Abstract
Vault ribonucleoprotein particles are naturally designed nanocages, widely found in the eukaryotic kingdom. Vaults consist of 78 copies of the major vault protein (MVP) that are organized in 2 symmetrical cup-shaped halves, of an approximate size of 70x40x40 nm, leaving a huge internal cavity which accommodates the vault poly(ADP-ribose) polymerase (vPARP), the telomerase-associated protein-1 (TEP1) and some small untranslated RNAs. Diverse hypotheses have been developed on possible functions of vaults, based on their unique capsular structure, their rapid movements and the distinct subcellular localization of the particles, implicating transport of cargo, but they are all pending confirmation. Vault particles also possess many attributes that can be exploited in nanobiotechnology, particularly in the creation of vehicles for the delivery of multiple molecular cargoes. Here we review what is known about the structure and dynamics of the vault complex and discuss a possible mechanism for the vault opening process. The recent findings in the characterization of the vaults in cells and in its natural microenvironment will be also discussed.
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References
Amé J-C, Spenlehauer C, de Murcia G (2004) The PARP super-family. BioEssays 26(8):882–893. https://doi.org/10.1002/bies.20085
Anderson DH, Kickhoefer VA, Sievers SA, Rome LH, Eisenberg D (2007) Draft crystal structure of the vault shell at 9-Å resolution. PLoS Biol 5(11):2661–2670. https://doi.org/10.1371/journal.pbio.0050318
Bateman A, Kickhoefer V (2003) The TROVE module: a common element in telomerase, Ro and Vault ribonucleoproteins. BMC Bioinform 4:49. https://doi.org/10.1186/1471-2105-4-49
Benner NL, Zang X, Buehler DC, Kickhoefer VA, Rome ME, Rome LH, Wender PA (2017) Vault nanoparticles: chemical modifications for imaging and enhanced delivery. ACS Nano 11(1):872–881. https://doi.org/10.1021/acsnano.6b07440
Berger W, Steiner E, Grusch M, Elbling L, Micksche M (2009) Vaults and the major vault protein: novel roles in signal pathway regulation and immunity. Cell Mol Life Sci 66(1):43–61. https://doi.org/10.1007/s00018-008-8364-z
Carter SD, Mamede JI, Hope TJ, Jensen GJ (2020) Correlated cryogenic fluorescence microscopy and electron cryo-tomography shows that exogenous TRIM5α can form hexagonal lattices or autophagy aggregates in vivo. Proc Natl Acad Sci USA 117:29702–29711. https://doi.org/10.1073/pnas.1920323117/-/DCSupplemental
Casañas A, Guerra P, Fita I, Verdaguer N (2012) Vault particles: a new generation of delivery nanodevices. Curr Opin Biotechnol 23(6):972–977. https://doi.org/10.1016/j.copbio.2012.05.004
Casañas A, Querol-Audí J, Guerra P, Pous J, Tanaka H, Tsukihara T, Verdaguer N, Fita I (2013) New features of vault architecture and dynamics revealed by novel refinement using the deformable elastic network approach. Acta Crystallogr D Biol Crystallogr 69(6):1054–1061. https://doi.org/10.1107/S0907444913004472
Cruz-León S, Majtner T, Hoffmann PC, Kreysing JP, Tuijtel MW, Schaefer SL, Geißler K, Beck M, Turoňová B, Hummer G (2023) High-confidence 3D template matching for cryo-electron tomography. BioRxiv. https://doi.org/10.1101/2023.09.05.556310
Ding K, Zhang X, Mrazek J, Kickhoefer VA, Lai M, Ng HL, Yang OO, Rome LH, Zhou ZH (2018) Solution structures of engineered vault particles. Structure 26(4):619–626.e3. https://doi.org/10.1016/j.str.2018.02.014
Frascotti G, Galbiati E, Mazzucchelli M, Pozzi M, Salvioni L, Vertemara J, Tortora P (2021) Cancers the vault nanoparticle: a gigantic ribonucleoprotein assembly involved in diverse physiological and pathological phenomena and an ideal Nanovector for drug delivery and therapy. Cancers 13:707. https://doi.org/10.3390/cancers
Fulcher JA, Tamshen K, Wollenberg AL, Kickhoefer VA, Mrazek J, Elliott J, Ibarrondo FJ, Anton PA, Rome LH, Maynard HD, Deming T, Yang OO (2019) Human vault nanoparticle targeted delivery of antiretroviral drugs to inhibit human immunodeficiency virus type 1 infection. Bioconjug Chem 30(8):2216–2227. https://doi.org/10.1021/acs.bioconjchem.9b00451
Goldsmith LE, Yu M, Rome LH, Monbouquette HG (2007) Vault nanocapsule dissociation into halves triggered at low pH. Biochemistry 46(10):2865–2875. https://doi.org/10.1021/bi0606243
Goldsmith LE, Pupols M, Kickhoefer VA, Rome LH, Monbouquette HG (2009) Utilization of a protein “shuttle” to load vault nanocapsules with gold probes and proteins. ACS Nano 3(10):3175–3183. https://doi.org/10.1021/nn900555d
Guerra P, González-Alamos M, Llauró A, Casañas A, Querol-Audí J, de Pablo PJ, Verdaguer N (2022) Symmetry disruption commits vault particles to disassembly. Science. Advances 8(6):eabj7795. https://doi.org/10.1126/sciadv.abj7795
Hahne JC, Lampis A, Valeri N (2021) Vault RNAs: hidden gems in RNA and protein regulation. Cell Mol Life Sci 78(4):1487–1499). Springer Science and Business Media Deutschland GmbH. https://doi.org/10.1007/s00018-020-03675-9
Hamill DR, Suprenant KA (1997) Characterization of the sea urchin major vault protein: a possible role for vault ribonucleoprotein particles in nucleocytoplasmic transport. Dev Biol 190(1):117–128. https://doi.org/10.1006/dbio.1997.8676
Harrington L, McPhail T, Mar V, Zhou W, Oulton R, Bass MB, Arruda I, Robinson MO (1997) A mammalian telomerase associated protein. Science 275:973–977
Herrmann C, Zimmermann H, Volknandt W (1997) Analysis of a cDNA encoding the major vault protein from the electric ray Discopyge ommata. Gene 188:85–90
Horos R, Büscher M, Kleinendorst R, Alleaume AM, Tarafder AK, Schwarzl T, Dziuba D, Tischer C, Zielonka EM, Adak A, Castello A, Huber W, Sachse C, Hentze MW (2019) The small non-coding vault RNA1-1 acts as a Riboregulator of autophagy. Cell 176(5):1054–1067.e12. https://doi.org/10.1016/j.cell.2019.01.030
Kedersha NL, Rome LH (1986) Isolation and characterization of a novel ribonucleoprotein particle: large structures contain a single species of small RNA. J Cell Biol 103:699–709. http://rupress.org/jcb/article-pdf/103/3/699/1053878/699.pdf
Kedersha NL, Hill DE, Kronquist KE, Rome LH (1986) Subpopulations of liver coated vesicles resolved by preparative agarose gel electrophoresis. J Cell Biol 103(1):287–297. http://rupress.org/jcb/article-pdf/103/1/287/1053272/287.pdf
Kedersha NL, Miquel MC et al (1990) Vaults. II. Ribonucleoprotein structures are highly conserved among higher and lower eukaryotes. J Cell Biol 110(4):895–901
Kickhoefer VA, Searlesl RP, Kedershall NL, Garber ME, Johnson DL, Rome LH (1993) Vault ribonucleoprotein particles from rat and bullfrog contain a related small RNA that is transcribed by RNA polymerase III. J Cell Biol 268(11):7868–7873
Kickhoefer VA, Vasu SK et al (1996) Vaults are the answer, what is the question? Trends Cell Biol 6(5):174–178
Kickhoefer VA, Siva AC et al (1999a) The 193-kD vault protein, VPARP, is a novel poly(ADP-ribose) polymerase. J Cell Biol 146(5):917–928
Kickhoefer VA, Stephen AG et al (1999b) Vaults and telomerase share a common subunit, TEP1. J Cell Biol 274(46):32712–32717. http://www.jbc.org
Kickhoefer VA, Liu Y, Kong LB, Snow BE, Stewart PL, Harrington L, Rome LH (2001) The telomerase/vault-associated protein TEP1 is required for vault RNA stability and its association with the vault particle. J Cell Biol 152(1):157–164. http://www.jcb.org/cgi/content/full/152/1/157
Kickhoefer VA, Garcia Y, Mikyas Y, Johansson E, Zhou JC, Raval-Fernandes S, Minoofar P, Zink JI, Dunn B, Stewart PL, Rome LH (2005) Engineering of vault nanocapsules with enzymatic and fluorescent properties. Proc Natl Acad Sci USA 102(12):4348–4352. https://doi.org/10.1073/pnas.0500929102
Kickhoefer VA, Han M, Raval-Fernandes S, Poderycki MJ, Moniz RJ, Vaccari D, Silvestry M, Stewart PL, Kelly KA, Rome LH (2009) Targeting vault nanoparticles to specific cell surface receptors. ACS Nano 3(1):27–36. https://doi.org/10.1021/nn800638x
Kong LB, Siva AC, Rome LH, Stewart PL (1999) Structure of the vault, a ubiquitous cellular component. Structure 7(4):371–379. http://biomednet.com/elecref/0969212600700371
Kong LB, Siva AC, Kickhoefer VA, Rome LH, Stewart PL (2000) RNA location and modeling of a WD40 repeat domain within the vault. RNA 6(6):890–900
Koonin EV, Aravind L (2000) (2000) the NACHT family—a new group of predicted NTPases implicated in apoptosis and MHC transcription activation. Trends Biochem Sci 25:223–224
Liu Y, Snow BE, Prakash Hande M, Baerlocher G, Kickhoefer VA, Yeung D, Wakeham A, Itie A, Siderovski DP, Lansdorp PM, Robinson MO, Harrington L (2000) Telomerase-associated protein TEP1 is not essential for telomerase activity or telomere length maintenance in vivo. Mol Cell Biol 20(21):8178–8184
Liu Y, Snow BE, Kickhoefer VA, Erdmann N, Zhou W, Wakeham A, Gomez M, Rome LH, Harrington L (2004) Vault poly (ADP-ribose) polymerase is associated with mammalian telomerase and is dispensable for telomerase function and vault structure in vivo. Mol Cell Biol 24(12):5314–5323. https://doi.org/10.1128/mcb.24.12.5314-5323.2004
Llauró A, Guerra P, Irigoyen N, Rodríguez JF, Verdaguer N, de Pablo PJ (2014) Mechanical stability and reversible fracture of vault particles. Biophys J 106(3):687–695. https://doi.org/10.1016/j.bpj.2013.12.035
Llauró A, Guerra P, Kant R, Bothner B, Verdaguer N, de Pablo PJ (2016) Decrease in pH destabilizes individual vault nanocages by weakening the inter-protein lateral interaction. Sci Rep 6:34143. https://doi.org/10.1038/srep34143
Meyer-Ficca ML, Meyer RG, Jacobson EL, Jacobson MK (2005) Poly(ADP-ribose) polymerases: managing genome stability. Int J Biochem Cell Biol 37(5):920–926
Mikyas Y, Makabi M, Raval-Fernandes S, Harrington L, Kickhoefer VA, Rome LH, Stewart PL (2004) Cryoelectron microscopy imaging of recombinant and tissue derived vaults: localization of the MVP N termini and VPARP. J Mol Biol 344(1):91–105. https://doi.org/10.1016/j.jmb.2004.09.021
Morales JC, Li L, Fattah FJ, Dong Y, Bey EA, Patel M, Gao J, Boothman DA (2014) Review of poly (ADP-ribose) polymerase (PARP) mechanisms of action and rationale for targeting in cancer and other diseases. Crit Rev Eukaryot Gene Expr 24:15–28
Mrazek J, Toso D, Ryazantsev S, Zhang X, Zhou ZH, Fernandez BC, Kickhoefer VA, Rome LH (2014) Polyribosomes are molecular 3D nanoprinters that orchestrate the assembly of vault particles. ACS Nano 8(11):11552–11559. https://doi.org/10.1021/nn504778h
Murphy GE, Jensen GJ (2007) Electron cryotomography. BioTechniques 43(4):413–423. https://doi.org/10.2144/000112568
Nagasawa DT, Yang J, Romiyo P, Lagman C, Chung LK, Voth BL, Duong C, Kickhoefer VA, Rome LH, Yang I (2020) Bioengineered recombinant vault nanoparticles coupled with NY-ESO-1 glioma-associated antigens induce maturation of native dendritic cells. J Neuro-Oncol 148(1):1–7. https://doi.org/10.1007/s11060-020-03472-1
Poderycki MJ, Rome LH, Harrington L, Kickhoefer VA (2005) The p80 homology region of TEP1 is sufficient for its association with the telomerase and vault RNAs, and the vault particle. Nucleic Acids Res 33(3):893–902. https://doi.org/10.1093/nar/gki234
Poderycki MJ, Kickhoefer VA, Kaddis CS, Raval-Fernandes S, Johansson E, Zink JI, Loo JA, Rome LH (2006) The vault exterior shell is a dynamic structure that allows incorporation of vault-associated proteins into its interior. Biochemistry 45(39):12184–12193. https://doi.org/10.1021/bi0610552
Querol-Audí J, Perez-Luque R, Fita I, Lopéz-Iglesias C, Castón JR, Carrascosa JL, Verdaguer N (2005) Preliminary analysis of two and three dimensional crystals of vault ribonucleoprotein particles. J Struct Biol 151(1):111–115. https://doi.org/10.1016/j.jsb.2005.04.002
Querol-Audí J, Casãas A, Usón I, Luque D, Castón JR, Fita I, Verdaguer N (2009) The mechanism of vault opening from the high-resolution structure of the N-terminal repeats of MVP. EMBO J 28(21):3450–3457. https://doi.org/10.1038/emboj.2009.274
Rome LH, Kickhoefer VA (2013) Development of the vault particle as a platform technology. ACS Nano 7(2):889–902. https://doi.org/10.1021/nn3052082
Rome L, Kedersha N et al (1991) Unlocking vaults: organelles in search of a function. Trends Cell Biol 1(2–3):47–50
Stadler PF, Chen JJL, Hackermüller J, Hoffmann S, Horn F, Khaitovich P, Kretzschmar AK, Mosig A, Prohaska SJ, Qi X, Schutt K, Ullmann K (2009) Evolution of vault RNAs. Mol Biol Evol 26(9):1975–1991. https://doi.org/10.1093/molbev/msp112
Stephen AG, Raval-Fernandes S, Huynh T, Torres M, Kickhoefer VA, Rome LH (2001) Assembly of vault-like particles in insect cells expressing only the major vault protein. J Biol Chem 276(26):23217–23220. https://doi.org/10.1074/jbc.C100226200
Tanaka H, Kato K, Yamashita E, Sumizawa T, Zhou Y, Yao M, Iwasaki K, Yoshimura M, Tsukihara T (2009) The structure of rat liver vault at 3.5 angstrom resolution. Science 323(5912):384–388
Van Zon A, Mossink MH, Schoester M, Scheffer GL, Scheper RJ, Sonneveld P, Wiemer EAC (2001) Multiple human vault RNAs: expression and association with the vault complex. J Biol Chem 276(40):37715–37721. https://doi.org/10.1074/jbc.M106055200
Voth BL, Pelargos PE, Barnette NE, Bhatt NS, Chen CHJ, Lagman C, Chung LK, Nguyen T, Sheppard JP, Romiyo P, Mareninov S, Kickhoefer VA, Yong WH, Rome LH, Yang I (2020) Intratumor injection of CCL21-coupled vault nanoparticles is associated with reduction in tumor volume in an in vivo model of glioma. J Neuro-Oncol 147(3):599–605. https://doi.org/10.1007/s11060-020-03479-8
Wang M, Abad D, Kickhoefer VA, Rome LH, Mahendra S (2015) Vault nanoparticles packaged with enzymes as an efficient pollutant biodegradation technology. ACS Nano 9(11):10931–10940. https://doi.org/10.1021/acsnano.5b04073
Wang M, Kickhoefer VA, Rome LH, Foellmer OK, Mahendra S (2018) Synthesis and assembly of human vault particles in yeast. Biotechnol Bioeng 115(12):2941–2950. https://doi.org/10.1002/bit.26825
Weinrich SL, Pruzan R, Ma L, Ouellette M, Tesmer VM, Holt SE, Bodnar AG, Lichtsteiner S, Kim NW, Trager JB, Taylor RD, Carlos R, Andrews WH, Wright WE, Shay J, Harley CB, Morin GB (1997) Reconstitution of human telomerase with the template RNA component hTR and the catalytic protein subunit hTRT. Nat Genet 17(4):498–502
Woodward CL, Mendonça LM, Jensen GJ (2015) Direct visualization of vaults within intact cells by electron cryo-tomography. Cell Mol Life Sci 72(17):3401–3409. https://doi.org/10.1007/s00018-015-1898-y
Yang J, Kickhoefer VA, Ng BC, Gopal A, Bentolila LA, John S, Tolbert SH, Rome LH (2010) Vaults are dynamically unconstrained cytoplasmic nanoparticles capable of half vault exchange. ACS Nano 4(12):7229–7240. https://doi.org/10.1021/nn102051r
Yu K, Yau YH, Sinha A, Tan T, Kickhoefer VA, Rome LH, Lee H, Shochat SG, Lim S (2017) Modulation of the vault protein-protein interaction for tuning of molecular release. Sci Rep 7(1):14816. https://doi.org/10.1038/s41598-017-12870-x
Acknowledgements
This work was funded by the Spanish Ministry of Science and Innovation (PID2020-117976GB-I00) to NV. MGA work is supported by a predoctoral contract PRE2018-083964 from Spanish Ministry of Science and Innovation.
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González-Álamos, M., Guerra, P., Verdaguer, N. (2024). Structure, Dynamics and Functional Implications of the Eukaryotic Vault Complex. In: Harris, J.R., Marles-Wright, J. (eds) Macromolecular Protein Complexes V. Subcellular Biochemistry, vol 104. Springer, Cham. https://doi.org/10.1007/978-3-031-58843-3_20
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