The DOI matches its Crossref record; 7 of the 7 references it cites were found in a registry or an index.
Structural analyses define the molecular basis of clusterin chaperone function
Open accessPublished version of a preprint
Abstract
Clusterin (apolipoprotein J), a conserved glycoprotein abundant in blood and cerebrospinal fluid, functions as a molecular chaperone and apolipoprotein. Dysregulation of clusterin is linked to late-onset Alzheimer disease. Despite its prominent role in extracellular proteostasis, the mechanism of clusterin function remained unclear. Here, we present crystal structures of human clusterin, revealing a discontinuous three-domain architecture. Structure-based mutational analysis demonstrated that two disordered, hydrophobic peptide tails enable diverse activities. Resembling the substrate-binding regions of small heat-shock proteins, these sequences mediate clusterin’s chaperone function in suppressing amyloid-β, tau and α-synuclein aggregation. In conjunction with conserved surface areas, the tail segments also participate in clusterin binding to cell surface receptors and cellular uptake. While contributing to lipoprotein formation, the hydrophobic tails remain accessible for chaperone function in the lipoprotein complex. The remarkable versatility of these sequences allows clusterin to function alone or bound to lipids in maintaining the solubility of aberrant extracellular proteins and facilitating their clearance by endocytosis and lysosomal degradation.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Highly accurate protein structure prediction with AlphaFold
Jumper, J., Evans, R., Pritzel, A., Green, T., Figurnov, M., Ronneberger, O., Tunyasuvunakool, K., Bates, R., Žídek, A., Potapenko, A., et al. (2021) · Nature · doi:10.1038/s41586-021-03819-2 · Cited by 43,764
Harold, D., Abraham, R., Hollingworth, P., Sims, R., Gerrish, A., Hamshere, M. L., Pahwa, J. S., Moskvina, V., Dowzell, K., Williams, A., et al. (2009) · Nature Genetics · doi:10.1038/ng.440 · Cited by 3,326
Jansen, I. E., Savage, J. E., Watanabe, K., Bryois, J., Williams, D. M., Steinberg, S., Sealock, J., Karlsson, I. K., Hägg, S., Athanasiu, L., et al. (2019) · Nature Genetics · doi:10.1038/s41588-018-0311-9 · Cited by 2,277
The Cellular Phase of Alzheimer’s Disease
De Strooper, B., & Karran, E. (2016) · Cell · doi:10.1016/j.cell.2015.12.056 · Cited by 1,990
Yeh, F. L., Wang, Y., Tom, I., Gonzalez, L. C., & Sheng, M. (2016) · Neuron · doi:10.1016/j.neuron.2016.06.015 · Cited by 943
Clusterin in Alzheimer’s Disease: Mechanisms, Genetics, and Lessons From Other Pathologies
Foster, E. M., Dangla-Valls, A., Lovestone, S., Ribe, E. M., & Buckley, N. J. (2019) · Frontiers in Neuroscience · doi:10.3389/fnins.2019.00164 · Cited by 381
Functional and structural properties of lipid-associated apolipoprotein J (clusterin)
CALERO, M., TOKUDA, T., ROSTAGNO, A., KUMAR, A., ZLOKOVIC, B., FRANGIONE, B., & GHISO, J. (1999) · Biochemical Journal · doi:10.1042/bj3440375 · Cited by 98
Flagged first, then by citations
Research works printed but not linked: 83
- Wilson, M. R., Satapathy, S. & Vendruscolo, M. Extracellular protein homeostasis in neurodegenerative diseases. Nat. Rev. Neurol. 19, 235–245 (2023).
- Wyatt, A. R., Yerbury, J. J., Ecroyd, H. & Wilson, M. R. Extracellular chaperones and proteostasis. Annu. Rev. Biochem. 82, 295–322 (2013). · DOI
- Rohne, P., Prochnow, H. & Koch-Brandt, C. The CLU-files: disentanglement of a mystery. Biomol. Concepts 7, 1–15 (2016). · DOI
- Satapathy, S. & Wilson, M. R. The dual roles of clusterin in extracellular and intracellular proteostasis. Trends Biochem. Sci. 46, 652–660 (2021). · DOI
- Wilson, M. R. & Zoubeidi, A. Clusterin as a therapeutic target. Expert Opin. Ther. Targets 21, 201–213 (2017). · DOI
- Blaschuk, O., Burdzy, K. & Fritz, I. B. Purification and characterization of a cell-aggregating factor (clusterin), the major glycoprotein in ram rete testis fluid. J. Biol. Chem. 258, 7714–7720 (1983). · DOI
- Fritz, I. B., Burdzy, K., Setchell, B. & Blaschuk, O. Ram rete testis fluid contains a protein (clusterin) which influences cell–cell interactions in vitro. Biol. Reprod. 28, 1173–1188 (1983). · DOI
- Jenne, D. E. & Tschopp, J. Molecular structure and functional characterization of a human complement cytolysis inhibitor found in blood and seminal plasma: identity to sulfated glycoprotein 2, a constituent of rat testis fluid. Proc. Natl Acad. Sci. USA 86, 7123–7127 (1989). · DOI
- Menny, A. et al. Structural basis of soluble membrane attack complex packaging for clearance. Nat. Commun. 12, 6086 (2021). · DOI
- de Silva, H. V. et al. A 70-kDa apolipoprotein designated ApoJ is a marker for subclasses of human plasma high density lipoproteins. J. Biol. Chem. 265, 13240–13247 (1990). · DOI
- Jenne, D. E. et al. Clusterin (complement lysis inhibitor) forms a high density lipoprotein complex with apolipoprotein A-I in human plasma. J. Biol. Chem. 266, 11030–11036 (1991). · DOI
- Lu, Y. et al. The functional role of lipoproteins in atherosclerosis: novel directions for diagnosis and targeting therapy. Aging Dis. 13, 491–520 (2022). · DOI
- Raulin, A. C., Martens, Y. A. & Bu, G. Lipoproteins in the central nervous system: from biology to pathobiology. Annu. Rev. Biochem. 91, 731–759 (2022). · DOI · Paper page
- Suzuki, T. et al. Predominant apolipoprotein J exists as lipid-poor mixtures in cerebrospinal fluid. Ann. Clin. Lab. Sci. 32, 369–376 (2002).
- Humphreys, D. T., Carver, J. A., Easterbrook-Smith, S. B. & Wilson, M. R. Clusterin has chaperone-like activity similar to that of small heat shock proteins. J. Biol. Chem. 274, 6875–6881 (1999). · DOI
- Hammad, S. M., Ranganathan, S., Loukinova, E., Twal, W. O. & Argraves, W. S. Interaction of apolipoprotein J–amyloid β-peptide complex with low density lipoprotein receptor-related protein-2/megalin. A mechanism to prevent pathological accumulation of amyloid β-peptide. J. Biol. Chem. 272, 18644–18649 (1997). · DOI
- Kim, Y.-M. et al. Clusterin binding modulates the aggregation and neurotoxicity of amyloid-β(1–42). Mol. Neurobiol. 59, 6228–6244 (2022). · DOI
- Narayan, P. et al. The extracellular chaperone clusterin sequesters oligomeric forms of the amyloid-β(1–40) peptide. Nat. Struct. Mol. Biol. 19, 79–83 (2011). · DOI
- Scheidt, T. et al. Secondary nucleation and elongation occur at different sites on Alzheimer’s amyloid-β aggregates. Sci. Adv. 5, eaau3112 (2019). · DOI
- Yerbury, J. J. et al. The extracellular chaperone clusterin influences amyloid formation and toxicity by interacting with prefibrillar structures. FASEB J. 21, 2312–2322 (2007). · DOI
- Wojtas, A. M. et al. Clusterin ameliorates tau pathology in vivo by inhibiting fibril formation. Acta Neuropathol. Commun. 8, 210 (2020). · DOI
- Yuste-Checa, P. et al. The extracellular chaperone clusterin enhances tau aggregate seeding in a cellular model. Nat. Commun. 12, 4863 (2021). · DOI
- Whiten, D. R. et al. Single-molecule characterization of the interactions between extracellular chaperones and toxic α-synuclein oligomers. Cell Rep. 23, 3492–3500 (2018). · DOI
- McHattie, S. & Edington, N. Clusterin prevents aggregation of neuropeptide 106–126 in vitro. Biochem. Biophys. Res. Commun. 259, 336–340 (1999). · DOI
- Xu, F., Karnaukhova, E. & Vostal, J. G. Human cellular prion protein interacts directly with clusterin protein. Biochim. Biophys. Acta 1782, 615–620 (2008). · DOI
- Itakura, E., Chiba, M., Murata, T. & Matsuura, A. Heparan sulfate is a clearance receptor for aberrant extracellular proteins. J. Cell Biol. 219, e201911126 (2020). · DOI
- Wyatt, A. R. et al. Clusterin facilitates in vivo clearance of extracellular misfolded proteins. Cell. Mol. Life Sci. 68, 3919–3931 (2011). · DOI · Paper page
- Lambert, J. C. et al. Genome-wide association study identifies variants at CLU and CR1 associated with Alzheimer’s disease. Nat. Genet. 41, 1094–1099 (2009). · DOI · Paper page
- Choi-Miura, N. H., Takahashi, Y., Nakano, Y., Tobe, T. & Tomita, M. Identification of the disulfide bonds in human plasma protein SP-40,40 (apolipoprotein-J). J. Biochem. 112, 557–561 (1992). · DOI
- Chang, V. T. et al. Glycoprotein structural genomics: solving the glycosylation problem. Structure 15, 267–273 (2007). · DOI
- Liu, J., Tan, H. & Rost, B. Loopy proteins appear conserved in evolution. J. Mol. Biol. 322, 53–64 (2002). · DOI
- Jaya, N., Garcia, V. & Vierling, E. Substrate binding site flexibility of the small heat shock protein molecular chaperones. Proc. Natl Acad. Sci. USA 106, 15604–15609 (2009). · DOI
- Kriehuber, T. et al. Independent evolution of the core domain and its flanking sequences in small heat shock proteins. FASEB J. 24, 3633–3642 (2010). · DOI
- Woods, C. N., Ulmer, L. D., Guttman, M., Bush, M. F. & Klevit, R. E. Disordered region encodes α-crystallin chaperone activity toward lens client γD-crystallin. Proc. Natl Acad. Sci. USA 120, e2213765120 (2023). · DOI
- Beeg, M. et al. Clusterin binds to Aβ1–42 oligomers with high affinity and interferes with peptide aggregation by inhibiting primary and secondary nucleation. J. Biol. Chem. 291, 6958–6966 (2016). · DOI
- Arosio, P., Knowles, T. P. & Linse, S. On the lag phase in amyloid fibril formation. Phys. Chem. Chem. Phys. 17, 7606–7618 (2015). · DOI
- Spatharas, P. M. et al. Clusterin in Alzheimer’s disease: an amyloidogenic inhibitor of amyloid formation? Biochim. Biophys. Acta, Mol. Basis Dis. 1868, 166384 (2022). · DOI
- Leeb, C., Eresheim, C. & Nimpf, J. Clusterin is a ligand for apolipoprotein E receptor 2 (ApoER2) and very low density lipoprotein receptor (VLDLR) and signals via the Reelin-signaling pathway. J. Biol. Chem. 289, 4161–4172 (2014). · DOI · Paper page
- Mahon, M. G., Lindstedt, K. A., Hermann, M., Nimpf, J. & Schneider, W. J. Multiple involvement of clusterin in chicken ovarian follicle development. Binding to two oocyte-specific members of the low density lipoprotein receptor gene family. J. Biol. Chem. 274, 4036–4044 (1999). · DOI
- Rudenko, G. et al. Structure of the LDL receptor extracellular domain at endosomal pH. Science 298, 2353–2358 (2002). · DOI · Paper page
- Kounnas, M. Z. et al. Identification of glycoprotein 330 as an endocytic receptor for apolipoprotein J/clusterin. J. Biol. Chem. 270, 13070–13075 (1995). · DOI
- Andersen, O. M., Benhayon, D., Curran, T. & Willnow, T. E. Differential binding of ligands to the apolipoprotein E receptor 2. Biochemistry 42, 9355–9364 (2003). · DOI · Paper page
- Clark, L. E. et al. VLDLR and ApoER2 are receptors for multiple alphaviruses. Nature 602, 475–480 (2022). · DOI
- Fernandez-de-Retana, S. et al. Characterization of ApoJ-reconstituted high-density lipoprotein (rHDL) nanodisc for the potential treatment of cerebral β-amyloidosis. Sci. Rep. 7, 14637 (2017). · DOI
- Bibow, S. et al. Solution structure of discoidal high-density lipoprotein particles with a shortened apolipoprotein A-I. Nat. Struct. Mol. Biol. 24, 187–193 (2017). · DOI
- Henry, N. et al. Lipidated apolipoprotein E4 structure and its receptor binding mechanism determined by a combined cross-linking coupled to mass spectrometry and molecular dynamics approach. PLoS Comput. Biol. 14, e1006165 (2018). · DOI · Paper page
- Mamun, M. et al. Decoding Clu (clusterin): conquering cancer treatment resistance and immunological barriers. Int. Immunopharmacol. 137, 112355 (2024). · DOI
- Walsh, D. M. et al. A facile method for expression and purification of the Alzheimer’s disease-associated amyloid β-peptide. FEBS J. 276, 1266–1281 (2009). · DOI
- Büssow, K. et al. Structural genomics of human proteins—target selection and generation of a public catalogue of expression clones. Microb. Cell Fact. 4, 21 (2005). · DOI
- Catanzariti, A. M., Soboleva, T. A., Jans, D. A., Board, P. G. & Baker, R. T. An efficient system for high-level expression and easy purification of authentic recombinant proteins. Protein Sci. 13, 1331–1339 (2004). · DOI
- Yuste-Checa, P. & Hartl, F. U. Gibson assembly. protocols.io https://doi.org/10.17504/protocols.io.ewov1de6yvr2/v1 (2025). · DOI
- Durocher, Y., Perret, S. & Kamen, A. High-level and high-throughput recombinant protein production by transient transfection of suspension-growing human 293-EBNA1 cells. Nucleic Acids Res. 30, E9 (2002). · DOI
- Li, Z., Michael, I. P., Zhou, D., Nagy, A. & Rini, J. M. Simple piggyBac transposon-based mammalian cell expression system for inducible protein production. Proc. Natl Acad. Sci. USA 110, 5004–5009 (2013). · DOI
- Yuste-Checa, P. & Hartl, F. U. Induced pluripotent stem cells (iPSCs) differentiation into iNeurons. protocols.io https://doi.org/10.17504/protocols.io.eq2lyxz3wgx9/v1 (2025). · DOI
- Yuste-Checa, P. Clusterin purification from HEK293E cells. protocols.io https://doi.org/10.17504/protocols.io.bvvkn64w (2021). · DOI
- Bracher, A., Yuste-Checa, P. & Hartl, F. U. Very low-density lipoprotein receptor (VLDLR)–C-tag purification from HEK293E cells. protocols.io https://doi.org/10.17504/protocols.io.j8nlkoqw1v5r/v1 (2024). · DOI
- Bracher, A. & Hartl, F. U. GFP–Clu-tails purification from Escherichia coli cells. protocols.io https://doi.org/10.17504/protocols.io.n2bvj3w55lk5/v1 (2025). · DOI
- Linse, S. Expression and purification of intrinsically disordered Aβ peptide and setup of reproducible aggregation kinetics experiment. Methods Mol. Biol. 2141, 731–754 (2020). · DOI
- Yuste-Checa, P., Wischnewski, N. & Hartl, F. U. Purification of recombinant amyloid β peptide (M1–42) from Escherichia coli. protocols.io https://doi.org/10.17504/protocols.io.3byl4z2k2vo5/v1 (2025). · DOI
- Bracher, A., Yuste-Checa, P., Basquin, J., Conti, E. & Hartl, F. U. Crystallization of clusterin mutant TL1 (human Clu-Δ(214–238)). protocols.io https://doi.org/10.17504/protocols.io.bp2l68kndgqe/v1 (2025). · DOI
- Kabsch, W.XDS. Acta Crystallogr. D Biol. Crystallogr. 66, 125–132 (2010). · DOI · Paper page
- Evans, P. Scaling and assessment of data quality. Acta Crystallogr. D Biol. Crystallogr. 62, 72–82 (2006). · DOI
- Evans, P. R. & Murshudov, G. N. How good are my data and what is the resolution? Acta Crystallogr. D Biol. Crystallogr. 69, 1204–1214 (2013). · DOI
- French, G. & Wilson, K. On the treatment of negative intensity observations. Acta Crystallogr. A 34, 517–525 (1978). · DOI
- Potterton, E., Briggs, P., Turkenburg, M. & Dodson, E. A graphical user interface to the CCP4 program suite. Acta Crystallogr. D Biol. Crystallogr. 59, 1131–1137 (2003). · DOI
- Vagin, A. A. & Isupov, M. N. Spherically averaged phased translation function and its application to the search for molecules and fragments in electron-density maps. Acta Crystallogr. D Biol. Crystallogr. 57, 1451–1456 (2001). · DOI
- Varadi, M. et al. AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models. Nucleic Acids Res. 50, D439–D444 (2022). · DOI · Paper page
- Emsley, P. & Cowtan, K. Coot: model-building tools for molecular graphics. Acta Crystallogr. D Biol. Crystallogr. 60, 2126–2132 (2004). · DOI · Paper page
- Murshudov, G. N. et al. REFMAC5 for the refinement of macromolecular crystal structures. Acta Crystallogr. D Biol. Crystallogr. 67, 355–367 (2011). · DOI
- Liebschner, D. et al. Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in PHENIX. Acta Crystallogr. D Struct. Biol. 75, 861–877 (2019). · DOI · Paper page
- Kleywegt, G. T. & Jones, T. A. A super position. CCP4/ESF-EACBM Newsletter on Protein Crystallography 31, 9–14 (1994).
- Gouet, P., Courcelle, E., Stuart, D. I. & Metoz, F. ESPript: multiple sequence alignments in PostScript. Bioinformatics 15, 305–308 (1999). · DOI
- Ashkenazy, H. et al. ConSurf 2016: an improved methodology to estimate and visualize evolutionary conservation in macromolecules. Nucleic Acids Res. 44, W344–W350 (2016). · DOI · Paper page
- Yuste-Checa, P., Bracher, A. & Hartl, F. U. Prevention of rhodanese aggregation assay. protocols.io https://doi.org/10.17504/protocols.io.j8nlkdbrxg5r/v1 (2025). · DOI
- Yuste-Checa, P. & Hartl, F. U. Amyloid β (M1–42) aggregation monitored by thioflavin-T (ThT) fluorescence in a plate reader. protocols.io https://doi.org/10.17504/protocols.io.bp2l68ky5gqe/v1 (2025). · DOI
- Yuste-Checa, P. & Hartl, F. U. N-terminal protein labeling. protocols.io https://doi.org/10.17504/protocols.io.rm7vzxpbrgx1/v1 (2024). · DOI
- Yuste-Checa, P. & Hartl, F. U. Clusterin cellular uptake assay. protocols.io https://doi.org/10.17504/protocols.io.14egn3k2yl5d/v1 (2024). · DOI
- Bracher, A., Yuste-Checa, P. & Hartl, F. U. Clusterin–VLDLR-ed binding assay. protocols.io https://doi.org/10.17504/protocols.io.4r3l26m2qv1y/v1 (2025). · DOI
- Yuste-Checa, P., Bracher, A. & Hartl, F. U. Solid phase binding assay—clusterin binding to very low-density lipoprotein receptor (VLDLR). protocols.io https://doi.org/10.17504/protocols.io.yxmvm36kol3p/v1 (2024). · DOI
- Yuste-Checa, P., Bracher, A. & Hartl, F. U. Formation and isolation of Clu phospholipid particles. protocols.io https://doi.org/10.17504/protocols.io.bp2l6x59zlqe/v1 (2024). · DOI
- Yuste-Checa, P., Mi, C. & Hartl, F. U. Preparation of negative stain transmission electron microscopy grids. protocols.io https://doi.org/10.17504/protocols.io.4r3l29x1jv1y/v1 (2025). · DOI
- Bracher, A. & Schneider, S. Munich crystallography BAG [dataset, proposal MX-2377, beamline ID23-1, session date 2021-12-02]. European Synchrotron Radiation Facility https://doi.org/10.15151/ESRF-ES-541098252 (2024). · DOI
- Fisher, C., Beglova, N. & Blacklow, S. C. Structure of an LDLR–RAP complex reveals a general mode for ligand recognition by lipoprotein receptors. Mol. Cell 22, 277–283 (2006). · DOI · Paper page
Metadata
- Authors
- Yuste-Checa, P., Carvajal, A. I., Mi, C., Paatz, S., Hartl, F. U., & Bracher, A.
- Affiliations
- Max Planck Institute of Biochemistry (DE)
- Munich Cluster for Systems Neurology (DE)
- Corresponding author
- Hartl, F. Ulrich
- Bracher, Andreas
- Venue
- Nature Structural & Molecular Biology
- Published
- 2025-08-08
- Volume
- 32
- Issue
- 10
- Pages
- 2035-2045
- ISSN
- 1545-9985 (ISSN-L)
- 1545-9993
- PMC
- PMC12527946
- OpenAlex
- W4413055983
- Cited by
- 18
- References
- 7
- Citations by year
- 2026: 18
- FWCI
- 7.45
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Locations
- Nature Structural & Molecular Biology (publishedVersion, cc-by)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc-nd)
- Europe PMC (PubMed Central) (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Open access LMU (Ludwid Maxmilian's Universitat Munchen) (submittedVersion, cc-by)
- Funders
- Max-Planck-Förderstiftung
- Deutsche Forschungsgemeinschaft (EXC 2145, EXC 2145SyNergy, 390857198)
- European Synchrotron Radiation Facility (ID23‐1)
- Max-Planck-Gesellschaft
- Max-Planck-Institut für Bildungsforschung
- Topics
- Health Sciences › Medicine › Oncology › Clusterin in disease pathology
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Heat shock proteins research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Structure and Dynamics
- Keywords
- clusterin, molecular chaperones, protein aggregation inhibition, amyloid-beta, tau protein, alpha-synuclein, intrinsically disordered regions, crystal structure, Alzheimer's disease, endocytosis, lysosomal degradation, cell surface receptor binding
- MeSH terms
- Protein Domains, Amino Acid Sequence, Humans, Models, Molecular, Protein Binding, Amyloid beta-Peptides, Crystallography, X-Ray, Molecular Chaperones, Clusterin, alpha-Synuclein
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review