(s) in RCA: 47] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2018] [Revised: 01/31/2019] [Accepted: 02/01/2019] [Indexed: 02/07/2023] Open
Abstract
Mitosis requires extensive rearrangement of cellular architecture and of subcellular structures so that replicated chromosomes can bind correctly to spindle microtubules and segregate towards opposite poles. This process originates two new daughter nuclei with equal genetic content and relies on highly-dynamic and tightly regulated phosphorylation of numerous cell cycle proteins. A burst in protein phosphorylation orchestrated by several conserved kinases occurs as cells go into and progress through mitosis. The opposing dephosphorylation events are catalyzed by a small set of protein phosphatases, whose importance for the accuracy of mitosis is becoming increasingly appreciated. This review will focus on the established and emerging roles of mitotic phosphatases, describe their structural and biochemical properties, and discuss recent advances in understanding the regulation of phosphatase activity and function.
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Affiliation(s)
- Margarida Moura
- IBMC-Instituto de Biologia Molecular e Celular, Universidade do Porto, 4200-135 Porto, Portugal.
- i3S-Instituto de Investigação e Inovação em Saúde da Universidade do Porto, 4200-135, Porto, Portugal.
- Programa Doutoral em Biologia Molecular e Celular (MCbiology), Instituto de Ciências Biomédicas Abel Salazar (ICBAS), Universidade do Porto, 4050-313 Porto, Portugal.
| | - Carlos Conde
- IBMC-Instituto de Biologia Molecular e Celular, Universidade do Porto, 4200-135 Porto, Portugal.
- i3S-Instituto de Investigação e Inovação em Saúde da Universidade do Porto, 4200-135, Porto, Portugal.
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Structure and Molecular Dynamics Simulations of Protein Tyrosine Phosphatase Non-Receptor 12 Provide Insights into the Catalytic Mechanism of the Enzyme. Int J Mol Sci 2017; 19:ijms19010060. [PMID: 29278368 PMCID: PMC5796010 DOI: 10.3390/ijms19010060] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2017] [Revised: 12/21/2017] [Accepted: 12/23/2017] [Indexed: 01/19/2023] Open
Abstract
Protein tyrosine phosphatase non-receptor 12 (PTPN12) is an important protein tyrosine phosphatase involved in regulating cell adhesion and migration as well as tumorigenesis. Here, we solved a crystal structure of the native PTPN12 catalytic domain with the catalytic cysteine (residue 231) in dual conformation (phosphorylated and unphosphorylated). Combined with molecular dynamics simulation data, we concluded that those two conformations represent different states of the protein which are realized during the dephosphorylation reaction. Together with docking and mutagenesis data, our results provide a molecular basis for understanding the catalytic mechanism of PTPN12 and its role in tumorigenesis.
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Wang WL, Chen XY, Gao Y, Gao LX, Sheng L, Zhu J, Xu L, Ding ZZ, Zhang C, Li JY, Li J, Zhou YB. Benzo[ c ][1,2,5]thiadiazole derivatives: A new class of potent Src homology-2 domain containing protein tyrosine phosphatase-2 (SHP2) inhibitors. Bioorg Med Chem Lett 2017; 27:5154-5157. [DOI: 10.1016/j.bmcl.2017.10.059] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2017] [Revised: 10/23/2017] [Accepted: 10/24/2017] [Indexed: 11/16/2022]
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9
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Cilibrizzi A, Fedorova M, Collins J, Leatherbarrow R, Woscholski R, Vilar R. A tri-functional vanadium(iv) complex to detect cysteine oxidation. Dalton Trans 2017; 46:6994-7004. [PMID: 28513686 DOI: 10.1039/c7dt00076f] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The development of effective molecular probes to detect and image the levels of oxidative stress in cells remains a challenge. Herein we report the design, synthesis and preliminary biological evaluation of a novel optical probe to monitor oxidation of thiol groups in cysteine-based phosphatases (CBPs). Following orthogonal protecting approaches we synthesised a new vanadyl complex designed to bind to CBPs. This complex is functionalised with a well-known dimedone derivative (to covalently trap sulfenic acids, SOHs) and a coumarin-based fluorophore for optical visualization. We show that this new probe efficiently binds to a range of phosphatases in vitro with nanomolar affinity. Moreover, preliminary flow cytometry and microscopy studies in live HCT116 cells show that this probe can successfully image cellular levels of sulfenic acids - one of the species resulting from protein oxidative damage.
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10
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Bong SM, Son KB, Yang SW, Park JW, Cho JW, Kim KT, Kim H, Kim SJ, Kim YJ, Lee BI. Crystal Structure of Human Myotubularin-Related Protein 1 Provides Insight into the Structural Basis of Substrate Specificity. PLoS One 2016; 11:e0152611. [PMID: 27018598 PMCID: PMC4809516 DOI: 10.1371/journal.pone.0152611] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Accepted: 03/16/2016] [Indexed: 01/07/2023] Open
Abstract
Myotubularin-related protein 1 (MTMR1) is a phosphatase that belongs to the tyrosine/dual-specificity phosphatase superfamily. MTMR1 has been shown to use phosphatidylinositol 3-monophosphate (PI(3)P) and/or phosphatidylinositol 3,5-bisphosphate (PI(3,5)P2) as substrates. Here, we determined the crystal structure of human MTMR1. The refined model consists of the Pleckstrin homology (PH)-GRAM and phosphatase (PTP) domains. The overall structure was highly similar to the previously reported MTMR2 structure. Interestingly, two phosphate molecules were coordinated by strictly conserved residues located in the C(X)5R motif of the active site. Additionally, our biochemical studies confirmed the substrate specificity of MTMR1 for PI(3)P and PI(3,5)P2 over other phosphatidylinositol phosphates. Our structural and enzymatic analyses provide insight into the catalytic mechanism and biochemical properties of MTMR1.
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Affiliation(s)
- Seoung Min Bong
- Research institute, National Cancer Center, Goyang, Gyeonggi 10408, Republic of Korea
| | - Kka-bi Son
- Department of Biomedical Chemistry, Konkuk University, Chungju 27478, Republic of Korea
| | - Seung-Won Yang
- Research institute, National Cancer Center, Goyang, Gyeonggi 10408, Republic of Korea
| | - Jae-Won Park
- Research institute, National Cancer Center, Goyang, Gyeonggi 10408, Republic of Korea
| | - Jea-Won Cho
- Research institute, National Cancer Center, Goyang, Gyeonggi 10408, Republic of Korea
| | - Kyung-Tae Kim
- Research institute, National Cancer Center, Goyang, Gyeonggi 10408, Republic of Korea
| | - Hackyoung Kim
- Department of Biomedical Chemistry, Konkuk University, Chungju 27478, Republic of Korea
| | - Seung Jun Kim
- Medical Proteomics Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon 34141, Republic of Korea
| | - Young Jun Kim
- Department of Biomedical Chemistry, Konkuk University, Chungju 27478, Republic of Korea
- * E-mail: (YJK); (BIL)
| | - Byung Il Lee
- Research institute, National Cancer Center, Goyang, Gyeonggi 10408, Republic of Korea
- * E-mail: (YJK); (BIL)
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11
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A conserved motif in JNK/p38-specific MAPK phosphatases as a determinant for JNK1 recognition and inactivation. Nat Commun 2016; 7:10879. [PMID: 26988444 PMCID: PMC4802042 DOI: 10.1038/ncomms10879] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2015] [Accepted: 01/28/2016] [Indexed: 02/06/2023] Open
Abstract
Mitogen-activated protein kinases (MAPKs), important in a large array of signalling pathways, are tightly controlled by a cascade of protein kinases and by MAPK phosphatases (MKPs). MAPK signalling efficiency and specificity is modulated by protein–protein interactions between individual MAPKs and the docking motifs in cognate binding partners. Two types of docking interactions have been identified: D-motif-mediated interaction and FXF-docking interaction. Here we report the crystal structure of JNK1 bound to the catalytic domain of MKP7 at 2.4-Å resolution, providing high-resolution structural insight into the FXF-docking interaction. The 285FNFL288 segment in MKP7 directly binds to a hydrophobic site on JNK1 that is near the MAPK insertion and helix αG. Biochemical studies further reveal that this highly conserved structural motif is present in all members of the MKP family, and the interaction mode is universal and critical for the MKP-MAPK recognition and biological function. The important MAPK family of signalling proteins is controlled by MAPK phosphatases (MKPs). Here, the authors report the structure of MKP7 bound to JNK1 and characterise the conserved MKP-MAPK interaction.
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Phosphotyrosine Substrate Sequence Motifs for Dual Specificity Phosphatases. PLoS One 2015; 10:e0134984. [PMID: 26302245 PMCID: PMC4547750 DOI: 10.1371/journal.pone.0134984] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2015] [Accepted: 07/13/2015] [Indexed: 12/19/2022] Open
Abstract
Protein tyrosine phosphatases dephosphorylate tyrosine residues of proteins, whereas, dual specificity phosphatases (DUSPs) are a subgroup of protein tyrosine phosphatases that dephosphorylate not only Tyr(P) residue, but also the Ser(P) and Thr(P) residues of proteins. The DUSPs are linked to the regulation of many cellular functions and signaling pathways. Though many cellular targets of DUSPs are known, the relationship between catalytic activity and substrate specificity is poorly defined. We investigated the interactions of peptide substrates with select DUSPs of four types: MAP kinases (DUSP1 and DUSP7), atypical (DUSP3, DUSP14, DUSP22 and DUSP27), viral (variola VH1), and Cdc25 (A-C). Phosphatase recognition sites were experimentally determined by measuring dephosphorylation of 6,218 microarrayed Tyr(P) peptides representing confirmed and theoretical phosphorylation motifs from the cellular proteome. A broad continuum of dephosphorylation was observed across the microarrayed peptide substrates for all phosphatases, suggesting a complex relationship between substrate sequence recognition and optimal activity. Further analysis of peptide dephosphorylation by hierarchical clustering indicated that DUSPs could be organized by substrate sequence motifs, and peptide-specificities by phylogenetic relationships among the catalytic domains. The most highly dephosphorylated peptides represented proteins from 29 cell-signaling pathways, greatly expanding the list of potential targets of DUSPs. These newly identified DUSP substrates will be important for examining structure-activity relationships with physiologically relevant targets.
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Samofalova DA, Karpov PA, Blume YB. Bioinformatic comparison of human and higher plant phosphatomes. CYTOL GENET+ 2015. [DOI: 10.3103/s0095452715040088] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
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14
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Wang WL, Huang C, Gao LX, Tang CL, Wang JQ, Wu MC, Sheng L, Chen HJ, Nan FJ, Li JY, Li J, Feng B. Synthesis and biological evaluation of novel bis-aromatic amides as novel PTP1B inhibitors. Bioorg Med Chem Lett 2014; 24:1889-94. [DOI: 10.1016/j.bmcl.2014.03.015] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2014] [Revised: 03/05/2014] [Accepted: 03/07/2014] [Indexed: 11/30/2022]
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15
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Wang WL, Yang DL, Gao LX, Tang CL, Ma WP, Ye HH, Zhang SQ, Zhao YN, Xu HJ, Hu Z, Chen X, Fan WH, Chen HJ, Li JY, Nan FJ, Li J, Feng B. 1H-2,3-dihydroperimidine derivatives: a new class of potent protein tyrosine phosphatase 1B inhibitors. Molecules 2013; 19:102-21. [PMID: 24366088 PMCID: PMC6271978 DOI: 10.3390/molecules19010102] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2013] [Revised: 12/12/2013] [Accepted: 12/13/2013] [Indexed: 11/21/2022] Open
Abstract
A series of 1H-2,3-dihydroperimidine derivatives was designed, synthesized, and evaluated as a new class of inhibitors of protein tyrosine phosphatase 1B (PTP1B) with IC50 values in the micromolar range. Compounds 46 and 49 showed submicromolar inhibitory activity against PTP1B, and good selectivity (3.48-fold and 2.10-fold respectively) over T-cell protein tyrosine phosphatases (TCPTP). These results have provided novel lead compounds for the design of inhibitors of PTP1B as well as other PTPs.
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Affiliation(s)
- Wen-Long Wang
- School of Pharmaceutical Science, Jiangnan University, Wuxi 214122, China; E-Mails: (D.-L.Y.); (H.-H.Y.); (S.-Q.Z.); (Y.-N.Z.); (H.-J.X.); (Z.H.); (X.C.)
- State key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China; E-Mails: (L.-X.G.); (C.-L.T.); (W.-P.M.); (H.-J.C.); (J.-Y.L.); (F.-J.N.)
- Jiangshu Alpha Biopharmaceuticals, Inc. Wuxi 214122, China; E-Mail:
- Authors to whom correspondence should be addressed; E-Mails: (W.-L.W.); (B.F.); Tel.: +86-510-8519-7052(B.F.); Fax: +86-510-8519-7052 (B.F.)
| | - Dong-Lin Yang
- School of Pharmaceutical Science, Jiangnan University, Wuxi 214122, China; E-Mails: (D.-L.Y.); (H.-H.Y.); (S.-Q.Z.); (Y.-N.Z.); (H.-J.X.); (Z.H.); (X.C.)
| | - Li-Xin Gao
- State key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China; E-Mails: (L.-X.G.); (C.-L.T.); (W.-P.M.); (H.-J.C.); (J.-Y.L.); (F.-J.N.)
| | - Chun-Lan Tang
- State key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China; E-Mails: (L.-X.G.); (C.-L.T.); (W.-P.M.); (H.-J.C.); (J.-Y.L.); (F.-J.N.)
| | - Wei-Ping Ma
- State key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China; E-Mails: (L.-X.G.); (C.-L.T.); (W.-P.M.); (H.-J.C.); (J.-Y.L.); (F.-J.N.)
| | - Hui-Hua Ye
- School of Pharmaceutical Science, Jiangnan University, Wuxi 214122, China; E-Mails: (D.-L.Y.); (H.-H.Y.); (S.-Q.Z.); (Y.-N.Z.); (H.-J.X.); (Z.H.); (X.C.)
| | - Si-Qi Zhang
- School of Pharmaceutical Science, Jiangnan University, Wuxi 214122, China; E-Mails: (D.-L.Y.); (H.-H.Y.); (S.-Q.Z.); (Y.-N.Z.); (H.-J.X.); (Z.H.); (X.C.)
| | - Ya-Nan Zhao
- School of Pharmaceutical Science, Jiangnan University, Wuxi 214122, China; E-Mails: (D.-L.Y.); (H.-H.Y.); (S.-Q.Z.); (Y.-N.Z.); (H.-J.X.); (Z.H.); (X.C.)
| | - Hao-Jie Xu
- School of Pharmaceutical Science, Jiangnan University, Wuxi 214122, China; E-Mails: (D.-L.Y.); (H.-H.Y.); (S.-Q.Z.); (Y.-N.Z.); (H.-J.X.); (Z.H.); (X.C.)
| | - Zhao Hu
- School of Pharmaceutical Science, Jiangnan University, Wuxi 214122, China; E-Mails: (D.-L.Y.); (H.-H.Y.); (S.-Q.Z.); (Y.-N.Z.); (H.-J.X.); (Z.H.); (X.C.)
| | - Xia Chen
- School of Pharmaceutical Science, Jiangnan University, Wuxi 214122, China; E-Mails: (D.-L.Y.); (H.-H.Y.); (S.-Q.Z.); (Y.-N.Z.); (H.-J.X.); (Z.H.); (X.C.)
| | - Wen-Hua Fan
- Jiangshu Alpha Biopharmaceuticals, Inc. Wuxi 214122, China; E-Mail:
| | - Hai-Jun Chen
- State key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China; E-Mails: (L.-X.G.); (C.-L.T.); (W.-P.M.); (H.-J.C.); (J.-Y.L.); (F.-J.N.)
| | - Jing-Ya Li
- State key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China; E-Mails: (L.-X.G.); (C.-L.T.); (W.-P.M.); (H.-J.C.); (J.-Y.L.); (F.-J.N.)
| | - Fa-Jun Nan
- State key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China; E-Mails: (L.-X.G.); (C.-L.T.); (W.-P.M.); (H.-J.C.); (J.-Y.L.); (F.-J.N.)
| | - Jia Li
- State key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China; E-Mails: (L.-X.G.); (C.-L.T.); (W.-P.M.); (H.-J.C.); (J.-Y.L.); (F.-J.N.)
- Authors to whom correspondence should be addressed; E-Mails: (W.-L.W.); (B.F.); Tel.: +86-510-8519-7052(B.F.); Fax: +86-510-8519-7052 (B.F.)
| | - Bainian Feng
- School of Pharmaceutical Science, Jiangnan University, Wuxi 214122, China; E-Mails: (D.-L.Y.); (H.-H.Y.); (S.-Q.Z.); (Y.-N.Z.); (H.-J.X.); (Z.H.); (X.C.)
- Jiangshu Alpha Biopharmaceuticals, Inc. Wuxi 214122, China; E-Mail:
- Authors to whom correspondence should be addressed; E-Mails: (W.-L.W.); (B.F.); Tel.: +86-510-8519-7052(B.F.); Fax: +86-510-8519-7052 (B.F.)
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Shannon DA, Weerapana E. Orphan PTMs: Rare, yet functionally important modifications of cysteine. Biopolymers 2013; 101:156-64. [DOI: 10.1002/bip.22252] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2013] [Accepted: 04/01/2013] [Indexed: 12/16/2022]
Affiliation(s)
- D. Alexander Shannon
- Department of Chemistry; Merkert Chemistry Center, Boston College; Chestnut Hill MA 02467
| | - Eranthie Weerapana
- Department of Chemistry; Merkert Chemistry Center, Boston College; Chestnut Hill MA 02467
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17
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Shin SH, Kang SS. Phosphorylation of Tip60 Tyrosine 327 by Abl Kinase Inhibits HAT Activity through Association with FE65. Open Biochem J 2013. [PMID: 24044023 PMCID: PMC3772572 DOI: 10.2174/1874091x20130622002] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
The transfer of acetyl groups from acetyl coenzyme A to the ε amino group of internal lysine residues is catalyzed by Tip60, which is in the MYST family of nuclear histone acetyltransferases (HATs). The tyrosine phosphorylation of Tip60 seems to be a unique modification. We present evidence that Tip60 is modified on tyrosine 327 by Abl kinase. We show that this causes functional changes in HAT activity and the subcellular localization of TIP60, which forms a complex with Abl kinase. The Tip60 mutation Y327F abolished tyrosine phosphorylation, reduced the inhibition of Tip60 HAT activity, and caused G0-G1 arrest and association with FE65. Thus, our findings for the first time suggested a novel regulation mechanism of Tip60. Regulation was through phosphorylation of tyrosine 327 by Abl tyrosine kinase and depended on environmental conditions, suggesting that the tyrosine residue of Tip60 is important for the activation process.
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Affiliation(s)
- Sung Hwa Shin
- Department of Biology Education, Chungbuk National University, 410 Seongbong Road, Heungdok-gu, Cheongju, Chungbuk, 361-763, Republic of Korea ; Bio Center, Chungbuk Technopark, Ochang-eup, Cheongwon, Chungbuk, 363-883, Republic of Korea
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Shin SH, Kang SS. Phosphorylation of Tip60 Tyrosine 327 by Abl Kinase Inhibits HAT Activity through Association with FE65. Open Biochem J 2013; 7:66-72. [PMID: 24044023 DOI: 10.2174/1874091x20130621002] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2013] [Revised: 05/21/2013] [Accepted: 05/27/2013] [Indexed: 11/22/2022] Open
Abstract
The transfer of acetyl groups from acetyl coenzyme A to the ε amino group of internal lysine residues is catalyzed by Tip60, which is in the MYST family of nuclear histone acetyltransferases (HATs). The tyrosine phosphorylation of Tip60 seems to be a unique modification. We present evidence that Tip60 is modified on tyrosine 327 by Abl kinase. We show that this causes functional changes in HAT activity and the subcellular localization of TIP60, which forms a complex with Abl kinase. The Tip60 mutation Y327F abolished tyrosine phosphorylation, reduced the inhibition of Tip60 HAT activity, and caused G0-G1 arrest and association with FE65. Thus, our findings for the first time suggested a novel regulation mechanism of Tip60. Regulation was through phosphorylation of tyrosine 327 by Abl tyrosine kinase and depended on environmental conditions, suggesting that the tyrosine residue of Tip60 is important for the activation process.
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Affiliation(s)
- Sung Hwa Shin
- Department of Biology Education, Chungbuk National University, 410 Seongbong Road, Heungdok-gu, Cheongju, Chungbuk, 361-763, Republic of Korea ; Bio Center, Chungbuk Technopark, Ochang-eup, Cheongwon, Chungbuk, 363-883, Republic of Korea
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