14-3-3 scaffold proteins mediate the inactivation of trim25 and inhibition of the type I interferon response by herpesvirus deconjugases
Autoři:
Soham Gupta aff001; Päivi Ylä-Anttila aff001; Tatyana Sandalova aff002; Renhua Sun aff002; Adnane Achour aff002; Maria G. Masucci aff001
Působiště autorů:
Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, Sweden
aff001; Science for Life Laboratory, Campus Solna, Stockholm, Sweden
aff002; Department of Medicine, Karolinska Institute, Stockholm, Sweden
aff003; Division of Infectious Diseases, Karolinska University Hospital, Stockholm, Sweden
aff004
Vyšlo v časopise:
14-3-3 scaffold proteins mediate the inactivation of trim25 and inhibition of the type I interferon response by herpesvirus deconjugases. PLoS Pathog 15(11): e32767. doi:10.1371/journal.ppat.1008146
Kategorie:
Research Article
doi:
https://doi.org/10.1371/journal.ppat.1008146
Souhrn
The 14-3-3 molecular scaffolds promote type I interferon (IFN) responses by stabilizing the interaction of RIG-I with the TRIM25 ligase. Viruses have evolved unique strategies to halt this cellular response to support their replication and spread. Here, we report that the ubiquitin deconjugase encoded in the N-terminus of the Epstein-Barr virus (EBV) large tegument protein BPLF1 harnesses 14-3-3 molecules to promote TRIM25 autoubiquitination and sequestration of the ligase into inactive protein aggregates. Catalytically inactive BPLF1 induced K48-linked autoubiquitination and degradation of TRIM25 while the ligase was mono- or di-ubiquitinated in the presence of the active viral enzyme and formed cytosolic aggregates decorated by the autophagy receptor p62/SQSTM1. Aggregate formation and the inhibition of IFN response were abolished by mutations of solvent exposed residues in helix-2 of BPLF1 that prevented binding to 14-3-3 while preserving both catalytic activity and binding to TRIM25. 14-3-3 interacted with the Coiled-Coil (CC) domain of TRIM25 in in vitro pulldown, while BPLF1 interacted with both the CC and B-box domains, suggesting that 14-3-3 positions BPLF1 at the ends of the CC dimer, close to known autoubiquitination sites. Our findings provide a molecular understanding of the mechanism by which a viral deubiquitinase inhibits the IFN response and emphasize the role of 14-3-3 proteins in modulating antiviral defenses.
Klíčová slova:
Crystal structure – Dimers – HeLa cells – Immunoprecipitation – Transfection – Ubiquitination – Ligases
Zdroje
1. Takeuchi O, Akira S. Innate immunity to virus infection. Immunol Rev. 2009;227(1):75–86. doi: 10.1111/j.1600-065X.2008.00737.x 19120477
2. Clement JF, Meloche S, Servant MJ. The IKK-related kinases: from innate immunity to oncogenesis. Cell Res. 2008;18(9):889–99. doi: 10.1038/cr.2008.273 19160540
3. Heaton SM, Borg NA, Dixit VM. Ubiquitin in the activation and attenuation of innate antiviral immunity. J Exp Med. 2016;213(1):1–13. doi: 10.1084/jem.20151531 26712804
4. Glickman MH, Ciechanover A. The ubiquitin-proteasome proteolytic pathway: destruction for the sake of construction. Physiol Rev. 2002;82(2):373–428. doi: 10.1152/physrev.00027.2001 11917093
5. Kwon YT, Ciechanover A. The Ubiquitin Code in the Ubiquitin-Proteasome System and Autophagy. Trends Biochem Sci. 2017;42(11):873–86. doi: 10.1016/j.tibs.2017.09.002 28947091
6. Komander D, Clague MJ, Urbe S. Breaking the chains: structure and function of the deubiquitinases. Nat Rev Mol Cell Biol. 2009;10(8):550–63. doi: 10.1038/nrm2731 19626045
7. Zhang Y, Li LF, Munir M, Qiu HJ. RING-Domain E3 Ligase-Mediated Host-Virus Interactions: Orchestrating Immune Responses by the Host and Antagonizing Immune Defense by Viruses. Front Immunol. 2018;9:1083. doi: 10.3389/fimmu.2018.01083 29872431
8. McNab FW, Rajsbaum R, Stoye JP, O'Garra A. Tripartite-motif proteins and innate immune regulation. Curr Opin Immunol. 2011;23(1):46–56. doi: 10.1016/j.coi.2010.10.021 21131187
9. Esposito D, Koliopoulos MG, Rittinger K. Structural determinants of TRIM protein function. Biochem Soc Trans. 2017;45(1):183–91. doi: 10.1042/BST20160325 28202672
10. Sanchez JG, Sparrer KMJ, Chiang C, Reis RA, Chiang JJ, Zurenski MA, et al. TRIM25 binds RNA to modulate cellular anti-viral defense. J Mol Biol. 2018.
11. Jefferies C, Wynne C, Higgs R. Antiviral TRIMs: friend or foe in autoimmune and autoinflammatory disease? Nat Rev Immunol. 2011;11(9):617–25. doi: 10.1038/nri3043 21866173
12. Wang K, Zou C, Wang X, Huang C, Feng T, Pan W, et al. Interferon-stimulated TRIM69 interrupts dengue virus replication by ubiquitinating viral nonstructural protein 3. PLoS Pathog. 2018;14(8):e1007287. doi: 10.1371/journal.ppat.1007287 30142214
13. Di Pietro A, Kajaste-Rudnitski A, Oteiza A, Nicora L, Towers GJ, Mechti N, et al. TRIM22 inhibits influenza A virus infection by targeting the viral nucleoprotein for degradation. J Virol. 2013;87(8):4523–33. doi: 10.1128/JVI.02548-12 23408607
14. Beachboard DC, Horner SM. Innate immune evasion strategies of DNA and RNA viruses. Curr Opin Microbiol. 2016;32:113–9. doi: 10.1016/j.mib.2016.05.015 27288760
15. Martin-Vicente M, Medrano LM, Resino S, Garcia-Sastre A, Martinez I. TRIM25 in the Regulation of the Antiviral Innate Immunity. Front Immunol. 2017;8:1187. doi: 10.3389/fimmu.2017.01187 29018447
16. Gack MU, Shin YC, Joo CH, Urano T, Liang C, Sun L, et al. TRIM25 RING-finger E3 ubiquitin ligase is essential for RIG-I-mediated antiviral activity. Nature. 2007;446(7138):916–20. doi: 10.1038/nature05732 17392790
17. Castanier C, Zemirli N, Portier A, Garcin D, Bidere N, Vazquez A, et al. MAVS ubiquitination by the E3 ligase TRIM25 and degradation by the proteasome is involved in type I interferon production after activation of the antiviral RIG-I-like receptors. BMC Biol. 2012;10:44. doi: 10.1186/1741-7007-10-44 22626058
18. Inn KS, Gack MU, Tokunaga F, Shi M, Wong LY, Iwai K, et al. Linear ubiquitin assembly complex negatively regulates RIG-I- and TRIM25-mediated type I interferon induction. Mol Cell. 2011;41(3):354–65. doi: 10.1016/j.molcel.2010.12.029 21292167
19. Pauli EK, Chan YK, Davis ME, Gableske S, Wang MK, Feister KF, et al. The ubiquitin-specific protease USP15 promotes RIG-I-mediated antiviral signaling by deubiquitylating TRIM25. Sci Signal. 2014;7(307):ra3. doi: 10.1126/scisignal.2004577 24399297
20. Munir M. TRIM proteins: another class of viral victims. Sci Signal. 2010;3(118):jc2. doi: 10.1126/scisignal.3118jc2 20407122
21. Koliopoulos MG, Lethier M, van der Veen AG, Haubrich K, Hennig J, Kowalinski E, et al. Molecular mechanism of influenza A NS1-mediated TRIM25 recognition and inhibition. Nat Commun. 2018;9(1):1820. doi: 10.1038/s41467-018-04214-8 29739942
22. Sanchez-Aparicio MT, Feinman LJ, Garcia-Sastre A, Shaw ML. Paramyxovirus V Proteins Interact with the RIG-I/TRIM25 Regulatory Complex and Inhibit RIG-I Signaling. J Virol. 2018;92(6).
23. Chiang C, Pauli EK, Biryukov J, Feister KF, Meng M, White EA, et al. The Human Papillomavirus E6 Oncoprotein Targets USP15 and TRIM25 To Suppress RIG-I-Mediated Innate Immune Signaling. J Virol. 2018;92(6).
24. Inn KS, Lee SH, Rathbun JY, Wong LY, Toth Z, Machida K, et al. Inhibition of RIG-I-mediated signaling by Kaposi's sarcoma-associated herpesvirus-encoded deubiquitinase ORF64. J Virol. 2011;85(20):10899–904. doi: 10.1128/JVI.00690-11 21835791
25. Scott I. Degradation of RIG-I following cytomegalovirus infection is independent of apoptosis. Microbes Infect. 2009;11(12):973–9. doi: 10.1016/j.micinf.2009.07.001 19591957
26. Gupta S, Yla-Anttila P, Callegari S, Tsai MH, Delecluse HJ, Masucci MG. Herpesvirus deconjugases inhibit the IFN response by promoting TRIM25 autoubiquitination and functional inactivation of the RIG-I signalosome. PLoS Pathog. 2018;14(1):e1006852. doi: 10.1371/journal.ppat.1006852 29357390
27. Liu HM, Loo YM, Horner SM, Zornetzer GA, Katze MG, Gale M Jr. The mitochondrial targeting chaperone 14-3-3epsilon regulates a RIG-I translocon that mediates membrane association and innate antiviral immunity. Cell Host Microbe. 2012;11(5):528–37. doi: 10.1016/j.chom.2012.04.006 22607805
28. Yaffe MB, Rittinger K, Volinia S, Caron PR, Aitken A, Leffers H, et al. The structural basis for 14-3-3:phosphopeptide binding specificity. Cell. 1997;91(7):961–71. doi: 10.1016/s0092-8674(00)80487-0 9428519
29. Braselmann S, McCormick F. Bcr and Raf form a complex in vivo via 14-3-3 proteins. EMBO J. 1995;14(19):4839–48. 7588613
30. Koliopoulos MG, Esposito D, Christodoulou E, Taylor IA, Rittinger K. Functional role of TRIM E3 ligase oligomerization and regulation of catalytic activity. EMBO J. 2016;35(11):1204–18. doi: 10.15252/embj.201593741 27154206
31. Onomoto K, Jogi M, Yoo JS, Narita R, Morimoto S, Takemura A, et al. Critical role of an antiviral stress granule containing RIG-I and PKR in viral detection and innate immunity. PLoS One. 2012;7(8):e43031. doi: 10.1371/journal.pone.0043031 22912779
32. Yoo JS, Takahasi K, Ng CS, Ouda R, Onomoto K, Yoneyama M, et al. DHX36 enhances RIG-I signaling by facilitating PKR-mediated antiviral stress granule formation. PLoS Pathog. 2014;10(3):e1004012. doi: 10.1371/journal.ppat.1004012 24651521
33. Panas MD, Kedersha N, McInerney GM. Methods for the characterization of stress granules in virus infected cells. Methods. 2015;90:57–64. doi: 10.1016/j.ymeth.2015.04.009 25896634
34. Onomoto K, Yoneyama M, Fung G, Kato H, Fujita T. Antiviral innate immunity and stress granule responses. Trends Immunol. 2014;35(9):420–8. doi: 10.1016/j.it.2014.07.006 25153707
35. Gastaldello S, Callegari S, Coppotelli G, Hildebrand S, Song M, Masucci MG. Herpes virus deneddylases interrupt the cullin-RING ligase neddylation cycle by inhibiting the binding of CAND1. J Mol Cell Biol. 2012;4(4):242–51. doi: 10.1093/jmcb/mjs012 22474075
36. Gardino AK, Smerdon SJ, Yaffe MB. Structural determinants of 14-3-3 binding specificities and regulation of subcellular localization of 14-3-3-ligand complexes: a comparison of the X-ray crystal structures of all human 14-3-3 isoforms. Semin Cancer Biol. 2006;16(3):173–82. doi: 10.1016/j.semcancer.2006.03.007 16678437
37. Li X, Wang QJ, Pan N, Lee S, Zhao Y, Chait BT, et al. Phosphorylation-dependent 14-3-3 binding to LRRK2 is impaired by common mutations of familial Parkinson's disease. PLoS One. 2011;6(3):e17153. doi: 10.1371/journal.pone.0017153 21390248
38. Zhang L, Wang H, Liu D, Liddington R, Fu H. Raf-1 kinase and exoenzyme S interact with 14-3-3zeta through a common site involving lysine 49. J Biol Chem. 1997;272(21):13717–24. doi: 10.1074/jbc.272.21.13717 9153224
39. Wang H, Zhang L, Liddington R, Fu H. Mutations in the hydrophobic surface of an amphipathic groove of 14-3-3zeta disrupt its interaction with Raf-1 kinase. J Biol Chem. 1998;273(26):16297–304. doi: 10.1074/jbc.273.26.16297 9632690
40. Kozakov D, Hall DR, Xia B, Porter KA, Padhorny D, Yueh C, et al. The ClusPro web server for protein-protein docking. Nat Protoc. 2017;12(2):255–78. doi: 10.1038/nprot.2016.169 28079879
41. Yang X, Lee WH, Sobott F, Papagrigoriou E, Robinson CV, Grossmann JG, et al. Structural basis for protein-protein interactions in the 14-3-3 protein family. Proc Natl Acad Sci U S A. 2006;103(46):17237–42. doi: 10.1073/pnas.0605779103 17085597
42. Schlieker C, Weihofen WA, Frijns E, Kattenhorn LM, Gaudet R, Ploegh HL. Structure of a herpesvirus-encoded cysteine protease reveals a unique class of deubiquitinating enzymes. Mol Cell. 2007;25(5):677–87. doi: 10.1016/j.molcel.2007.01.033 17349955
43. Sanchez JG, Chiang JJ, Sparrer KMJ, Alam SL, Chi M, Roganowicz MD, et al. Mechanism of TRIM25 Catalytic Activation in the Antiviral RIG-I Pathway. Cell Rep. 2016;16(5):1315–25. doi: 10.1016/j.celrep.2016.06.070 27425606
44. Versteeg GA, Rajsbaum R, Sanchez-Aparicio MT, Maestre AM, Valdiviezo J, Shi M, et al. The E3-ligase TRIM family of proteins regulates signaling pathways triggered by innate immune pattern-recognition receptors. Immunity. 2013;38(2):384–98. doi: 10.1016/j.immuni.2012.11.013 23438823
45. Whitehurst CB, Li G, Montgomery SA, Montgomery ND, Su L, Pagano JS. Knockout of Epstein-Barr virus BPLF1 retards B-cell transformation and lymphoma formation in humanized mice. MBio. 2015;6(5):e01574–15. doi: 10.1128/mBio.01574-15 26489865
46. Nagaki K, Yamamura H, Shimada S, Saito T, Hisanaga S, Taoka M, et al. 14-3-3 Mediates phosphorylation-dependent inhibition of the interaction between the ubiquitin E3 ligase Nedd4-2 and epithelial Na+ channels. Biochemistry. 2006;45(21):6733–40. doi: 10.1021/bi052640q 16716084
47. Dar A, Wu D, Lee N, Shibata E, Dutta A. 14-3-3 proteins play a role in the cell cycle by shielding cdt2 from ubiquitin-mediated degradation. Mol Cell Biol. 2014;34(21):4049–61. doi: 10.1128/MCB.00838-14 25154416
48. Ichimura T, Taoka M, Shoji I, Kato H, Sato T, Hatakeyama S, et al. 14-3-3 proteins sequester a pool of soluble TRIM32 ubiquitin ligase to repress autoubiquitylation and cytoplasmic body formation. J Cell Sci. 2013;126(Pt 9):2014–26. doi: 10.1242/jcs.122069 23444366
49. Ichimura T, Yamamura H, Sasamoto K, Tominaga Y, Taoka M, Kakiuchi K, et al. 14-3-3 proteins modulate the expression of epithelial Na+ channels by phosphorylation-dependent interaction with Nedd4-2 ubiquitin ligase. J Biol Chem. 2005;280(13):13187–94. doi: 10.1074/jbc.M412884200 15677482
50. Fu H, Subramanian RR, Masters SC. 14-3-3 proteins: structure, function, and regulation. Annu Rev Pharmacol Toxicol. 2000;40:617–47. doi: 10.1146/annurev.pharmtox.40.1.617 10836149
51. Gastaldello S, Hildebrand S, Faridani O, Callegari S, Palmkvist M, Di Guglielmo C, et al. A deneddylase encoded by Epstein-Barr virus promotes viral DNA replication by regulating the activity of cullin-RING ligases. Nat Cell Biol. 2010;12(4):351–61. doi: 10.1038/ncb2035 20190741
52. Zou W, Zhang DE. The interferon-inducible ubiquitin-protein isopeptide ligase (E3) EFP also functions as an ISG15 E3 ligase. J Biol Chem. 2006;281(7):3989–94. doi: 10.1074/jbc.M510787200 16352599
53. Li C, Wen A, Shen B, Lu J, Huang Y, Chang Y. FastCloning: a highly simplified, purification-free, sequence- and ligation-independent PCR cloning method. BMC Biotechnol. 2011;11:92. doi: 10.1186/1472-6750-11-92 21992524
54. Molesworth SJ, Lake CM, Borza CM, Turk SM, Hutt-Fletcher LM. Epstein-Barr virus gH is essential for penetration of B cells but also plays a role in attachment of virus to epithelial cells. J Virol. 2000;74(14):6324–32. doi: 10.1128/jvi.74.14.6324-6332.2000 10864642
55. Waterhouse A, Bertoni M, Bienert S, Studer G, Tauriello G, Gumienny R, et al. SWISS-MODEL: homology modelling of protein structures and complexes. Nucleic Acids Res. 2018;46(W1):W296–W303. doi: 10.1093/nar/gky427 29788355
56. Kozakov D, Beglov D, Bohnuud T, Mottarella SE, Xia B, Hall DR, et al. How good is automated protein docking? Proteins. 2013;81(12):2159–66. doi: 10.1002/prot.24403 23996272
57. Xia B, Vajda S, Kozakov D. Accounting for pairwise distance restraints in FFT-based protein-protein docking. Bioinformatics. 2016;32(21):3342–4. doi: 10.1093/bioinformatics/btw306 27357172
58. Tao H, Simmons BN, Singireddy S, Jakkidi M, Short KM, Cox TC, et al. Structure of the MID1 tandem B-boxes reveals an interaction reminiscent of intermolecular ring heterodimers. Biochemistry. 2008;47(8):2450–7. doi: 10.1021/bi7018496 18220417
59. Koliopoulos MG, Lethier M, van der Veen AG, Haubrich K, Hennig J, Kowalinski E, et al. Molecular mechanism of influenza A NS1-mediated TRIM25 recognition and inhibition. Nat Commun. 2018;9(1):1820. doi: 10.1038/s41467-018-04214-8 29739942
60. Chen X, Liu Z, Shan Z, Yao W, Gu A, Wen W. Structural determinants controlling 14-3-3 recruitment to the endocytic adaptor Numb and dissociation of the Numb.alpha-adaptin complex. J Biol Chem. 2018;293(11):4149–58. doi: 10.1074/jbc.RA117.000897 29382713
61. Gao S, Pan M, Zheng Y, Huang Y, Zheng Q, Sun D, et al. Monomer/Oligomer Quasi-Racemic Protein Crystallography. J Am Chem Soc. 2016;138(43):14497–502. doi: 10.1021/jacs.6b09545 27768314
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