EP4673460A1 - Alpha synuclein-binding polypeptide - Google Patents

Alpha synuclein-binding polypeptide

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Publication number
EP4673460A1
EP4673460A1 EP24707000.6A EP24707000A EP4673460A1 EP 4673460 A1 EP4673460 A1 EP 4673460A1 EP 24707000 A EP24707000 A EP 24707000A EP 4673460 A1 EP4673460 A1 EP 4673460A1
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EP
European Patent Office
Prior art keywords
seq
polypeptide
amino acid
subunit
asn
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EP24707000.6A
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German (de)
French (fr)
Inventor
John LÖFBLOM
Stefan STÅHL
Hanna LINDBERG
Linnea HJELM
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Amylonix AB
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Amylonix AB
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Publication of EP4673460A1 publication Critical patent/EP4673460A1/en
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    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P25/00—Drugs for disorders of the nervous system
    • A61P25/14—Drugs for disorders of the nervous system for treating abnormal movements, e.g. chorea, dyskinesia
    • A61P25/16—Anti-Parkinson drugs
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P25/00—Drugs for disorders of the nervous system
    • A61P25/28—Drugs for disorders of the nervous system for treating neurodegenerative disorders of the central nervous system, e.g. nootropic agents, cognition enhancers, drugs for treating Alzheimer's disease or other forms of dementia
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
    • C07K14/435—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
    • C07K14/435—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans
    • C07K14/46—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans from vertebrates
    • C07K14/47—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans from vertebrates from mammals
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K38/00—Medicinal preparations containing peptides
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2319/00—Fusion polypeptide
    • C07K2319/30—Non-immunoglobulin-derived peptide or protein having an immunoglobulin constant or Fc region, or a fragment thereof, attached thereto
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2319/00—Fusion polypeptide
    • C07K2319/31—Fusion polypeptide fusions, other than Fc, for prolonged plasma life, e.g. albumin

Definitions

  • ALPHA SYNUCLEIN-BINDING POLYPEPTIDE TECHNICAL FIELD [0001] The present disclosure relates to the field of treating or preventing Parkinson’s disease and Lewy body dementia.
  • BACKGROUND [0002] Neurodegenerative disorders (NDs) are a family of diseases where the degradation of neurons impacts the cognitive and motor function, and examples include Alzheimer’s disease (AD), Frontotemporal Dementia (FTD), Amyotrophic Lateral Sclerosis (ALS), and Parkinson’s Disease (PD). The second most common ND is Parkinson’s disease (PD), associated with several motor- and non-motor symptoms.
  • Alpha synuclein is a neuronal protein and the main constituent of Lewy bodies which is a neuropathological hallmark of several dementias such as Parkinson’s disease and Lewy body dementia.
  • PD a neuropathological hallmark of several dementias such as Parkinson’s disease and Lewy body dementia.
  • neurons in the substantia nigra become damaged and eventually dies, causing a decrease in the production of dopamine.
  • Lower dopamine level leads to difficulties in controlling movements and the typical PD symptoms (Maiti et al.2017).
  • aSN alpha synuclein
  • a new scaffold protein has been designed based on a dimeric type of affibody molecules, which was first reported for the amyloid-beta binder ZA ⁇ 3 (Grönwall et al.2007).
  • the scaffold was engineered into a head-to-tail genetic dimer, truncated in the N-terminal and a new flexible serine and glycine linker was introduced between the two subunits.
  • eleven positions in each subunit were selected for randomization to construct a new combinatorial library.
  • the new dimeric scaffold was denoted Sequestrin and in a proof-of-concept study intended to assess the quality of the scaffold and library design, new high affinity sequestrins against amyloid beta peptide were selected using phage display technology (Hjelm et al.2023).
  • phage display technology Hjelm et al.2023
  • the present disclosure describes use of the new sequestrin library in phage display selections against aSN with the aim to generate high-affinity aggregation inhibitors.
  • Sequestrins are a new type of small affinity proteins with a mode-of- binding similar to protein chaperones, shielding the hydrophobic parts of neurotoxic proteins and peptides and thereby acting as anti-amyloid agents.
  • sequestrins Upon binding, sequestrins co-fold with the neurotoxic peptide, forming a four-stranded beta-sheet with a secondary structure that have similarities to the beta-sheet rich structures seen in amyloid fibrils.
  • Characterization of the clones from the selection has revealed several binders with affinities in the low nanomolar range. Spectroscopy studies on secondary structure content has demonstrated structural rearrangements in the sequestrins as well as in aSN. Aggregation of wildtype aSN and three familial PD variants (A30P, E46K and A53T) (Maiti et al.2017) was completely inhibited by several of the new sequestrins when mixed in equimolar concentrations.
  • an alpha synuclein-binding polypeptide comprising a first and a second subunit and a linker linking the C-terminus of the first subunit to the N-terminus of the second subunit, wherein: the first subunit comprises the amino acid sequence GX 3 X 4 X 5 X 6 X 7 X 8 X 9 X 10 X 11 X 12 X 13 X 14 X 15 X 16 CX 18 FIX 21 X 22 X 23 X 24 X 25 X 26 X 27 X 28 X 29 X 30 AX 32 X33X34X35X36X37X38X39X40X41X42X43X44 (SEQ ID NO:45); and the second subunit comprises the amino acid sequence X 62 GX 64 X 65 VX 67 X 68 X 69 X 70 X 71 X
  • Figure 1a Illustration of the randomization behind the library from which the phage display selection of the Examples section below was made.
  • Group I all amino acids (aa) except C.
  • Group II K or N, and P or A.
  • Group III hydrophobic aa.
  • Group IV all aa except P, G and C.
  • Figure 1b Sequence of the sequestrin library with randomised positions marked with X. Mutations in randomized positions for five selected sequestrins.
  • Figure 1c Alignment of sequestrins identified in the phage display experiment described in the Examples section below and the prior art sequence AS69 (also an aSN binder, see Mirecka et al.2014).
  • Figure 2 Circular dichroism (CD) spectroscopy spectra of sequestrins, before (black) and after (grey) heat-induced denaturation and refolding.
  • Spectra for Sq aSN2 , Sq aSN3 and Sq aSN4 are shown in Figure 2a.
  • Spectra for Sq aSN6 and Sq aSN11 are shown in Figure 2b.
  • Figure 3 Surface plasmon resonance (SPR) sensorgram for the sequestrins SqaSN2, SqaSN3, SqaSN4, SqaSN6, and SqaSN11 at (A-C, G-I) 25 °C and (D-F, J-L) 37 °C, respectively.
  • SPR Surface plasmon resonance
  • FIG. 4 Circular dichroism (CD) spectra between 195–260 nm for proteins in equimolar concentrations.
  • A-C Indicates the structural rearrangement upon co-incubation of aSN and sequestrins. The spectra show the signal lost upon co- incubation between aSN and respective sequestrin.
  • Figure 5 Aggregation assay measuring thioflavin T (ThT) fluorescence at 480 nm. ThT fluorescence monitored for 75 h for 70 ⁇ M of respective aSN variants, and 1:1, 1:5 and 1:10 molar ratios of respective sequestrins. Standard deviation of the replicates is shown in the graph.
  • an alpha synuclein-binding polypeptide comprising a first and a second subunit and a linker linking the C-terminus of the first subunit to the N-terminus of the second subunit.
  • the first subunit comprises the amino acid sequence GX3X4X5X6X7X8X9X10X11X12X13X14X15X16CX18FIX21X22X23X24X25X26X27X28X29X30AX32 X 33 X 34 X 35 X 36 X 37 X 38 X 39 X 40 X 41 X 42 X 43 X 44 (SEQ ID NO: 45), wherein X3 is G, R, P or K, preferably G or R, more preferably G, X4 is E, D, N or Q, preferably E, X 5 is any amino acid except C, preferably R, P, L, T or E, X6 is any amino acid except C, preferably I, V or F, X 7 is any amino acid except C, preferably Y, V, S or T, X8 is L or M, preferably L, X 9 is P, T, R, L, Y, G or H, preferably P, X10 is N
  • the subsequence X5X6X7X8 is RIVL (SEQ ID NO:47), RIYL (SEQ ID NO:48), PVYL (SEQ ID NO:49), LVYL (SEQ ID NO:50), RVYM (SEQ ID NO:51), TFSL (SEQ ID NO:52), RFYL (SEQ ID NO:53), RFTL (SEQ ID NO:54) or EVYL (SEQ ID NO:55), preferably RIYL, PVYL, LVYL, TFSL or EVYL, more preferably RIYL, LVYL or TFSL.
  • the subsequence X12X13X14X15X16CX18 is preferably NADQLCA (SEQ ID NO:7).
  • X5X6X7X8 is LVYL
  • X12X13 is NA
  • X 16 is L
  • X 23 is A
  • X 34 is L.
  • first subunit comprises or consists of: (i) a sequence selected from the groups consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10 and SEQ ID NO:11; or (ii) a sequence having at least 90%, such as at least 95%, identity to any one of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10 and SEQ ID NO:11.
  • the sequence of (i) is preferably SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4 or SEQ ID NO:6, more preferably SEQ ID NO:2 or SEQ ID NO:4. These preferences also apply to (ii).
  • the first subunit comprises or consists of: (v) a sequence selected from SEQ ID NO:23, SEQ ID NO:24, SEQ ID NO:25, SEQ ID NO:26, SEQ ID NO:27, SEQ ID NO:28, SEQ ID NO:30, SEQ ID NO:31, SEQ ID NO:32 and SEQ ID NO:33; or (vi) a sequence having at least 90%, such as at least 95%, identity to any one of SEQ ID NO:23, SEQ ID NO:24, SEQ ID NO:25, SEQ ID NO:26, SEQ ID NO:27, SEQ ID NO:28, SEQ ID NO:30, SEQ ID NO:31, SEQ ID NO:32 and SEQ ID NO:33.
  • the sequence of (v) is preferably SEQ ID NO:24, SEQ ID NO:25, SEQ ID NO:26 or SEQ ID NO:28, more preferably SEQ ID NO:24 or SEQ ID NO:26. These preferences also apply to (vi).
  • the term ”% identity is calculated as follows. The query sequence is aligned to the target sequence using the CLUSTAL W algorithm (Thompson et al (1994) Nucleic Acids Research, 22:4673-4680). A comparison is made over the window corresponding to the target sequence. The amino acid residues at each position are compared and the percentage of positions in the query sequence that have identical correspondences in the target sequence is reported as % identity.
  • SEQ ID NO:23 is the first subunit of SqaSN1 shown in figure 1c and discussed below.
  • SEQ ID NO:1 is a subsequence of SEQ ID NO:23.
  • SEQ ID NO:24 is the first subunit of SqaSN2 shown in figure 1b-c and discussed below.
  • SEQ ID NO:2 is a subsequence of SEQ ID NO:24.
  • SEQ ID NO:25 is the first subunit of SqaSN3 shown in figure 1b-c and discussed below.
  • SEQ ID NO:3 is a subsequence of SEQ ID NO:25.
  • SEQ ID NO:26 is the first subunit of Sq aSN4 shown in figure 1b-c and discussed below.
  • SEQ ID NO:4 is a subsequence of SEQ ID NO:26.
  • SEQ ID NO:27 is the first subunit of Sq aSN5 shown in figure 1b and discussed below.
  • SEQ ID NO:5 is a subsequence of SEQ ID NO:27.
  • SEQ ID NO:28 is the first subunit of Sq aSN6 shown in figure 1b-c and discussed below.
  • SEQ ID NO:6 is a subsequence of SEQ ID NO:28.
  • SEQ ID NO:30 is the first subunit of Sq aSN8 shown in figure 1b and discussed below.
  • SEQ ID NO:8 is a subsequence of SEQ ID NO:30.
  • SEQ ID NO:31 is the first subunit of Sq aSN9 shown in figure 1b and discussed below.
  • SEQ ID NO:9 is a subsequence of SEQ ID NO:31.
  • SEQ ID NO:32 is the first subunit of Sq aSN10 shown in figure 1b and discussed below.
  • SEQ ID NO:10 is a subsequence of SEQ ID NO:32.
  • SEQ ID NO:33 is the first subunit of Sq aSN11 shown in figure 1b-c and discussed below.
  • SEQ ID NO:11 is a subsequence of SEQ ID NO:33.
  • the second subunit comprises the amino acid sequence X62GX64X65VX67X68X69X70X71X72X73X74X75X76CX78FX80X81X82X83X84X85X86X87X88X89 X 90 AX 92 X 93 LX 95 X 96 X 97 X 98 X 99 X 100 X 101 X 102 X 103 X 104 (SEQ ID NO:46), wherein X62 is G or P, preferably G, X 64 is E or D, preferably E, X65 is any amino acid except C, such as P, R, T, I, V or A, preferably P, R or T, X67 is any amino acid except C, preferably Y, L, W or M, more preferably Y or L, X 68 is L or M, preferably L, X69 is P, L, T, R,
  • the subsequence X65VX67X68 (SEQ ID NO:40) is PVYL, TVLL (SEQ ID NO:56) or RVYL (SEQ ID NO:57), preferably PVYL or TVLL.
  • X76 and X80 are both W.
  • X65VX67X68 is TVLL
  • X72X73 is NP
  • X 76 and X 80 are both W
  • X 83 is L.
  • the second subunit comprises or consists of: (iii) a sequence selected from SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15, SEQ ID NO:16, SEQ ID NO:17, SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21 and SEQ ID NO:22; or (iv) a sequence having at least 90%, such as at least 95%, identity to any one of SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15, SEQ ID NO:16, SEQ ID NO:17, SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21 and SEQ ID NO:22.
  • sequence of (iii) is preferably SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 or SEQ ID NO:17, more preferably from SEQ ID NO:13 or SEQ ID NO:15.
  • sequence of (iv) is preferably SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 or SEQ ID NO:17, more preferably from SEQ ID NO:13 or SEQ ID NO:15.
  • the second subunit comprises or consists of: (vii) a sequence selected from SEQ ID NO:34, SEQ ID NO:35, SEQ ID NO:36, SEQ ID NO:37, SEQ ID NO:38, SEQ ID NO:39, SEQ ID NO:41, SEQ ID NO:42, SEQ ID NO:43 and SEQ ID NO:44; or (viii) a sequence having at least 90%, such as at least 95%, identity to any one of SEQ ID NO:34, SEQ ID NO:35, SEQ ID NO:36, SEQ ID NO:37, SEQ ID NO:38, SEQ ID NO:39, SEQ ID NO:41, SEQ ID NO:42, SEQ ID NO:43 and SEQ ID NO:44.
  • sequence of (vii) is preferably SEQ ID NO:35, SEQ ID NO:36, SEQ ID NO:37 or SEQ ID NO:39, more preferably SEQ ID NO:35 or SEQ ID NO:37.
  • SEQ ID NO:34 is the second subunit of SqaSN1 shown in figure 1c and discussed below.
  • SEQ ID NO:12 is a subsequence of SEQ ID NO:34.
  • SEQ ID NO:35 is the second subunit of SqaSN2 shown in figure 1b-c and discussed below.
  • SEQ ID NO:13 is a subsequence of SEQ ID NO:35.
  • SEQ ID NO:36 is the second subunit of SqaSN3 shown in figure 1b-c and discussed below.
  • SEQ ID NO:14 is a subsequence of SEQ ID NO:36.
  • SEQ ID NO:37 is the second subunit of SqaSN4 shown in figure 1b-c and discussed below.
  • SEQ ID NO:15 is a subsequence of SEQ ID NO:37.
  • SEQ ID NO:38 is the second subunit of SqaSN5 shown in figure 1b and discussed below.
  • SEQ ID NO:16 is a subsequence of SEQ ID NO:38.
  • SEQ ID NO:39 is the second subunit of Sq aSN6 shown in figure 1b-c and discussed below.
  • SEQ ID NO:17 is a subsequence of SEQ ID NO:39.
  • SEQ ID NO:41 is the second subunit of Sq aSN8 shown in figure 1b and discussed below.
  • SEQ ID NO:19 is a subsequence of SEQ ID NO:41.
  • SEQ ID NO:42 is the second subunit of Sq aSN9 shown in figure 1b and discussed below.
  • SEQ ID NO:20 is a subsequence of SEQ ID NO:42.
  • SEQ ID NO:43 is the second subunit of Sq aSN10 shown in figure 1b and discussed below.
  • SEQ ID NO:21 is a subsequence of SEQ ID NO:43.
  • SEQ ID NO:44 is the second subunit of Sq aSN11 shown in figure 1b-c and discussed below.
  • SEQ ID NO:22 is a subsequence of SEQ ID NO:44.
  • the linker comprises at least eight amino acid residues, such as 8-30 amino acid residues, such as 8-25 amino acid residues, such as 10-25 amino acid residues.
  • the linker may for example comprise at least four S residues.
  • the linker comprises the sequence SSSSGSSSSG (SEQ ID NO:18).
  • a fusion protein comprising a polypeptide according to the first aspect and a half-life- extending region.
  • the half-life-extending region may for example be an Fc-binding region or an albumin-binding region (ABR).
  • ABR albumin-binding region
  • the half-life-extending region may for example be located on the C-terminal side of the alpha synuclein-binding polypeptide.
  • a half-life-extending group is connected to the the alpha synuclein-binding polypeptide in another way.
  • the polypeptide and the half-life-extending group together forms a construct that may comprise further parts or groups.
  • a fusion protein comprising a polypeptide according to the first aspect and a region facilitating transport across the blood-brain barrier. Such a region may for example bind to transferrin receptor 1.
  • a group facilitating transport across the blood-brain barrier is connected to the alpha synuclein-binding polypeptide in another way.
  • the polypeptide and the transport-facilitating group together forms a construct that may comprise further parts or groups.
  • the fusion protein of the second aspect comprises the transport-facilitating group of the third aspect.
  • a polypeptide according to the first aspect or a fusion protein according to the second or third aspect for use as a medicament.
  • a pharmaceutical composition comprising the polypeptide or fusion protein according to any one of the preceding aspects. The composition of the fifth aspect is preferably adapted for intravenous or subcutaneous injection.
  • a polypeptide, fusion protein or pharmaceutical composition according to any one of the preceding aspects for use in a method of preventing or treating Parkinson’s disease or Lewy body dementia.
  • a method of preventing or treating Parkinson’s disease or Lewy body dementia in a subject in need thereof comprising administration of a polypeptide, fusion protein or pharmaceutical composition according to any one of the preceding aspects.
  • the method of the sixth or seventh aspect typically comprises injection, such as intravenous or subcutaneous injection, of the polypeptide, fusion protein or pharmaceutical composition.
  • the subject of the method of the sixth or seventh aspect is preferably human.
  • Phage display selections against alpha synuclein (1-140) [0076] Phage display selection from the Sq lib (Hjelm et al.2023) was performed using biotinylated alpha synuclein (aSN) 1-140 as target (AnaSpec, United States) in five rounds (the randomization behind the library is further explained in figure 1a). The target concentration was decreased over the five selection rounds (200 nM, 200 nM, 100 nM, 50 nM, 25 nM) and performed at 4 ⁇ C in round one to four. In the fifth round, the selection was divided into two tracks with one at 4 °C and one at room temperature.
  • Phage ELISA To investigate the efficacy of the selection, polyclonal ELISA from phage stock after each selection round and monoclonal phage ELISA on individual clones were performed as described previously (Hjelm et al.2023). All phage stocks were diluted to the same concentration before incubating with aSN (1-140).
  • the ELISA plate was prepared in a 384-well format (Nunc, PS, Low binding, Hi-Edge, clear), with four wells per individual clone. Two wells per clone were coated with HSA [5 ⁇ g/ml] or BSA [1 w/v%]. Two wells where precoated with streptavidin [5 ⁇ g/ml] and coated in a second step with biotinylated aSN [1 ⁇ g/ml] or BSA [1 w/v%]. Signal corresponding to binding to aSN was normalized to the HSA signal and blanked by subtraction from BSA or streptavidin-BSA background signal.
  • DNA sequences were identified with Sanger sequencing (Microsynth SeqLab, Germany), and sequences analysed with the Geneious software (version 11.2, Biomatters LTD, New Zealand).
  • Expression and purification of soluble sequestrins [0081] DNA encoding the sequestrins were amplified from phagemids with primers designed for the In-Fusion HD cloning kit (Takara Bio Europe), by manufacturer’s recommendations into the pET-26b(+)-vector for periplasmic production with a C-terminal His6-tag. Sequence verified clones (Sanger sequencing, Eurofins Genomics, Germany) were heat-shocked to the E. coli strain BL21(DE3) for protein expression.
  • Cultivation was started from over-night inoculated colonies to an OD 600 of 0.1 AU in TSBY with kanamycin [25 ⁇ g/ml] and grown until OD 600 reached 1.0 AU at 37°C before inducing with 1 mM IPTG and thereafter incubated at 25 °C for 16 hours.
  • Cell pellets from harvest were dissolved in IMAC running buffer [47 mM Na2HPO4, 3 mM NaH2PO4, 300 mM NaCl, 15 mM imidazole, pH 7.4] before proceeding with purification. [0082]
  • the harvested cells were sonicated using a Vibra-Cell VCX 130 sonicator (Sonics, United States) and cell debris removed by centrifugation and filtration.
  • the lysate was loaded on an equilibrated HisPur Cobalt Resin (Thermo Scientific, United States) and washed with running buffer.
  • the sample was isocraticly eluted with the running buffer supplemented with 150 mM imidazole.
  • Fractions of eluate containing protein according to measurement with the PierceTM BCA Protein Assay Kit (Thermo Scientific, United States) were pooled and buffer exchanged to PBS on PD 10 desalting columns (Cytiva, United States).
  • the eluted samples were loaded (1.5 ⁇ g) on a gel for SDS-PAGE analysis (NuPAGE Bis-Tris 4–12%, Invitrogen, United States).
  • aSN plasmid vector pET11-D containing the insert coding human aSN, was expressed in E. coli BL21 (DE3) competent cells using an auto-induction method. Cells were harvested by centrifugation and treated with the osmotic shock buffer (20 mM Tris-HCl, pH: 7.2, 40% sucrose), incubated for 10 min and centrifuged again. Afterwards, the pellet was suspended in ice-cold deionised water, with the subsequent addition of saturated MgCl2, and briefly incubated on ice.
  • the osmotic shock buffer (20 mM Tris-HCl, pH: 7.2, 40% sucrose
  • the periplasmic fraction of the cell lysate was collected, and the majority of unwanted proteins were precipitated by acidification.
  • the solution was fractionated on a Q- Sepharose column connected to an ⁇ KTA Explorer system (Cytiva, United States). Fractions containing aSN were identified by SDS-PAGE, pulled together and high molecular weight aggregates were removed by filtration through a 30 kDa filter. The aSN concentration was determined using NanoDrop ND1000 (Thermo Fisher Scientific, United States), and the protein was aliquoted, lyophilized and stored at ⁇ 20 °C.
  • recombinant human wt and mutated aSN were incubated with or without the addition of sequestrins, at a final concentration of 70 ⁇ M for aSN and respectively 70, 14 and 7 ⁇ M for sequestrins, with 40 ⁇ M ThT in a FLUOstar Omega (BMG Labtech, Ortenberg, Germany) plate reader at 37 °C with shaking.
  • the ThT signal was monitored at 448 nm excitation and 482 nm emission.
  • Phage display selection of sequestrins against alpha synuclein For selection of new sequestrins against alpha synuclein (aSN), a previously described (Hjelm et al.2023) na ⁇ ve sequestrin library (Sqlib) displayed on phage was used in five biopanning cycles with decreasing amount of target peptide and increased stringency. The first four cycles were carried out at 4 ⁇ C to minimize aggregation of aSN during selection. In the fifth cycle, the phage pool was split in two, with one track at 4 ⁇ C and the other at room temperature.
  • the polyclonal ELISA showed an increase in target-binding signal from the first to the third cycle and a relatively constant signal after the third cycle.
  • the results from the ELISA correlated with the observed enrichment of phage titres for the third selection cycle.
  • the monoclonal ELISA on isolated variants from the later cycles showed a relatively high proportion of positive clones for target antigen, increasing from around 33% in cycle four to 60% in cycle five.
  • the proportion of amino acids in randomised positions compared to the original library, shifted for several positions where some amino acids were dominant. An average of six substitutions per protein, ranging between four to nine substitutions, was observed.
  • Representative clones from different clusters in the phylogenetic tree were selected for further characterization (figure 1b-c).
  • CD circular dichroism
  • the sequestrins showed an alpha helical content that was similar to previously reported sequestrins targeting amyloid beta (Hjelm et al.2023; Hoyer and Härd 2008) (figure 2).
  • Thermal melting point (Tm) was assessed by variable temperature measurement (VTM) and the average Tm was around 44 °C and ranging between 38–48 °C (table 2).
  • the CD spectra from before and after VTM showed good overlap, indicating refolding after heat-induced denaturation (figure 2).
  • Table 2 Kinetic rate constants (ka and kd) and affinity (KD) for immobilized aSN as determined by SPR against sequestrin clones as analytes at 25 °C.
  • Biotinylated aSN was captured onto streptavidin-coated chips, followed by injection of the sequestrins.
  • the kinetics for the interactions demonstrated a general trend of relatively slow association and slow dissociation and the best variants had equilibrium dissociation constants (K D ) of around 10 nM (figure 3).
  • K D equilibrium dissociation constants
  • the affinities of the sequestrins Sq aSN2 , Sq aSN3 , Sq aSN4, Sq aSN6 and Sq aSN11 were around 7-fold higher (table 2).
  • the clones were also analyzed at 37 °C.
  • CD spectra of free sequestrins and aSN were recorded, showing alpha helical content for the sequestrins and random coil for aSN (figure 4A-C).
  • a loss of signal mainly corresponding to random coil
  • the aSN variants were incubated with or without the addition of sequestrins, at a final concentration of 70 ⁇ M for aSN and respectively 70 (1:1), 14 (1:5) and 7 ⁇ M (1:10) for sequestrins, together with ThT in a plate reader at 37 °C with shaking, and the ThT fluorescence was monitored for 75 h.
  • the samples with only aSN showed the expected time- dependent increase in signal corresponding to aSN aggregation and the A53T mutant displayed a more rapid increase in signal in agreement with its higher aggregation propensity (Flagmeier et al.2016) (figure 5).
  • Sq aSN2 Sq aSN3
  • Sq aSN4 Sq aSN6 Sq aSN11 AS69 aSN_wt 4 5 1 2 6 3 aSN_A53T 2 5 1 4 3 6 aSN_E46K 2 3 1 6 5 4 aSN_A30P 4 3 2 1 6 5
  • Total ranking score 12 16 5 13 20 18 [00110] According to Table 4, SqaSN4 is thus (clearly) the best binder followed by Sq aSN2 , Sq aSN6 and Sq aSN3 .
  • REFERENCES [00111] Breydo, Leonid, Jessica W. Wu, and Vladimir N. Uversky.2012.

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Abstract

There is provided an alpha synuclein-binding polypeptide comprising a first and a second subunit and a linker linking the C-terminus of the first subunit to the N- terminus of the second subunit.

Description

ALPHA SYNUCLEIN-BINDING POLYPEPTIDE TECHNICAL FIELD [0001] The present disclosure relates to the field of treating or preventing Parkinson’s disease and Lewy body dementia. BACKGROUND [0002] Neurodegenerative disorders (NDs) are a family of diseases where the degradation of neurons impacts the cognitive and motor function, and examples include Alzheimer’s disease (AD), Frontotemporal Dementia (FTD), Amyotrophic Lateral Sclerosis (ALS), and Parkinson’s Disease (PD). The second most common ND is Parkinson’s disease (PD), associated with several motor- and non-motor symptoms. Alpha synuclein is a neuronal protein and the main constituent of Lewy bodies which is a neuropathological hallmark of several dementias such as Parkinson’s disease and Lewy body dementia. [0003] During the progression of PD, neurons in the substantia nigra become damaged and eventually dies, causing a decrease in the production of dopamine. Lower dopamine level leads to difficulties in controlling movements and the typical PD symptoms (Maiti et al.2017). Toxicity caused by overexpression, or mutations in the alpha synuclein (aSN) gene yielding a higher aggregation propensity or secretion propensity correlates to the neuronal degeneration (Breydo, Wu, and Uversky 2012; Fornai et al.2004; Guan et al.2020). Today, drugs for PD only slow the progression and no curative treatments for PD are available (McFarthing et al.2022). However, there are several disease-modifying drugs emerging. Two prominent examples are the monoclonal antibody Prasinezumab that targets soluble and aggregated aSN (Pagano et al.2022; Schenk et al.2017), and the neuroprotective peptide Liraglutide (Victoza, repurposed from diabetes treatment) (Liu et al.2015). Several other antibodies are in development for therapeutic and diagnostic purposes for PD (McFarthing et al. 2022). However, to obtain a smaller molecular size and easily introduce multispecificity, antibody derivatives and engineerable small protein scaffolds have been suggested as interesting alternatives (Löfblom, Frejd, and Ståhl 2011; Ståhl et al. 2017; Zhong and D’Antona 2021). [0004] A new scaffold protein has been designed based on a dimeric type of affibody molecules, which was first reported for the amyloid-beta binder ZA ^3 (Grönwall et al.2007). The scaffold was engineered into a head-to-tail genetic dimer, truncated in the N-terminal and a new flexible serine and glycine linker was introduced between the two subunits. Based on the sequences and structures of previous dimeric affibody molecules in complex with aggregation prone peptides, eleven positions in each subunit were selected for randomization to construct a new combinatorial library. The new dimeric scaffold was denoted Sequestrin and in a proof-of-concept study intended to assess the quality of the scaffold and library design, new high affinity sequestrins against amyloid beta peptide were selected using phage display technology (Hjelm et al.2023). SUMMARY [0005] The present disclosure describes use of the new sequestrin library in phage display selections against aSN with the aim to generate high-affinity aggregation inhibitors. Sequestrins are a new type of small affinity proteins with a mode-of- binding similar to protein chaperones, shielding the hydrophobic parts of neurotoxic proteins and peptides and thereby acting as anti-amyloid agents. Upon binding, sequestrins co-fold with the neurotoxic peptide, forming a four-stranded beta-sheet with a secondary structure that have similarities to the beta-sheet rich structures seen in amyloid fibrils. [0006] Characterization of the clones from the selection has revealed several binders with affinities in the low nanomolar range. Spectroscopy studies on secondary structure content has demonstrated structural rearrangements in the sequestrins as well as in aSN. Aggregation of wildtype aSN and three familial PD variants (A30P, E46K and A53T) (Maiti et al.2017) was completely inhibited by several of the new sequestrins when mixed in equimolar concentrations. [0007] The best binders demonstrated affinities around 10 nM and structural rearrangements in both sequestrin and alpha synuclein upon binding. Studying the effects of sequestrins on alpha synuclein in vitro demonstrated that the tested variants completely inhibited alpha synuclein aggregation at equimolar concentrations, including the A30P, E46K and A53T mutants that are linked with familial forms of Parkinson’s disease and Lewy body dementia. [0008] Based on the sequences of the identified high affinity binders (and the inventors’ understanding of the general structure of the sequesterins), there is provided an alpha synuclein-binding polypeptide comprising a first and a second subunit and a linker linking the C-terminus of the first subunit to the N-terminus of the second subunit, wherein: the first subunit comprises the amino acid sequence GX3X4X5X6X7X8X9X10X11X12X13X14X15X16CX18FIX21X22X23X24X25X26X27X28X29X30AX32 X33X34X35X36X37X38X39X40X41X42X43X44 (SEQ ID NO:45); and the second subunit comprises the amino acid sequence X62GX64X65VX67X68X69X70X71X72X73X74X75X76CX78FX80X81X82X83X84X85X86X87X88X89 X90AX92X93LX95X96X97X98X99X100X101X102X103X104 (SEQ ID NO:46), and wherein X3 is G, R, P or K, preferably G or R, more preferably G, X4 is E, D, N or Q, preferably E, X5 is any amino acid except C, preferably R, P, L, T or E, X6 is any amino acid except C, preferably I, V or F, X7 is any amino acid except C, preferably Y, V, S or T, X8 is L or M, preferably L, X9 is P, T, R, L, Y, G or H, preferably P, X10 is N, E, D or Q, preferably N, X11 is L, A, I, V or G, preferably L, X12 is N or K, preferably N, X13 is A or P, preferably A, X14 is D, H, S, A or E, preferably D, X15 is Q, D, N or E, preferably Q, X16 is L or I, preferably L, X18 is A, I, V, G or L, preferably A or L, more preferably A, X21 is R, Q, N, H or K, preferably R, X22 is S, T, I, L or V, preferably S, X23 is L, A or V, preferably A, X24 is E, Q, D or N, preferably E or Q, more preferably E, X25 is D or E, preferably D, X26 is D or E, preferably D, X27 is P, R, Q, E, S or G, preferably P, X28 is S or T, preferably S, X29 is Q or N, preferably Q, X30 is S, Q, E, N or P, preferably S, X32 is N or Q, preferably N, X33 is L or I, preferably L, X34 is L or V, preferably L, X35 is A, I or L, preferably A, X36 is E or D, preferably E, X37 is A, I or L, preferably A, X38 is K or R, preferably K, X39 is K or R, preferably K, X40 is L, A, I or V, preferably L, X41 is N or Q, preferably N, X42 is D or E, preferably D, X43 is A, I or L, preferably A, X44 is Q or N, preferably Q, X62 is G or P, preferably G, X64 is E or D, preferably E, X65 is any amino acid except C, preferably P, R, T, I, V or A, more preferably P, R or T, X67 is any amino acid except C, preferably Y, L, W or M, more preferably Y or L, X68 is L or M, preferably L, X69 is P, L, T, R, L, Y or H, preferably P, X70 is N, E, D or Q, preferably N, X71 is L, A, I, V or G, preferably L, X72 is N or K, preferably N, X73 is A or P, preferably P, X74 is D, H, S or A, preferably D, X75 is Q or N, preferably Q, X76 is W or L, preferably W, X78 is A, I, V, G or L, preferably A, X80 is L, W, F, I or M, preferably L, W, F or M, more preferably W or F, most preferably W, X81 is R, Q, N, H or K, preferably R, X82 is S, T, I, L or V, preferably S, X83 is L or A, preferably L, X84 is E, Q, D or N, preferably E, X85 is D or E, preferably D, X86 is D or E, preferably D, X87 is P, R, Q, E, S or G, preferably P, X88 is S or T, preferably S, X89 is Q or N, preferably Q, X90 is S, Q, E, N or P, preferably S, X92 is N or Q, preferably N, X93 is L or I, preferably L, X95 is A, I or L, preferably A, X96 is E or D, preferably E, X97 is A, I or L, preferably A, X98 is K or R, preferably K, X99 is K or R, preferably K, X100 is L, A, I or V, preferably L, X101 is N or Q, preferably N, X102 is D or E, preferably D, X103 is A, I or L, preferably A, and X104 is Q or N, preferably Q. BRIEF DESCRIPTION OF THE FIGURES [0009] Figure 1a: Illustration of the randomization behind the library from which the phage display selection of the Examples section below was made. Group I: all amino acids (aa) except C. Group II: K or N, and P or A. Group III: hydrophobic aa. Group IV: all aa except P, G and C. [0010] Figure 1b: Sequence of the sequestrin library with randomised positions marked with X. Mutations in randomized positions for five selected sequestrins. [0011] Figure 1c: Alignment of sequestrins identified in the phage display experiment described in the Examples section below and the prior art sequence AS69 (also an aSN binder, see Mirecka et al.2014). [0012] Figure 2: Circular dichroism (CD) spectroscopy spectra of sequestrins, before (black) and after (grey) heat-induced denaturation and refolding. Spectra for SqaSN2, SqaSN3 and SqaSN4 are shown in Figure 2a. Spectra for SqaSN6 and SqaSN11 are shown in Figure 2b. [0013] Figure 3: Surface plasmon resonance (SPR) sensorgram for the sequestrins SqaSN2, SqaSN3, SqaSN4, SqaSN6, and SqaSN11 at (A-C, G-I) 25 °C and (D-F, J-L) 37 °C, respectively. The y-axis shows the relative response units (RU) and x-axis time (s). The black lines represent the fitting of the data to calculate kinetics. The experiment was conducted with immobilized aSN at a coating density of 190 RU. [0014] Figure 4: Circular dichroism (CD) spectra between 195–260 nm for proteins in equimolar concentrations. (A-C) Indicates the structural rearrangement upon co-incubation of aSN and sequestrins. The spectra show the signal lost upon co- incubation between aSN and respective sequestrin. (D-F) Variable temperature measurements at 221 nm of sequestrins with and without aSN co-incubated with the sequestrins. (G-I) Sequestrins in complex with aSN before (light grey) and after (black) thermal melting. [0015] Figure 5: Aggregation assay measuring thioflavin T (ThT) fluorescence at 480 nm. ThT fluorescence monitored for 75 h for 70 μM of respective aSN variants, and 1:1, 1:5 and 1:10 molar ratios of respective sequestrins. Standard deviation of the replicates is shown in the graph. See Figure 5a for SqaSN2 and SqaSN3, Figure 5b for SqaSN4 and SqaSN6 and Figure 5c for SqaSN11 and AS69 (reference, see Mirecka et al. 2014). [0016] Figure 6: Alignment of sequences related to the first subunit. [0017] Figure 7: Alignment of sequences related to the second subunit. DETAILED DESCRIPTION [0018] As a first aspect of the present disclosure, there is provided an alpha synuclein-binding polypeptide comprising a first and a second subunit and a linker linking the C-terminus of the first subunit to the N-terminus of the second subunit. [0019] The first subunit comprises the amino acid sequence GX3X4X5X6X7X8X9X10X11X12X13X14X15X16CX18FIX21X22X23X24X25X26X27X28X29X30AX32 X33X34X35X36X37X38X39X40X41X42X43X44 (SEQ ID NO: 45), wherein X3 is G, R, P or K, preferably G or R, more preferably G, X4 is E, D, N or Q, preferably E, X5 is any amino acid except C, preferably R, P, L, T or E, X6 is any amino acid except C, preferably I, V or F, X7 is any amino acid except C, preferably Y, V, S or T, X8 is L or M, preferably L, X9 is P, T, R, L, Y, G or H, preferably P, X10 is N, E, D or Q, preferably N, X11 is L, A, I, V or G, preferably L, X12 is N or K, preferably N, X13 is A or P, preferably A, X14 is D, H, S, A or E, preferably D, X15 is Q, D, N or E, preferably Q, X16 is L or I, preferably L, X18 is A, I, V, G or L, preferably A or L, more preferably A, X21 is R, Q, N, H or K, preferably R, X22 is S, T, I, L or V, preferably S, X23 is L, A or V, preferably A, X24 is E, Q, D or N, preferably E or Q, more preferably E, X25 is D or E, preferably D, X26 is D or E, preferably D, X27 is P, R, Q, E, S or G, preferably P, X28 is S or T, preferably S, X29 is Q or N, preferably Q, X30 is S, Q, E, N or P, preferably S, X32 is N or Q, preferably N, X33 is L or I, preferably L, X34 is L or V, preferably L, X35 is A, I or L, preferably A, X36 is E or D, preferably E, X37 is A, I or L, preferably A, X38 is K or R, preferably K, X39 is K or R, preferably K, X40 is L, A, I or V, preferably L, X41 is N or Q, preferably N, X42 is D or E, preferably D, X43 is A, I or L, preferably A and X44 is Q or N, preferably Q. [0020] The alternatives listed for X5-8, X12-13, X16, X23 and X34 are based on the results presented in the Examples section below. [0021] The alternatives listed for X3-4, X9-11, X14-15, X18, X21-22, X24-30, X32-33 and X35-44 are based on the inventors’ extensive experience of working with the general sequestrin structures. [0022] In one embodiment, the subsequence X5X6X7X8 is RIVL (SEQ ID NO:47), RIYL (SEQ ID NO:48), PVYL (SEQ ID NO:49), LVYL (SEQ ID NO:50), RVYM (SEQ ID NO:51), TFSL (SEQ ID NO:52), RFYL (SEQ ID NO:53), RFTL (SEQ ID NO:54) or EVYL (SEQ ID NO:55), preferably RIYL, PVYL, LVYL, TFSL or EVYL, more preferably RIYL, LVYL or TFSL. [0023] The subsequence X12X13X14X15X16CX18 (SEQ ID NO:29) is preferably NADQLCA (SEQ ID NO:7). [0024] In a particularly preferred embodiment, X5X6X7X8 is LVYL, X12X13 is NA, X16 is L, X23 is A and X34 is L. These amino acids are found in SqaSN4, which is particularly advantageous according to table 4 below. [0025] In one embodiment, first subunit comprises or consists of: (i) a sequence selected from the groups consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10 and SEQ ID NO:11; or (ii) a sequence having at least 90%, such as at least 95%, identity to any one of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10 and SEQ ID NO:11. [0026] The sequence of (i) is preferably SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4 or SEQ ID NO:6, more preferably SEQ ID NO:2 or SEQ ID NO:4. These preferences also apply to (ii). [0027] In another embodiment, the first subunit comprises or consists of: (v) a sequence selected from SEQ ID NO:23, SEQ ID NO:24, SEQ ID NO:25, SEQ ID NO:26, SEQ ID NO:27, SEQ ID NO:28, SEQ ID NO:30, SEQ ID NO:31, SEQ ID NO:32 and SEQ ID NO:33; or (vi) a sequence having at least 90%, such as at least 95%, identity to any one of SEQ ID NO:23, SEQ ID NO:24, SEQ ID NO:25, SEQ ID NO:26, SEQ ID NO:27, SEQ ID NO:28, SEQ ID NO:30, SEQ ID NO:31, SEQ ID NO:32 and SEQ ID NO:33. [0028] The sequence of (v) is preferably SEQ ID NO:24, SEQ ID NO:25, SEQ ID NO:26 or SEQ ID NO:28, more preferably SEQ ID NO:24 or SEQ ID NO:26. These preferences also apply to (vi). [0029] The term ”% identity”, as used throughout the specification, is calculated as follows. The query sequence is aligned to the target sequence using the CLUSTAL W algorithm (Thompson et al (1994) Nucleic Acids Research, 22:4673-4680). A comparison is made over the window corresponding to the target sequence. The amino acid residues at each position are compared and the percentage of positions in the query sequence that have identical correspondences in the target sequence is reported as % identity. [0030] SEQ ID NO:23 is the first subunit of SqaSN1 shown in figure 1c and discussed below. SEQ ID NO:1 is a subsequence of SEQ ID NO:23. [0031] SEQ ID NO:24 is the first subunit of SqaSN2 shown in figure 1b-c and discussed below. SEQ ID NO:2 is a subsequence of SEQ ID NO:24. [0032] SEQ ID NO:25 is the first subunit of SqaSN3 shown in figure 1b-c and discussed below. SEQ ID NO:3 is a subsequence of SEQ ID NO:25. [0033] SEQ ID NO:26 is the first subunit of SqaSN4 shown in figure 1b-c and discussed below. SEQ ID NO:4 is a subsequence of SEQ ID NO:26. [0034] SEQ ID NO:27 is the first subunit of SqaSN5 shown in figure 1b and discussed below. SEQ ID NO:5 is a subsequence of SEQ ID NO:27. [0035] SEQ ID NO:28 is the first subunit of SqaSN6 shown in figure 1b-c and discussed below. SEQ ID NO:6 is a subsequence of SEQ ID NO:28. [0036] SEQ ID NO:30 is the first subunit of SqaSN8 shown in figure 1b and discussed below. SEQ ID NO:8 is a subsequence of SEQ ID NO:30. [0037] SEQ ID NO:31 is the first subunit of SqaSN9 shown in figure 1b and discussed below. SEQ ID NO:9 is a subsequence of SEQ ID NO:31. [0038] SEQ ID NO:32 is the first subunit of SqaSN10 shown in figure 1b and discussed below. SEQ ID NO:10 is a subsequence of SEQ ID NO:32. [0039] SEQ ID NO:33 is the first subunit of SqaSN11 shown in figure 1b-c and discussed below. SEQ ID NO:11 is a subsequence of SEQ ID NO:33. [0040] The second subunit comprises the amino acid sequence X62GX64X65VX67X68X69X70X71X72X73X74X75X76CX78FX80X81X82X83X84X85X86X87X88X89 X90AX92X93LX95X96X97X98X99X100X101X102X103X104 (SEQ ID NO:46), wherein X62 is G or P, preferably G, X64 is E or D, preferably E, X65 is any amino acid except C, such as P, R, T, I, V or A, preferably P, R or T, X67 is any amino acid except C, preferably Y, L, W or M, more preferably Y or L, X68 is L or M, preferably L, X69 is P, L, T, R, L, Y or H, preferably P, X70 is N, E, D or Q, preferably N, X71 is L, A, I, V or G, preferably L, X72 is N or K, preferably N, X73 is A or P, preferably P, X74 is D, H, S or A, preferably D, X75 is Q or N, preferably Q, X76 is W or L, preferably W, X78 is A, I, V, G or L, preferably A, X80 is L, W, F, I or M, preferably L, W, F or M, more preferably W or F, most preferably W, X81 is R, Q, N, H or K, preferably R, X82 is S, T, I, L or V, preferably S, X83 is L or A, preferably L, X84 is E, Q, D or N, preferably E, X85 is D or E, preferably D, X86 is D or E, preferably D, X87 is P, R, Q, E, S or G, preferably P, X88 is S or T, preferably S, X89 is Q or N, preferably Q, X90 is S, Q, E, N or P, preferably S, X92 is N or Q, preferably N, X93 is L or I, preferably L, X95 is A, I or L, preferably A, X96 is E or D, preferably E, X97 is A, I or L, preferably A, X98 is K or R, preferably K, X99 is K or R, preferably K, X100 is L, A, I or V, preferably L, X101 is N or Q, preferably N, X102 is D or E, preferably D, X103 is A, I or L, preferably A, and X104 is Q or N, preferably Q. [0041] The alternatives listed for X65, X67-68, X72-73, X76, X80 and X83 are based on the results presented in the Examples section below. [0042] The alternatives listed for X62, X64, X69-71, X74-75, X78, X81-82, X84-90, X92-93 and X95-104 are based on the inventors’ extensive experience of working with the general sequestrin structures. [0043] In one embodiment, the subsequence X65VX67X68 (SEQ ID NO:40) is PVYL, TVLL (SEQ ID NO:56) or RVYL (SEQ ID NO:57), preferably PVYL or TVLL. [0044] In another embodiment, X76 and X80 are both W. [0045] In a particularly preferred embodiment, X65VX67X68 is TVLL, X72X73 is NP, X76 and X80 are both W and X83 is L. These amino acids are found in SqaSN4, which is particularly advantageous according to table 4 below. [0046] In one embodiment, the second subunit comprises or consists of: (iii) a sequence selected from SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15, SEQ ID NO:16, SEQ ID NO:17, SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21 and SEQ ID NO:22; or (iv) a sequence having at least 90%, such as at least 95%, identity to any one of SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15, SEQ ID NO:16, SEQ ID NO:17, SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21 and SEQ ID NO:22. [0047] The sequence of (iii) is preferably SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 or SEQ ID NO:17, more preferably from SEQ ID NO:13 or SEQ ID NO:15. The same preferences apply to (iv). [0048] In another embodiment, the second subunit comprises or consists of: (vii) a sequence selected from SEQ ID NO:34, SEQ ID NO:35, SEQ ID NO:36, SEQ ID NO:37, SEQ ID NO:38, SEQ ID NO:39, SEQ ID NO:41, SEQ ID NO:42, SEQ ID NO:43 and SEQ ID NO:44; or (viii) a sequence having at least 90%, such as at least 95%, identity to any one of SEQ ID NO:34, SEQ ID NO:35, SEQ ID NO:36, SEQ ID NO:37, SEQ ID NO:38, SEQ ID NO:39, SEQ ID NO:41, SEQ ID NO:42, SEQ ID NO:43 and SEQ ID NO:44. [0049] The sequence of (vii) is preferably SEQ ID NO:35, SEQ ID NO:36, SEQ ID NO:37 or SEQ ID NO:39, more preferably SEQ ID NO:35 or SEQ ID NO:37. The same preferences apply to (viii). [0050] SEQ ID NO:34 is the second subunit of SqaSN1 shown in figure 1c and discussed below. SEQ ID NO:12 is a subsequence of SEQ ID NO:34. [0051] SEQ ID NO:35 is the second subunit of SqaSN2 shown in figure 1b-c and discussed below. SEQ ID NO:13 is a subsequence of SEQ ID NO:35. [0052] SEQ ID NO:36 is the second subunit of SqaSN3 shown in figure 1b-c and discussed below. SEQ ID NO:14 is a subsequence of SEQ ID NO:36. [0053] SEQ ID NO:37 is the second subunit of SqaSN4 shown in figure 1b-c and discussed below. SEQ ID NO:15 is a subsequence of SEQ ID NO:37. [0054] SEQ ID NO:38 is the second subunit of SqaSN5 shown in figure 1b and discussed below. SEQ ID NO:16 is a subsequence of SEQ ID NO:38. [0055] SEQ ID NO:39 is the second subunit of SqaSN6 shown in figure 1b-c and discussed below. SEQ ID NO:17 is a subsequence of SEQ ID NO:39. [0056] SEQ ID NO:41 is the second subunit of SqaSN8 shown in figure 1b and discussed below. SEQ ID NO:19 is a subsequence of SEQ ID NO:41. [0057] SEQ ID NO:42 is the second subunit of SqaSN9 shown in figure 1b and discussed below. SEQ ID NO:20 is a subsequence of SEQ ID NO:42. [0058] SEQ ID NO:43 is the second subunit of SqaSN10 shown in figure 1b and discussed below. SEQ ID NO:21 is a subsequence of SEQ ID NO:43. [0059] SEQ ID NO:44 is the second subunit of SqaSN11 shown in figure 1b-c and discussed below. SEQ ID NO:22 is a subsequence of SEQ ID NO:44. [0060] The linker comprises at least eight amino acid residues, such as 8-30 amino acid residues, such as 8-25 amino acid residues, such as 10-25 amino acid residues. [0061] The linker may for example comprise at least four S residues. In one embodiment, the linker comprises the sequence SSSSGSSSSG (SEQ ID NO:18). [0062] As a second aspect of the present disclosure, there is provided a fusion protein comprising a polypeptide according to the first aspect and a half-life- extending region. [0063] The half-life-extending region may for example be an Fc-binding region or an albumin-binding region (ABR). The half-life-extending region may for example be located on the C-terminal side of the alpha synuclein-binding polypeptide. [0064] Alternatively, a half-life-extending group is connected to the the alpha synuclein-binding polypeptide in another way. In this alternative embodiment, the polypeptide and the half-life-extending group together forms a construct that may comprise further parts or groups. [0065] Various half-life-extending strategies for polypeptides/proteins are described in a review article by Kontermann (EXPERT OPINION ON BIOLOGICAL THERAPY, 2016 VOL.16, NO.7, 903–915). [0066] As a third aspect of the present disclosure, there is provided a fusion protein comprising a polypeptide according to the first aspect and a region facilitating transport across the blood-brain barrier. Such a region may for example bind to transferrin receptor 1. [0067] Alternatively, a group facilitating transport across the blood-brain barrier is connected to the alpha synuclein-binding polypeptide in another way. In this alternative embodiment, the polypeptide and the transport-facilitating group together forms a construct that may comprise further parts or groups. [0068] In one embodiment, the fusion protein of the second aspect comprises the transport-facilitating group of the third aspect. [0069] As a fourth aspect of the present disclosure, there is provided a polypeptide according to the first aspect or a fusion protein according to the second or third aspect for use as a medicament. [0070] As a fifth aspect of the present disclosure, there is provided a pharmaceutical composition comprising the polypeptide or fusion protein according to any one of the preceding aspects. The composition of the fifth aspect is preferably adapted for intravenous or subcutaneous injection. [0071] As a sixth aspect of the present disclosure, there is provided a polypeptide, fusion protein or pharmaceutical composition according to any one of the preceding aspects for use in a method of preventing or treating Parkinson’s disease or Lewy body dementia. [0072] As a seventh aspect of the present disclosure, there is provided a method of preventing or treating Parkinson’s disease or Lewy body dementia in a subject in need thereof, said method comprising administration of a polypeptide, fusion protein or pharmaceutical composition according to any one of the preceding aspects. [0073] The method of the sixth or seventh aspect typically comprises injection, such as intravenous or subcutaneous injection, of the polypeptide, fusion protein or pharmaceutical composition. [0074] The subject of the method of the sixth or seventh aspect is preferably human. EXAMPLES Methods [0075] Phage display selections against alpha synuclein (1-140) [0076] Phage display selection from the Sqlib (Hjelm et al.2023) was performed using biotinylated alpha synuclein (aSN) 1-140 as target (AnaSpec, United States) in five rounds (the randomization behind the library is further explained in figure 1a). The target concentration was decreased over the five selection rounds (200 nM, 200 nM, 100 nM, 50 nM, 25 nM) and performed at 4 ^C in round one to four. In the fifth round, the selection was divided into two tracks with one at 4 °C and one at room temperature. The library was incubated with target for around 16 hours in the first round, and for 1 hour in rounds 2-5. The stringency of the selection was increased with each round by increasing the number and time of washing steps with PBSTB (5 ^1 min, 5 ^2 min, 5 ^3min, 5 ^6 min, and 5 ^8 min). [0077] Phage ELISA [0078] To investigate the efficacy of the selection, polyclonal ELISA from phage stock after each selection round and monoclonal phage ELISA on individual clones were performed as described previously (Hjelm et al.2023). All phage stocks were diluted to the same concentration before incubating with aSN (1-140). [0079] The ELISA plate was prepared in a 384-well format (Nunc, PS, Low binding, Hi-Edge, clear), with four wells per individual clone. Two wells per clone were coated with HSA [5 μg/ml] or BSA [1 w/v%]. Two wells where precoated with streptavidin [5 μg/ml] and coated in a second step with biotinylated aSN [1 μg/ml] or BSA [1 w/v%]. Signal corresponding to binding to aSN was normalized to the HSA signal and blanked by subtraction from BSA or streptavidin-BSA background signal. DNA sequences were identified with Sanger sequencing (Microsynth SeqLab, Germany), and sequences analysed with the Geneious software (version 11.2, Biomatters LTD, New Zealand). [0080] Expression and purification of soluble sequestrins [0081] DNA encoding the sequestrins were amplified from phagemids with primers designed for the In-Fusion HD cloning kit (Takara Bio Europe), by manufacturer’s recommendations into the pET-26b(+)-vector for periplasmic production with a C-terminal His6-tag. Sequence verified clones (Sanger sequencing, Eurofins Genomics, Germany) were heat-shocked to the E. coli strain BL21(DE3) for protein expression. Cultivation was started from over-night inoculated colonies to an OD600 of 0.1 AU in TSBY with kanamycin [25 μg/ml] and grown until OD600 reached 1.0 AU at 37°C before inducing with 1 mM IPTG and thereafter incubated at 25 °C for 16 hours. Cell pellets from harvest were dissolved in IMAC running buffer [47 mM Na2HPO4, 3 mM NaH2PO4, 300 mM NaCl, 15 mM imidazole, pH 7.4] before proceeding with purification. [0082] The harvested cells were sonicated using a Vibra-Cell VCX 130 sonicator (Sonics, United States) and cell debris removed by centrifugation and filtration. The lysate was loaded on an equilibrated HisPur Cobalt Resin (Thermo Scientific, United States) and washed with running buffer. The sample was isocraticly eluted with the running buffer supplemented with 150 mM imidazole. Fractions of eluate containing protein according to measurement with the Pierce™ BCA Protein Assay Kit (Thermo Scientific, United States) were pooled and buffer exchanged to PBS on PD 10 desalting columns (Cytiva, United States). The eluted samples were loaded (1.5 μg) on a gel for SDS-PAGE analysis (NuPAGE Bis-Tris 4–12%, Invitrogen, United States). Molecular mass was determined by a Thermo Ultimate3000 Bruker Impact II system connected to a ProSwift RP-4H, 1x50 mm column (Thermo Fisher, United States) using a linear gradient elution with acetonitrile [3% to 95%], supplemented with 0.1% formic acid. [0083] Circular dichroism spectroscopy [0084] The secondary structure of the sequestrins was analysed using the Chirascan system (Applied Photophysics, United Kingdom) with a 1 mm High precision cell (110-1P-40 cuvettes, Hellma Analytics, Germany). Five wavelength scans were recorded and averaged between 195 nm and 260 nm at 20 ^C on a protein sample of 0.2 mg/ml in PBS. [0085] The melting point was determined by using a temperature gradient of 1 ^C per minute at 221 nm for five average readings at each sample point. The refolding capability was assessed by repeating the spectral scan after the sample had been subjected to heat treatment and cooled down to 20 °C. The spectra from before and after thermal heating was compared to assess the refolding capability of each protein. [0086] For analyzing the secondary structure during interaction with aSN, equimolar concentrations of 15 μM of the sequestrin and aSN was co-incubated and analyzed by circular dichroism spectroscopy. Secondary structure content was approximated by BeStSel algorithm (Micsonai et al.2015). [0087] Biosensor analysis [0088] Sequestrins were analysed on a Biacore 8K system (Cytiva, United States) with a Series S SA sensor chip (Cytiva, United States) immobilized with biotinylated aSN 1-140 (ALN-H82H8, ACRO Biosciences, United States) to 190 RU in PBST as running buffer (0.05% Tween20). Samples were injected for 350 seconds and the dissociation was recorded for 1,500 seconds at 30 μl/min, before regeneration with 10 mM HCL for 35 seconds at 30 ^l/min. Samples were analysed in a dilution series in duplicate at 25 °C and 37 °C, respectively. The results were evaluated using the Multi-cycle kinetics method - 1:1 binding and 1:1 dissociation, by the Biacore Insight Evaluation Software (Version 2.0.15, Cytiva, United States). [0089] Preparation of the recombinant aSN monomers [0090] Recombinant human wt and mutated aSN were expressed in E. coli and purified as described before (Paslawski et al.2019; Paslawski, Lorenzen, and Otzen 2016) Briefly, aSN plasmid vector pET11-D, containing the insert coding human aSN, was expressed in E. coli BL21 (DE3) competent cells using an auto-induction method. Cells were harvested by centrifugation and treated with the osmotic shock buffer (20 mM Tris-HCl, pH: 7.2, 40% sucrose), incubated for 10 min and centrifuged again. Afterwards, the pellet was suspended in ice-cold deionised water, with the subsequent addition of saturated MgCl2, and briefly incubated on ice. The periplasmic fraction of the cell lysate was collected, and the majority of unwanted proteins were precipitated by acidification. The solution was fractionated on a Q- Sepharose column connected to an ÄKTA Explorer system (Cytiva, United States). Fractions containing aSN were identified by SDS-PAGE, pulled together and high molecular weight aggregates were removed by filtration through a 30 kDa filter. The aSN concentration was determined using NanoDrop ND1000 (Thermo Fisher Scientific, United States), and the protein was aliquoted, lyophilized and stored at ^20 °C. [0091] Alpha synuclein aggregation [0092] The sequestrins from IMAC purification were additionally purified by size exclusion chromatography (SEC). Samples were added to a HiLoad 16/600200 pg (Cytiva, Marlborough, MA, USA) column with PBS as running buffer on a ÄKTA PURE system (Cytiva, Marlborough, MA, USA). The purified proteins were analyzed again by PierceTM BCA Protein Assay Kit (Thermo Scientific, Waltham, MA, USA), SDS-PAGE and mass spectrometry as described above. For aSN aggregation, recombinant human wt and mutated aSN, respectively, were incubated with or without the addition of sequestrins, at a final concentration of 70 μM for aSN and respectively 70, 14 and 7 μM for sequestrins, with 40 μM ThT in a FLUOstar Omega (BMG Labtech, Ortenberg, Germany) plate reader at 37 °C with shaking. The ThT signal was monitored at 448 nm excitation and 482 nm emission. Results [0093] Phage display selection of sequestrins against alpha synuclein [0094] For selection of new sequestrins against alpha synuclein (aSN), a previously described (Hjelm et al.2023) naïve sequestrin library (Sqlib) displayed on phage was used in five biopanning cycles with decreasing amount of target peptide and increased stringency. The first four cycles were carried out at 4 ^C to minimize aggregation of aSN during selection. In the fifth cycle, the phage pool was split in two, with one track at 4 ^C and the other at room temperature. The polyclonal ELISA showed an increase in target-binding signal from the first to the third cycle and a relatively constant signal after the third cycle. The results from the ELISA correlated with the observed enrichment of phage titres for the third selection cycle. The monoclonal ELISA on isolated variants from the later cycles showed a relatively high proportion of positive clones for target antigen, increasing from around 33% in cycle four to 60% in cycle five. At the sequence level, the proportion of amino acids in randomised positions, compared to the original library, shifted for several positions where some amino acids were dominant. An average of six substitutions per protein, ranging between four to nine substitutions, was observed. Representative clones from different clusters in the phylogenetic tree were selected for further characterization (figure 1b-c). [0095] Recombinant production of sequestrins targeting alpha synuclein [0096] The five clones showing the highest affinity were selected, subcloned to an expression vector in fusion to a C-terminal his-tag (SqaSN-His6), produced in E. coli and purified using immobilized metal ion affinity chromatography (table 1). One previously described binder, with specificity for aSN (AS69), was included as control (Mirecka et al.2014). The molecular weight of the produced proteins was confirmed by mass spectrometry and had an experimental mass similar to the expected mass (table 1). [0097] Table 1. Production yield for SqaSN clones and molecular weight (Mw) as determined by LC_MS (ESI). SqaSN clone Yield protein per 100 Mwexpected [Da] Mwobserved [Da] ml culture [mg] SqaSN2-His6 4.0 12,702 12,700 SqaSN3-His6 4.7 12,735 12,736 SqaSN4-His6 4.2 12,580 12,581 SqaSN6-His6 2.0 12,552 12,550 SqaSN11-His6 5.4 12,596 12,594 [0098] Secondary structure and thermal stability of sequestrins [0099] The secondary structure content, thermal stability and refolding of the selected sequestrins was analyzed by circular dichroism (CD) spectroscopy. The sequestrins showed an alpha helical content that was similar to previously reported sequestrins targeting amyloid beta (Hjelm et al.2023; Hoyer and Härd 2008) (figure 2). Thermal melting point (Tm) was assessed by variable temperature measurement (VTM) and the average Tm was around 44 °C and ranging between 38–48 °C (table 2). The CD spectra from before and after VTM showed good overlap, indicating refolding after heat-induced denaturation (figure 2). [00100] Table 2. Kinetic rate constants (ka and kd) and affinity (KD) for immobilized aSN as determined by SPR against sequestrin clones as analytes at 25 °C. Melting temperature (Tm) and refolding as determined by circular dichroism spectroscopy. SqaSN clone ka [1/Ms] kd [1/s] KD [nM] Tm [°C] Refolding AS69 1.58 ^ 10 3 1.14 ^ 10 ^4 72.2 n.d. n.d. SqaSN2 6.37 ^ 10 3 6.43 ^ 10 ^5 10.1 44 Yes Sq aSN3 7.60 ^ 10 3 7.98 ^ 10 ^5 10.5 48 Yes Sq aSN4 9.41 ^ 10 3 8.49 ^ 10 ^5 9.02 40 Yes Sq aSN6 5.26 ^ 10 3 9.45 ^ 10 ^5 17.9 47 Yes Sq aSN11 6.81 ^ 10 3 9.61 ^ 10 ^5 14.1 42 Yes [00101] Biosensor analysis of selected sequestrins targeting alpha synuclein [00102] Surface plasmon resonance was used to assess the kinetics of the interactions between the selected sequestrins and aSN. Biotinylated aSN (bio-aSN) was captured onto streptavidin-coated chips, followed by injection of the sequestrins. The kinetics for the interactions demonstrated a general trend of relatively slow association and slow dissociation and the best variants had equilibrium dissociation constants (KD) of around 10 nM (figure 3). Compared to the previously reported dimeric affibody binder for aSN (Mirecka et al.2014), the affinities of the sequestrins SqaSN2, SqaSN3, SqaSN4, SqaSN6 and SqaSN11 were around 7-fold higher (table 2). The clones were also analyzed at 37 °C. At the higher temperature, the kinetics was somewhat faster with similar KD (figure 3, table 3). [00103] Table 3. Kinetic rate constants (ka and kd) and affinity (KD) for immobilized aSN as determined by SPR against sequestrin clones as analytes at 37 °C. Sq aSN clone ka [1/Ms] kd [1/s] KD [nM] AS69 3.88 ^ 103 2.52 ^ 10 ^4 64.9 Sq aSN2 7.46 ^ 103 1.32 ^ 10 ^4 17.7 SqaSN3 3.13 ^ 103 9.04 ^ 10 ^5 28.9 SqaSN4 1.49 ^ 104 1.88 ^ 10 ^4 12.6 Sq aSN6 5.48 ^ 103 5.66 ^ 10 ^5 10.3 Sq aSN11 7.70 ^ 103 2.02 ^ 10 ^4 26.2 [00104] Sequestrins targeting aSN changes secondary structure upon target binding [00105] It has previously been shown that amyloid-beta binding sequestrins undergo structural rearrangements when binding the peptide (Hjelm et al.2023; Hoyer and Härd 2008). CD spectroscopy on samples with the high affinity clonalities, SqaSN2, SqaSN3, and SqaSN6 and co-incubated with aSN, respectively, was used to detect changes in secondary structure content. First, CD spectra of free sequestrins and aSN were recorded, showing alpha helical content for the sequestrins and random coil for aSN (figure 4A-C). When co-incubating aSN with respective sequestrin a loss of signal, mainly corresponding to random coil, is observed (figure 4A–C), indicating structural rearrangements in secondary structure upon binding. Moreover, co- incubation resulted in an increase in melting temperature (Tm), showing that the formed complex is stabilizing the overall structure (figure 4D–I). [00106] Alpha synuclein aggregation [00107] The effect of sequestrin-binding on aSN aggregation was analyzed using thioflavin T (ThT) fluorescence. Human wild type and three different familial aSN variants (A30P, E46K and A53T) were included in the assay, as well as the five selected sequestrins (SqaSN2, SqaSN3, SqaSN4, SqaSN6, and SqaSN11) and the previously described aSN-binder AS69 as control (Mirecka et al.2014). Recombinant human wt and mutated aSN were expressed in E. coli and monomeric proteins were prepared using ion exchange chromatography and filtration. The aSN variants, respectively, were incubated with or without the addition of sequestrins, at a final concentration of 70 μM for aSN and respectively 70 (1:1), 14 (1:5) and 7 μM (1:10) for sequestrins, together with ThT in a plate reader at 37 °C with shaking, and the ThT fluorescence was monitored for 75 h. The samples with only aSN showed the expected time- dependent increase in signal corresponding to aSN aggregation and the A53T mutant displayed a more rapid increase in signal in agreement with its higher aggregation propensity (Flagmeier et al.2016) (figure 5). Co-incubation with equimolar concentration of respective sequestrin completely inhibited the aggregation of wt aSN and the three mutants (figure 5). More pronounced differences between the sequestrins were observed for the co-incubations with lower concentrations of binder in relation to aSN. SqaSN4 showed for example an effect on the more aggregation- prone A53T variant of aSN, at both 1:5 and 1:10 molar ratio (figure 5). [00108] Based on the results in figure 5, the binders were ranked. The complete ranking is shown in table 4 below. [00109] Table 4. Ranking of the binders in figure 5. SqaSN2 SqaSN3 SqaSN4 SqaSN6 SqaSN11 AS69 aSN_wt 4 5 1 2 6 3 aSN_A53T 2 5 1 4 3 6 aSN_E46K 2 3 1 6 5 4 aSN_A30P 4 3 2 1 6 5 Total ranking score 12 16 5 13 20 18 [00110] According to Table 4, SqaSN4 is thus (clearly) the best binder followed by SqaSN2, SqaSN6 and SqaSN3. REFERENCES [00111] Breydo, Leonid, Jessica W. Wu, and Vladimir N. Uversky.2012. “α- Synuclein Misfolding and Parkinson’s Disease.” Biochimica et Biophysica Acta - Molecular Basis of Disease 1822(2):261–85. doi: 10.1016/j.bbadis.2011.10.002 [00112] Flagmeier, Patrick, Georg Meisl, Michele Vendruscolo, Tuomas P. J. Knowles, Christopher M. Dobson, Alexander K. 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Claims

CLAIMS 1. An alpha synuclein-binding polypeptide comprising a first and a second subunit and a linker linking the C-terminus of the first subunit to the N-terminus of the second subunit, wherein: the first subunit comprises the amino acid sequence GX3X4X5X6X7X8X9X10X11X12X13X14X15X16CX18FIX21X22X23X24X25X26X27X28X29X30AX32 X33X34X35X36X37X38X39X40X41X42X43X44; and the second subunit comprises the amino acid sequence X62GX64X65VX67X68X69X70X71X72X73X74X75X76CX78FX80X81X82X83X84X85X86X87X88X89 and wherein X3 is G, R, P or K, X4 is E, D, N or Q, X5 is any amino acid except C, X6 is any amino acid except C, X7 is any amino acid except C, X8 is L or M, X9 is P, T, R, L, Y, G or H, X10 is N, E, D or Q, X11 is L, A, I, V or G, X12 is N or K, X13 is A or P, X14 is D, H, S, A or E, X15 is Q, D, N or E, X16 is L or I, X18 is A, I, V, G or L, X21 is R, Q, N, H or K, X22 is S, T, I, L or V, X23 is L, A or V, X24 is E, Q, D or N, X25 is D or E, X26 is D or E, X27 is P, R, Q, E, S or G, X28 is S or T, X29 is Q or N, X30 is S, Q, E, N or P, X32 is N or Q, X33 is L or I, X34 is L or V, X35 is A, I or L, X36 is E or D, X37 is A, I or L, X38 is K or R, X39 is K or R, X40 is L, A, I or V, X41 is N or Q, X42 is D or E, X43 is A, I or L, X44 is Q or N, X62 is G or P, X64 is E or D, X65 is any amino acid except C, X67 is any amino acid except C, X68 is L or Y, X69 is P, L, T, R, L, Y or H, X70 is N, E, D or Q, X71 is L, A, I, V or G, X72 is N or K, X73 is A or P, X74 is D, H, S or A, X75 is Q or N, X76 is W or L, X78 is A, I, V, G or L, X80 is L, W, F, I or M, X81 is R, Q, N, H or K, X82 is S, T, I, L or V, X83 is L or A, X84 is E, Q, D or N, X85 is D or E, X86 is D or E, X87 is P, R, Q, E, S or G, X88 is S or T, X89 is Q or N, X90 is S, Q, E, N or P, X92 is N or Q, X93 is L or I, X95 is A, I or L, X96 is E or D, X97 is A, I or L, X98 is K or R, X99 is K or R, X100 is L, A, I or V, X101 is N or Q, X102 is D or E, X103 is A, I or L, and X104 is Q or N.
2. The polypeptide of claim 1, wherein X3 is G or R, preferably G, X4 is E, X5 is R, P, L, T or E, X6 is I, V or F, X7 is Y, V, S or T, X8 is L, X9 is P, X10 is N, X11 is L, X12 is N, X13 is A, X14 is D, X15 is Q, X16 is L, X18 is A or L, preferably A, X21 is R, X22 is S, X23 is A or L, preferably A, X24 is E or Q, preferably E, X25 is D, X26 is D, X27 is P, X28 is S, X29 is Q, X30 is S, X32 is N, X33 is L, X34 is L, X35 is A, X36 is E, X37 is A, X38 is K, X39 is K, X40 is L, X41 is N, X42 is D, X43 is A, X44 is Q, X62 is G, X64 is E, X65 is P, R, T, I, V or A, preferably P, R or T, X67 is Y, L, W or M, preferably Y or L, X68 is L, X69 is P, X70 is N, X71 is L, X72 is N, X73 is P, X74 is D, X75 is Q, X76 is W, X78 is A, X80 is L, W, F or M, preferably W or F, most preferably W, X81 is R, X82 is S, X83 is L, X84 is E, X85 is D, X86 is D, X87 is P, X88 is S, X89 is Q, X90 is S, X92 is N, X93 is L, X95 is A, X96 is E, X97 is A, X98 is K, X99 is K, X100 is L, X101 is N, X102 is D, X103 is A, and/or X104 is Q.
3. The polypeptide of claim 1 or 2, wherein X5X6X7X8 is RIVL, RIYL, PVYL, LVYL, RVYM, TFSL, RFYL, RFTL or EVYL, preferably RIYL, PVYL, LVYL, TFSL or EVYL, more preferably RIYL, LVYL or TFSL.
4. The polypeptide of any one of the preceding claims, wherein X65VX67X68 is PVYL, TVLL or RVYL, such as PVYL or TVLL.
5. The polypeptide of any one of the preceding claims, wherein X12X13X14X15X16CX18 is NADQLCA.
6. The polypeptide of any one of the preceding claims, wherein X76 and X80 are both W.
7. The polypeptide of any one of the preceding claims, wherein the first subunit comprises or consists of: (i) a sequence selected from SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10 and SEQ ID NO:11; or (ii) a sequence having at least 90%, such as at least 95%, identity to any one of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10 and SEQ ID NO:11.
8. The polypeptide of any one of the preceding claims, wherein the first subunit comprises or consists of: (iii) a sequence selected from SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15, SEQ ID NO:16, SEQ ID NO:17, SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21 and SEQ ID NO:22; or (iv) a sequence having at least 90%, such as at least 95%, identity to any one of SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15, SEQ ID NO:16, SEQ ID NO:17, SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21 and SEQ ID NO:22.
9. The polypeptide of any one of the preceding claims, wherein the first subunit comprises or consists of: (v) a sequence selected from SEQ ID NO:23, SEQ ID NO:24, SEQ ID NO:25, SEQ ID NO:26, SEQ ID NO:27, SEQ ID NO:28, SEQ ID NO:30, SEQ ID NO:31, SEQ ID NO:32 and SEQ ID NO:33; or (vi) a sequence having at least 90%, such as at least 95%, identity to any one of SEQ ID NO:23, SEQ ID NO:24, SEQ ID NO:25, SEQ ID NO:26, SEQ ID NO:27, SEQ ID NO:28, SEQ ID NO:30, SEQ ID NO:31, SEQ ID NO:32 and SEQ ID NO:33.
10. The polypeptide of any one of the preceding claims, wherein the first subunit comprises or consists of: (vii) a sequence selected from SEQ ID NO:34, SEQ ID NO:35, SEQ ID NO:36, SEQ ID NO:37, SEQ ID NO:38, SEQ ID NO:39, SEQ ID NO:41, SEQ ID NO:42, SEQ ID NO:43 and SEQ ID NO:44; or (viii) a sequence having at least 90%, such as at least 95%, identity to any one of SEQ ID NO:34, SEQ ID NO:35, SEQ ID NO:36, SEQ ID NO:37, SEQ ID NO:38, SEQ ID NO:39, SEQ ID NO:41, SEQ ID NO:42, SEQ ID NO:43 and SEQ ID NO:44.
11. The polypeptide of any one of the preceding claims, wherein the linker comprises at least eight amino acid residues, such as 8-30 amino acid residues, such as 8-25 amino acid residues, such as 10-25 amino acid residues.
12. A fusion protein comprising a polypeptide according to any one of the preceding claims and a half-life-extending region, such as an Fc-binding region or an albumin- binding region (ABR).
13. The polypeptide of fusion protein of any one of the preceding claims for use as a medicament.
14. A pharmaceutical composition comprising the polypeptide of fusion protein of any one of the preceding claims.
15. The polypeptide, fusion protein or pharmaceutical composition of any one of the preceding claims for use in a method of treatment of Parkinson’s disease or Lewy body dementia.
EP24707000.6A 2023-02-27 2024-02-21 Alpha synuclein-binding polypeptide Pending EP4673460A1 (en)

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EP23158879.9A EP4421085A1 (en) 2023-02-27 2023-02-27 Alpha synuclein-binding polypeptide
PCT/EP2024/054397 WO2024179899A1 (en) 2023-02-27 2024-02-21 Alpha synuclein-binding polypeptide

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