# Patent

## Title
Immunogenic polypeptides comprising a scaffold polypeptide and a L2 polypeptide or a fragment thereof

## Abstract

The present invention relates to an immunogenic polypeptide comprising a) a scaffold polypeptide, and b) a L2 polypeptide or a fragment of said L2 polypeptide, wherein said scaffold polypeptide constrains the structure of said L2 polypeptide, or of a fragment of said L2 polypeptide. Moreover, the present invention relates to a vaccine comprising said immunogenic polypeptide. The present invention is also concerned with a method for producing an antibody against human papillomavirus. Also encompassed by the present invention is an antibody obtained by carrying out the said method.

## Background
The present invention relates to an immunogenic polypeptide comprising a) a scaffold polypeptide, and b) a L2 polypeptide or a fragment of said L2 polypeptide, wherein said scaffold polypeptide constrains the structure of said L2 polypeptide, or of the fragment of said L2 polypeptide. Moreover, the present invention relates to a vaccine comprising said immunogenic polypeptide. The present invention is also concerned with a method for producing an antibody against human papillomavirus. Also encompassed by the present invention is an antibody obtained by carrying out the said method.
Cervical cancer is women's second most frequent cancer worldwide. Clinical and molecular studies have shown that certain types of human papillomavirus (HPV), referred to as high-risk types, are the etiological agents of this disease. Two anti-HPV vaccines for the prophylaxis of cervical cancer have been licensed recently by Merck (GardasilTM) and GlaxoSmithKline (CervarixTM) (Schmiedeskamp et al, (2006) Human papillomavirus vaccines. Ann Pharmacother, 40, 1344-1352). Both vaccines rely on the major capsid protein L1 in the form of virus-like particles (VLPs) as antigen (Roden et al., (2006) How will HPV vaccines affect cervical cancer? Nat Rev Cancer, 6, 753-763); they protect against the HPV types from which the L1-VLPs were derived, yet are largely ineffective against all but the most closely related HPV types. The two most prominent high-risk HPV types, 16 and 18, are the major targets of both vaccines, although there is evidence for partial cross-protection against HPV types 31 and 45 (reviewed by Muller and Gissmann, (2007) A long way: history of the prophylactic papillomavirus vaccine. Dis Markers, 23, 331-336; Huh and Roden, (2008) The future of vaccines for cervical cancer. Gynecol Oncol, 109, S48-56). The limited cross-protective capacity of L1-based vaccines, which is the main reason for the continuing effort toward the development of improved vaccination strategies, likely reflects the HPV type specificity of L1 neutralizing epitopes (Giroglou et al., (2001) Immunological analyses of human papillomavirus capsids. Vaccine, 19, 1783-1793).
Antibodies against the minor capsid protein L2 also neutralize HPV infection and are often capable to cross-neutralize various non-cognate virions, although with varying efficiencies (Kondo et al. 2007, Neutralization of HPV16, 18, 31, and 58 pseudovirions with antisera induced by immunizing rabbits with synthetic peptides representing segments of the HPV16 minor capsid protein L2 surface region. Virology, 358, 266-272; Gambhira, R., (2007) A protective and broadly cross-neutralizing epitope of human papillomavirus L2. J Virol, 81, 13927-13931). The N-terminal region of L2 interacts with an as yet unidentified secondary receptor on the surface of target cells (Yang et al. (2003) Cell surface-binding motifs of L2 that facilitate papillomavirus infection. J Virol, 77, 3531-3541) and this interaction can be blocked by anti-L2 antibodies. The precise identity of the L2 region involved in HPV-cell surface interaction is still a matter of debate. This was initially proposed as the region comprised of amino acids (aa) 108-120, and antibodies targeting this particular L2 region were indeed shown to block viral infection in vitro albeit at low titers (Kawana et al. (2001) Nasal immunization of mice with peptide having a cross-neutralization epitope on minor capsid protein L2 of human papillomavirus type 16 elicit systemic and mucosal antibodies. Vaccine, 19, 1496-1502; Kawana et al. (2001b) Human papillomavirus type 16 minor capsid protein L2 N-terminal region containing a common neutralization epitope binds to the cell surface and enters the cytoplasm. J Virol, 75, 2331-2336). Subsequent experiments identified additional neutralizing epitopes in the aa 1-88 region (Pastrana et al. (2005) Cross-neutralization of cutaneous and mucosal Papillomavirus types with anti-sera to the amino terminus of L2. Virology, 337, 365-372) as well as in more extended N-terminal regions comprised of aa 11-200 and aa 18-144 (Kondo loc. cit). Perhaps the most prominent of these N-terminal epitopes is the one located between aa 17-36. This was identified as the target of an HPV16 neutralizing and protective monoclonal antibody (RG-1) as well as the major determinant of the neutralizing activity found in sera from rabbits and humans immunized with extended versions of L2 (aa 1-88, 11-200 or the full-length protein) (Gambhira, 2007, loc cit.). Since it had been found that mutation of L2 amino acids 18 and 19 or of amino acids 20 and 21 disrupted both L2 binding to the cell surface and viral infection (Yang, R., et al. (2003). Cell surface-binding motifs of L2 that facilitate papillomavirus infection. J. Virol. 77:3531-3541), it was concluded that the epitope recognized by the RG-1 antibody overlaps the surface-binding motif of HPV16 L2.
Besides the lack of precise knowledge on the most relevant (cross) neutralizing epitope(s), a major problem with the use of L2 as a tool for HPV prophylaxis is the poor immunogenicity of the L2 protein and peptides thereof, as compared to L1-VLPs. A substantial increase in immunogenicity has been reported lately via chemical coupling of the HPV16 L2 peptide (17-36) to a broadly recognized T helper epitope and to the Toll-like receptor ligand dipalmitoyl S-glyceryl cysteine (Alphs et al. (2008) Protection against heterologous human papillomavirus challenge by a synthetic lipopeptide vaccine containing a broadly cross-neutralizing epitope of L2. Proc Natl Acad Sci USA, 105, 5850-5855). Alternatively, L2 peptides have been fused to Adenovirus surface proteins (WO 2008/140474) or to other HPV proteins to increase immunogenicity (WO 2002/070004, de Jong et al. (2002), Enhancement of human papillomavirus (HPV) type 16 E6 and E7-specific T-cell immunity in healthy volunteers through vaccination with TA-CIN, an HPV16 L2E7E6 fusion protein vaccine, Vaccine, 20(29-30):3456-3464).
A recently developed alternative strategy for increasing peptide immunogenicity relies on the use of thioredoxin (Trx) as a scaffold protein with the ability to constrain the structure of single-copy as well as multimeric (tandemly repeated) peptide epitopes inserted within its surface-exposed active site loop (Moretto et al. (2007) Conformation-sensitive antibodies against Alzheimer amyloid-beta by immunization with a thioredoxin-constrained B-cell epitope peptide. J Biol Chem, 282, 11436-11445).
Thus, the L1 polypeptide is highly immunogenic and antibodies against it show only a limited cross-protective capacity, whereas antibodies against the L2 polypeptide are capable of cross-neutralizing various HPV genotypes. The L2 polypeptide, however has only limited immunogenicity.
Therefore, immunogenic polypeptides that are highly immunogenic and allow for a cross-neutralization of various HPV genotypes without the drawbacks as referred to above are highly required.
The technical problem underlying the present invention can be seen as the provision of means and methods for complying with the aforementioned needs.
The technical problem is solved by the embodiments characterized in the claims and herein below.
Accordingly, the present invention relates to an immunogenic polypeptide comprising

    
    
        a) a scaffold polypeptide, and
        b) a L2 polypeptide having an amino acid sequence as shown in SEQ ID NO:1, or a fragment of said L2 polypeptide,
        wherein said scaffold polypeptide constrains the structure of said L2 polypeptide, or of the fragment of said L2 polypeptide.
    
    


The term “polypeptide” as used herein relates to a polymer comprising amino acids linked together by peptide bonds. The term “immunogenic polypeptide” is understood by the skilled person. Immunogenic polypeptides, preferably, elicit protective immune response in a host, preferably, in a human. The immunogenic polypeptide in the context of the present invention, preferably, shall allow for establishing or improving immunity to infection with various HPV genotypes. Preferably, the immunogenic polypeptide according to the present invention allows for establishing or improving immunity to infection with human papillomavirus genotypes 16, 18, 31, 45 and 58. Preferably, the said polypeptide also allows for establishing or improving immunity to infection with human papillomavirus genotypes 6, 52, 2, 27, 57 and/or 11. Immunogenic polypeptides are preferred reagents for vaccine compositions.
The term “L2 polypeptide”, preferably, refers to the N-terminal region of the full-length L2 polypeptide of HPV16 (human papillomavirus 16). The full-length L2 is one of the two capsid proteins of HPV16 and is frequently also referred to as minor capsid protein. Together with the major capsid protein, L1, the full-length L2 polypeptide forms viral capsids. The L2 polypeptide in the context of the present invention, preferably, comprises the N-terminal amino acids 1 to 120 of the HPV16 L2 polypeptide as shown in SEQ ID NO:1.
The term “fragment” as used herein, preferably, refers to a sub-polypeptide of the L2 polypeptide (as shown in SEQ ID NO:1). Preferably, said fragment comprises at least 7, at least 10, at least 12, at least 15, or at least 20 consecutive amino acid residues of said L2 polypeptide. Preferred fragments of the L2 polypeptide have an amino acid sequence as shown in SEQ ID NO:2 (KTCKQAGTCPPDIIPKVEG), as shown in SEQ ID NO:3 (KTCKQAGTCPPD), as shown in SEQ ID NO:4 (TCKQAGTCPPD), as shown in SEQ ID NO:5 (CKQAGTCPPD), as shown in SEQ ID NO:6 (TCKQAGTCPP), as shown in SEQ ID NO:7 (CKQAGTCPP), as shown in SEQ ID NO:8 (DIIPKVEGKT), as shown in SEQ ID NO:9 (TGYIPLGTR).
The most preferred fragments in the context of the present invention are fragments having a sequence as shown in SEQ ID NO:2 (KTCKQAGTCPPDIIPKVEG, amino acids 20 to 38 of the L2 polypeptide as shown in SEQ ID NO:1)), or as shown in SEQ ID NO:5 (CKQAGTCPPD, amino acids 22 to 31 of the L2 polypeptide as shown in SEQ ID NO:1).
Preferably, the terms “polypeptide” “L2 polypeptide” and “fragment of the L2 polypeptide”, respectively, shall also encompass variants of said polypeptide, L2 polypeptide or variants of said fragment of said L2 polypeptide, respectively. Such variants have essentially the same immunological properties as the specific polypeptides, respectively. In particular, they share the same immunological properties if they are detectable by the same specific assays referred to in this specification, e.g., by ELISA assays using polyclonal or monoclonal antibodies specifically recognizing the said polypeptides, respectively. Moreover, it is to be understood that a variant as referred to in accordance with the present invention shall have an amino acid sequence which differs due to at least one amino acid substitution, deletion and/or addition wherein the amino acid sequence of the variant is still, preferably, at least 65%, 70%, 75%, 80%, 85%, 90%, 92%, 95%, 97%, 98%, or 99% identical with the amino sequence of the specific polypeptide. The degree of identity between two amino acid sequences can be determined by algorithms well known in the art. Preferably, the degree of identity is to be determined by comparing two optimally aligned sequences over a comparison window, where the fragment of amino acid sequence in the comparison window may comprise additions or deletions (e.g., gaps or overhangs) as compared to the reference sequence (which does not comprise additions or deletions) for optimal alignment. The percentage is calculated by determining the number of positions at which the identical amino acid residue occurs in both sequences to yield the number of matched positions, dividing the number of matched positions by the total number of positions in the window of comparison and multiplying the result by 100 to yield the percentage of sequence identity. Optimal alignment of sequences for comparison may be conducted by the local homology algorithm of Smith and Waterman Add. APL. Math. 2:482 (1981), by the homology alignment algorithm of Needleman and Wunsch J. Mol. Biol. 48:443 (1970), by the search for similarity method of Pearson and Lipman Proc. Natl. Acad. Sci. (USA) 85: 2444 (1988), by computerized implementations of these algorithms (GAP, BESTFIT, BLAST, PASTA, and TFASTA in the Wisconsin Genetics Software Package, Genetics Computer Group (GCG), 575 Science Dr., Madison, Wis.), or by visual inspection. Given that two sequences have been identified for comparison, GAP and BESTFIT are preferably employed to determine their optimal alignment and, thus, the degree of identity. Preferably, the default values of 5.00 for gap weight and 0.30 for gap weight length are used. Variants referred to above may be allelic variants or any other species specific homologs, paralogs, or orthologs. Further included are variants which differ due to posttranslational modifications such as phosphorylation or myristoylation.
As mentioned above, in a preferred embodiment of the present invention the fragment of the L2 polypeptide comprised by the scaffold polypeptide of the immunogenic polypeptide has a sequence as shown in SEQ ID NO:2 (KTCKQAGTCPPDIIPKVEG), or as shown in SEQ ID NO:3 (KTCKQAGTCPPD), or as shown in SEQ ID NO:4 (TCKQAGTCPPD), or as shown in SEQ ID NO:5 (CKQAGTCPPD), or as shown in SEQ ID NO:6 (TCKQAGTCPP), or a sequence as shown in SEQ ID NO:7 (CKQAGTCPP), or a sequence as shown in SEQ ID NO:31 (IIPKVEGKT), or a sequence as shown in SEQ ID NO:32 (IPKVEGKT). Since it has been shown in the context of the present invention that the Alanine (A) residue comprised by the aforementioned fragments can be replaced with other amino acid residues (particularly, with a Glycine (G) residue) without significantly affecting the immunogenicity of the polypeptide according to the invention as well as the neutralizing capacity of the antibodies against the said immunogenic polypeptide (see Examples), variants of the aforementioned fragments preferably have the amino acid sequence as shown in SEQ ID NO:10 (KTCKQXGTCPPDIIPKVEG), or as shown in SEQ ID NO:11 (KTCKQXGTCPPD), or as shown in SEQ ID NO:12 (TCKQXGTCPPD), or as shown in SEQ ID NO:13 (CKQXGTCPPD), or as shown in SEQ ID NO:14 (TCKQXGTCPP), or a sequence as shown in SEQ ID NO:15 (CKQXGTCPP). Preferably, X represents a Glycine (G) or an Alanine (A) residue. Moreover, experiments with the aforementioned fragments of the L2 polypeptide have shown that the most crucial amino acid residues for immunogenicity and for the generation of cross-neutralizing antibodies were amino acid residues 22 to 24 (CKQ) and 26 to 31 (GTCPPD) of the L2 polypeptide as shown in SEQ ID NO:1 (see Examples). Accordingly, the most preferred variant of a fragment of the L2 polypeptide has a sequence as shown in SEQ ID NO: 13), CKQXGTCPPD).
In one preferred embodiment of the present invention, the immunogenic polypeptide comprises a multimer of the L2 polypeptide or a fragment thereof (or a variant of said L2 polypeptide or a variant of any fragment thereof). Thus, the immunogenic polypeptide shall comprise more than one L2 polypeptide or more than one fragment of the L2 polypeptide. It is particularly envisaged that the immunogenic polypeptide comprises more than one fragment of the L2 polypeptide (or variants thereof). Preferably, the immunogenic polypeptide comprises multimers of 2 to 15 fragments of the L2 polypeptide, and more preferably multimers of 3 to 9 (and, thus, of 3, 4, 5, 6, 7, 8 or 9) fragments of the L2 polypeptide. Most preferably, said immunogenic polypeptide comprises multimers of three or four fragments of the L2 polypeptide. Preferably, said fragments are directly linked together. More preferably, said fragments are linked via a linker peptide (for an explanation of the term “linker peptide”, see herein below). Preferably, if the immunogenic polypeptide comprises more than one fragment of the L2 polypeptide, the fragments shall have the same or essentially the same sequence. However, it is also contemplated that the multimer comprises various fragments (or variants thereof) of the L2 polypeptide.
Other preferred L2 fragments (or variants thereof) are selected from the group consisting of SEQ ID NO: 33 to SEQ ID NO:479. SEQ ID NO:33 to SEQ ID NO:479 are also shown in Table 1. The sequences as shown in SEQ ID NO:33 to SEQ ID NO:79 and in SEQ ID NO:486 to SEQ ID NO:489 are variants of the L2 fragment KTCKQAGTCPPDIIPKVEG as shown in SEQ ID NO:2; the sequences as shown in SEQ ID NO:80 to SEQ ID NO:112 and in SEQ ID NO: 490 are variants of the L2 fragment KTCKQAGTCPPD as shown in SEQ ID NO:3; the sequences as shown in SEQ ID NO:113 to SEQ ID NO:139 are variants of the L2 fragment TCKQAGTCPPD as shown in SEQ ID NO:4; the sequences as shown in SEQ ID NO:140 to SEQ ID NO:161 are variants of the L2 fragment CKQAGTCPPD as shown in SEQ ID NO:5; the sequences as shown in SEQ ID NO:162 to SEQ ID NO:188 are variants of the L2 fragment TCKQAGTCPP as shown in SEQ ID NO:6; the sequences as shown in SEQ ID NO:189 to SEQ ID NO:210 are variants of the L2 fragment CKQAGTCPP as shown in SEQ ID NO:7; the sequences as shown in SEQ ID NO:211 to SEQ ID NO:238 are variants of the L2 fragment DIIPKVEGKT as shown in SEQ ID NO:8; the sequences as shown in SEQ ID NO:239 to SEQ ID NO:266 are variants of the L2 fragment IIPKVEGKT as shown in SEQ ID NO:31; the sequences as shown in SEQ ID NO:267 to SEQ ID NO:293 are variants of the L2 fragment IPKVEGKT as shown in SEQ ID NO:32; the sequences as shown in SEQ ID NO:294 to SEQ ID NO:301 are variants of the L2 fragment TGYIPLGTR as shown in SEQ ID NO:9; the sequences as shown in SEQ ID NO:302 to SEQ ID NO:348 are variants of the L2 fragment KTCKQXGTCPPDIIPKVEG as shown in SEQ ID NO:10; the sequences as shown in SEQ ID NO:349 to SEQ ID NO:381 are variants of the L2 fragment KTCKQXGTCPPD as shown in SEQ ID NO:11; the sequences as shown in SEQ ID NO: 382 to SEQ ID NO: 408 are variants of the L2 fragment TCKQXGTCPPD as shown in SEQ ID NO:12; the sequences as shown in SEQ ID NO: 409 to SEQ ID NO: 430 are variants of the L2 fragment CKQXGTCPPD as shown in SEQ ID NO:13; the sequences as shown in SEQ ID NO: 431 to SEQ ID NO: 457 are variants of the L2 fragment TCKQXGTCPP as shown in SEQ ID NO:14; the sequences as shown in SEQ ID NO:458 to SEQ ID NO:479 are variants of the L2 fragment CKQXGTCPP as shown in SEQ ID NO:15.
As mentioned above, the immunogenic polypeptide shall also comprise a linker peptide or more than one linker peptide. Said linker peptide, preferably, shall prevent the formation of junctional epitopes. Preferably, the linker peptide is positioned at the C- and/or N-Terminus of the L2 polypeptide, or of the fragment (or of the variant thereof). If the immunogenic polypeptide comprises more than one fragment of the L2 polypeptide (or more than one variant of said fragment), it is particularly contemplated that the immunogenic polypeptide comprises a linker peptide between the various fragments (or variants thereof). For example, SEQ ID NO:21 shows a multimer of L2 fragments with a GGP-linker (SEQ ID NO:16) inserted between any one of the L2 fragments.
Preferably, said linker has a length of 1 to 5 amino acids. The person skilled in the art knows how to select suitable linker peptides. Preferably, said 1 to 5 amino acids comprised by said linker peptide are selected from the group consisting of Glycine (G), Proline (P) or Serine (S). A particularly preferred linker peptide comprises the amino acid sequence GGP (SEQ ID NO: 16). However, also other linkers can be used such as GPGP (SEQ ID NO: 17), GPGPG (SEQ ID NO: 18), or SGSG (SEQ ID NO: 19). Preferably, said linker peptide is positioned at the junction of the scaffold polypeptide and the fragment of the L2 polypeptide and/or at the junction of two L2 fragments (or variants thereof). Thus, said linker peptide can be positioned either N-terminally or C-terminally from the L2 fragment (or variant thereof) or both.
A preferred multimer of a fragment of the L2 polypeptide comprised by the immunogenic polypeptide according to the invention has an amino acid sequence such as the one shown in SEQ ID NO: 20, or in SEQ ID NO: 21, or a sequence as shown in SEQ ID NO: 22. Other preferred multimers are multimers comprising combinations of different homooligomers of fragments of the L2 polypeptide (e.g. a trimer of SEQ ID NO:2 linked to a trimer of SEQ ID NO:487 linked to a trimer of SEQ ID NO:487). More preferably, the L2 polypeptides comprised in said multimers are separated by linker sequences, see e.g. SEQ ID NO: 491. Also preferred are repeats of heterooligomers of fragments of the L2 polypeptide. A heterooligomer comprises e.g. SEQ ID NO:2 linked to SEQ ID NO:487 linked to SEQ ID NO:77, the corresponding multimer comprising e.g. said heterooligomer repeated three times. More preferably, the L2 polypeptides comprised in said multimers are separated by linker sequences, see e.g. SEQ ID NO:492.
The L2 polypeptide, or fragment thereof (or the variant of said L2 polypeptide or of the fragment thereof, or the corresponding multimers, see elsewhere herein) shall be comprised by a scaffold polypeptide which constrains the structure of the L2 polypeptide, or the fragment thereof (or the respective variants).
The term “constraining” as used herein, preferably, means that the L2 polypeptide, or the fragment thereof (or the respective variants) that is comprised by the scaffold protein is present in a conformation that mimics its natural conformation. Preferably, said L2 polypeptide, or the fragment thereof (or the respective variant) is kept by the scaffold polypeptide in a fixed conformation, when constrained.
Any scaffold polypeptide being capable of constraining the structure of said L2 polypeptide, or of the fragment of said L2 polypeptide, preferably, can be used for the production of the immunogenic polypeptide according to the invention.
Preferably, the scaffold polypeptide is selected from the group consisting of thioredoxin, capsid polypeptides of adeno-associated viruses (e.g. AAV2, GenBank Accession No., NC_001401.2, GI:110645916; AAV8 GenBank Accession No., NC_006261.1, GI:51949963; AAV7 GenBank Accession No., NC_006260.1, GI:51949960), the tenth type III module of fibronectin (FN3, GenBank Accession No. 1TTF_A; GI:157834026, with insertion of the L2 polypeptide, fragment or variant thereof within the exposed PAVTVR (SEQ ID NO: 480) or GRGDSPASS (SEQ ID NO: 481) loop sites), lipocalins (particularly, the bilin-binding protein from Pieris brassicae, GenBank Accession No. CAA54063.1, GI:434995, with insertion of the L2 polypeptide, fragment or variant thereof within the PNSVEKY (SEQ ID NO: 482), IHGKE (SEQ ID NO: 483), TYGGVTK (SEQ ID NO: 484) and/or YDEDKKGH loop sites), a catalytically inactive version of Staphylococcus nuclease (e.g., GenBank Accession No. 2SNS_A, 2SNS_A GI:157836360, with peptide insertion within the YKGQP (SEQ ID NO: 485) loop site); an alpha-amylase inhibitor, preferably tendamistat (GenBank Accession No. CAA00655.1, GI:413044, with peptide insertion within the EDD and/or IGSHG loop sites); or stefin A (GenBank Accession No. P01040.1, GI:118177, with insertion of the L2 polypeptide, fragment or variant thereof within the KSL loop site).
In one preferred embodiment of the present invention, however, the scaffold protein is a thioredoxin polypeptide or a variant thereof.
Thioredoxin polypeptides are the major cellular disulfide redox components and serve as electron donors for enzymes such as ribonucleotide reductases, thioredoxin peroxidases and methionine sulfoxide reductases. Thioredoxins have an alpha/beta structure with two disulfide bondable cysteine residues. Thioredoxins are ubiquitous polypeptides and were shown to be present in most organisms (for a review see Arnér and Holmgren, Physiological functions of thioredoxin and thioredoxin reductase, European Journal of Biochemistry, Volume 267 Issue 20, Pages 6102-6109). The thioredoxin polypeptide in the context of the present invention may be derived from any organism. Preferably, the thioredoxin polypeptide comprises the so called thioredoxin display site CGPC (SEQ ID NO: 23). The thioredoxin display site, also known as thioredoxin motif or as dithio/disulfide active site, is a highly conserved motif amongst thioredoxin polypeptides.
Preferably, said thioredoxin polypeptide is selected from the group consisting of prokaryotic and eukaryotic thioredoxin polypeptides, or any other thioredoxin or thioredoxin-like protein, or proteins harbouring a thioredoxin (TRX) Pfam domain, bearing the conserved CGPC (SEQ ID NO: 23), or a CGXC, or a CXXC sequence motif (e.g., gi|40253454; gi|77456671; gi|31543902). More preferably, said thioredoxin polypeptide is selected from the group consisting of bacterial, animal and plant thioredoxin polypeptides Even more preferably, the thioredoxin polypeptide is a Escherichia coli thioredoxin as shown in SEQ ID NO: 24 (which shows 100% identity with the thioredoxin polypeptide of Salmonella typhi), or the homologous thioredoxin polypeptides from Salmonella enterica (SEQ ID NO: 25), mouse (SEQ ID NO: 26), rabbit (SEQ ID NO: 27), human (SEQ ID NO: 28), or any other thioredoxin or thioredoxin-like protein as shown in SEQ ID NO: 17. Also included are oligomers of said thioredoxin polypeptides, i.e. fusion polypeptides comprising at least two copies of thioredoxin polypeptides, e.g. dimers or trimers, wherein the C-terminus of one copy of a thioredoxin polypeptide is linked to the N-terminus of the following copy of a thioredoxin polypeptide. Preferably, at least one of the thioredoxin polypeptides comprises at least one L2 peptide inserted within the display site. More preferably, in said oligomers the thioredoxin polypeptides are separated by linker peptides, see e.g. SEQ ID NO:497 and SEQ ID NO: 498.
Preferably, the L2 polypeptide, or the fragment of said L2 polypeptide (or multimer or fragment thereof) is positioned within the so called “display site” of thioredoxin. Thus, the said L2 polypeptide or fragment thereof, preferably is positioned between the C and the G, or between the G and the P, or between the P and the C residues of the display site sequence CGPC (SEQ ID NO: 23) of the thioredoxin polypeptide. Also contemplated by the present invention is positioning the L2 polypeptide or fragment thereof adjacent to the display site, preferably, between any pair of amino acid residues located up to 20, up to 10, or up to 5 amino acid residues upstream or downstream from the display site.
The term “thioredoxin polypeptide” also includes variants of the thioredoxin polypeptide. The explanations of the term “variant” made elsewhere applies mutatis mutandis.
In a preferred embodiment the thioredoxin polypeptide is selected from the group consisting of

    
    
        a) a polypeptide having a sequence as shown in SEQ ID No: 24, SEQ ID No: 25, SEQ ID No: 26, SEQ ID No: 27, or SEQ ID No: 28 (or any other thioredoxin polypeptide as recited herein); and
        b) a variant polypeptide having a sequence at least 70% identical to the sequence shown in SEQ ID No: 24, SEQ ID No: 25, SEQ ID No: 26, SEQ ID No: 27, or SEQ ID No: 28 (or any other thioredoxin polypeptide as recited herein),
        wherein said polypeptide constrains the structure of the L2 polypeptide, or which constrains the structure of a fragment of said L2 polypeptide (or of a variant thereof).
    
    


As set forth above the thioredoxin polypeptide in the context of the present invention, preferably, shall comprise the thioredoxin display site.
In another preferred embodiment the thioredoxin polypeptide is derived from a thermophile bacterium. The use of a thioredoxin polypeptide from a thermophile bacterium allows for storage of the immunogenic polypeptides, e.g., at room temperature (instead of storing said polypeptide, e.g., at 4° C. or at even lower temperatures). Storing the immunogenic polypeptide, e.g., at 20° C. is, particularly, advantageous if said polypeptide is used as a vaccine since it allows the distribution of the polypeptide even in regions where cooling systems are not available.
Thermophile bacteria are known to grow at elevated temperatures (>50° C.), particularly in and/or around geothermal vents in marine or aquatic environments. A variety of termophile bacteria is known in the art. Preferred thermophile bacteria in the context of the present invention are Archaebacteria, particularly Methanosaeta thermophila, Archaeoglobus fulgidus, Metallosphaera sedula, Sulfolobus solfataricus, Sulfolobus tokodaii, Sulfolobus acidocaldarius, Metallosphaera sedula, Thermofilum pendens, Picrophilus torridus, Caldivirga maquilingensis. The amino acid sequence of thioredoxin polypeptides of a variety of thermophile bacteria is well known in the art. Preferred thiorexodin polypeptides derived from thermophile bacteria have an amino acid sequence as shown in GenBank-Accession Numbers Methanosaeta thermophila (gi|116754023, YP_843141; gi|116754438, YP_843556); Archaeoglobus fulgidus (gi|11498883, NP_070112; gi|11499727, NP_070969); Metallosphaera sedula (gi|146304377, YP_001191693; gi|146303559, YP_001190875); Sulfolobus solfataricus (gi|15897303, NP_341908; gi|15899007, NP_343612); Sulfolobus tokodaii (gi|15922449, NP_378118; gi|15921676, NP_377345); Sulfolobus acidocaldarius (gi|70605894, YP_254764.1; gi|70607552, YP_256422.1; gi|70607229, YP_256099); Thermofilum pendens (gi|119720035, YP_920530); Picrophilus torridus (gi|48477193, YP_022899); Caldivirga maquilingensis (gi|159040636, YP_001539888). Also included are thioredoxin polypeptides from Pyrococcus furiosus (SEQ ID NO: 493), Thermococcus kodakarensis (SEQ ID NO: 494), Thermococcus onnurineus (SEQ ID NO: 495), and Thermococcus sibiricus (SEQ ID NO: 496).
In a preferred embodiment the immunogenic polypeptide further comprises a polypeptide that further stimulates (enhances) immunogenicity of said immunogenic polypeptides. Such polypeptides stimulating immunogenicity are well known in the art. Preferred stimulating polypeptides are C4 bp (Complement component 4 binding protein) and MDC/CCL22 (Macrophage-Derived Chemokine_CC motif_ligand 22. It is to be understood that the immunogenic polypeptide and the stimulating polypeptide are fused in frame. Preferably, the stimulating polypeptide is fused to the N- or C-terminus of to the immunogenic polypeptide
Preferably, the immunogenic polypeptide according to the invention is a polypeptide having an amino acid sequence as shown in SEQ ID NO: 29, or SEQ ID NO: 30.
The immunogenic polypeptide as shown in SEQ ID NO:29 comprises a multimer of 3 of the L2 fragment having a sequence as shown in SEQ ID NO:2, said fragments being connected by a linker peptide having a sequence as shown in SEQ ID NO:16.
The immunogenic polypeptide as shown in SEQ ID NO:30 comprises a multimer of 9 of the L2 fragment having a sequence as shown in SEQ ID NO:2, said fragments being connected by a linker peptide having a sequence as shown in SEQ ID NO:16.
The sequences as shown in SEQ ID NO: 29, and SEQ ID NO: 30 comprise two hexahistidine-tags for purification of said polypeptides. It is to be understood that these tag do not contribute to the immunogenicity of said polypeptide and, thus, can be omitted.
Advantageously, it was shown in the studies underlying the present invention that an immunogenic polypeptide comprising a scaffold polypeptide and a L2 polypeptide or a fragment thereof, wherein said scaffold protein constrains the structure of said polypeptide or of said fragment, confers strong immunogenicity and induces strong neutralizing responses against HPV16 as well as strong cross-neutralizing responses against other HPV genotypes such as HPV18, HPV31, HPV45 and HPV58. Particularly, it was shown that a thioredoxin polypeptide that comprises within its display site the L2 polypeptide or a fragment has a strong immunogenicity and allows for strong neutralizing as well as cross-neutralizing responses (see Examples). The immunogenicity and (cross-)neutralizing response was further enhanced when multimers of the L2 polypeptides or fragments thereof were inserted within the display site of the thioredoxin polypeptide (see Examples).
The immunogenic polypeptide according to the present invention is of advantage over prior art polypeptides, since the polypeptides as disclosed in prior art have a low immunogenicity or only induce strong but not cross-neutralizing responses. For example, L2 based peptides that are disclosed in the art are poorly immunogenic whereas L1 based peptides have a limited cross-protective capacity. Thus, the immunogenic polypeptide according to the present invention allows for the production of vaccines against a broad range of HPV genotypes, particularly high-risk HPV genotypes.
Moreover, the present invention relates to a polynucleotide encoding the immunogenic polypeptide according to the present invention.
The polynucleotides of the present invention may contain further nucleic acid sequences as well. Specifically, the polynucleotides of the present invention may encode fusion proteins wherein one partner of the fusion protein is a polypeptide being encoded by a nucleic acid sequence recited above. Such fusion proteins may comprise as additional part peptide sequences for monitoring expression (e.g., green, yellow, blue or red fluorescent proteins, alkaline phosphatase and the like) or so called “tags” which may serve as a detectable marker or as an auxiliary measure for purification purposes. Tags for the different purposes are well known in the art and comprise FLAG-tags, 6-histidine-tags, MYC-tags and the like.
The term “polynucleotide” as used herein refers to a linear or circular nucleic acid molecule. It encompasses DNA as well as RNA molecules. The polynucleotide of the present invention shall be provided, preferably, either as an isolated polynucleotide (i.e. isolated from its natural context) or in genetically modified form. The term encompasses single as well as double stranded polynucleotides. Moreover, comprised are also chemically modified polynucleotides including naturally occurring modified polynucleotides such as glycosylated or methylated polynucleotides or artificially modified derivatives such as biotinylated polynucleotides. The polynucleotide of the present invention is characterized in that it shall encode a polypeptide as referred to above. The polynucleotide, preferably, has a specific nucleotide sequence as mentioned above. Moreover, due to the degeneracy of the genetic code, polynucleotides are encompassed which encode a specific amino acid sequence as recited above.
Moreover, the term “polynucleotide” as used in accordance with the present invention further encompasses variants of the aforementioned specific polynucleotides. Said variants may represent orthologs, paralogs or other homologs of the polynucleotide of the present invention. The polynucleotide variants, preferably, comprise a nucleic acid sequence characterized in that the sequence can be derived from the aforementioned specific nucleic acid sequences by at least one nucleotide substitution, addition and/or deletion whereby the variant nucleic acid sequence shall still encode a polypeptide having the activity as specified above (constraining the L2 polypeptide or a fragment thereof). Variants also encompass polynucleotides comprising a nucleic acid sequence which is capable of hybridizing to the aforementioned specific nucleic acid sequences, preferably, under stringent hybridization conditions. These stringent conditions are known to the skilled worker and can be found in Current Protocols in Molecular Biology, John Wiley & Sons, N.Y. (1989), 6.3.1-6.3.6. A preferred example for stringent hybridization conditions are hybridization conditions in 6× sodium chloride/sodium citrate (=SSC) at approximately 45° C., followed by one or more wash steps in 0.2×SSC, 0.1% SDS at 50 to 65° C. The skilled worker knows that these hybridization conditions differ depending on the type of nucleic acid and, for example when organic solvents are present, with regard to the temperature and concentration of the buffer. For example, under “standard hybridization conditions” the temperature differs depending on the type of nucleic acid between 42° C. and 58° C. in aqueous buffer with a concentration of 0.1 to 5×SSC (pH 7.2). If an organic solvent is present in the above mentioned buffer, for example 50% formamide, the temperature under standard conditions is approximately 42° C. The hybridization conditions for DNA:DNA hybrids are preferably for example 0.1×SSC and 20° C. to 45° C., preferably between 30° C. and 45° C. The hybridization conditions for DNA:RNA hybrids are preferably, for example, 0.1×SSC and 30° C. to 55° C., preferably between 45° C. and 55° C. The above mentioned hybridization temperatures are determined for example for a nucleic acid with approximately 100 bp (=base pairs) in length and a G+C content of 50% in the absence of formamide. The skilled worker knows how to determine the hybridization conditions required by referring to textbooks such as the textbook mentioned above, or the following textbooks: Sambrook et al., “Molecular Cloning”, Cold Spring Harbor Laboratory, 1989; Hames and Higgins (Ed.) 1985, “Nucleic Acids Hybridization: A Practical Approach”, IRL Press at Oxford University Press, Oxford; Brown (Ed.) 1991, “Essential Molecular Biology: A Practical Approach”, IRL Press at Oxford University Press, Oxford. Alternatively, polynucleotide variants are obtainable by PCR-based techniques such as mixed oligonucleotide primer-based amplification of DNA, i.e. using degenerated primers against conserved domains of the polypeptides of the present invention. Conserved domains of the polypeptide of the present invention may be identified by a sequence comparison of the nucleic acid sequence of the polynucleotide or the amino acid sequence of the polypeptide of the present invention with sequences of other members of the enzyme families referred to in accordance with this invention. Oligonucleotides suitable as PCR primers as well as suitable PCR conditions are described in the accompanying Examples. As a template, DNA or cDNA from bacteria, fungi, plants or animals may be used. Further, variants include polynucleotides comprising nucleic acid sequences which are at least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 95%, at least 98% or at least 99% identical to the specific nucleic acid sequences. Moreover, also encompassed are polynucleotides which comprise nucleic acid sequences encoding amino acid sequences which are at least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 95%, at least 98% or at least 99% identical to the specific amino acid sequences referred to herein. The percent identity values are, preferably, calculated over the entire amino acid or nucleotide sequence region. A series of programs based on a variety of algorithms is available to the skilled worker for comparing different sequences. In this context, the algorithms of Needleman and Wunsch or Smith and Waterman give particularly reliable results. To carry out the sequence alignments, the program PileUp (Higgins 1989, CABIOS, 5 1989: 151-153) or the programs Gap and BestFit (Needleman 1970, J. Mol. Biol. 48; 443-453 and Smith 198, Adv. Appl. Math. 2: 482-489), which are part of the GCG software packet from Genetics Computer Group, 575 Science Drive, Madison, Wis., USA 53711, version 1991, are to be used. The sequence identity values recited above in percent (%) are to be determined, preferably, using the program GAP over the entire sequence region with the following settings: Gap Weight: 50, Length Weight: 3, Average Match: 10.000 and Average Mismatch: 0.000, which, unless otherwise specified, shall always be used as standard settings for sequence alignments.
Moreover, the present invention relates to a vaccine comprising the immunogenic polypeptide according to the invention.
The term “vaccine” as used herein, preferably, relates to a composition which—when administered to an animal, preferably a human—elicits an immune response against various HPV genotypes. Thus, administering said vaccine would stimulate the immune system and establish or improve immunity to infection with various HPV genotypes. Preferably, the vaccine according to the present invention allows for establishing or improving immunity to infection with human papillomavirus genotypes 16, 18, 31, 45 and 58. Preferably, the vaccine according to the present invention also allows for establishing or improving immunity to infection with human papillomavirus genotypes 6, 52, 2, 27, 57 and/or 11. It is to be understood that the vaccine according to the present invention may comprise further components.
A preferred further component is an adjuvant. Adjuvants are compounds which may not elicit an immune response when administered to the host alone but which may further enhance the immune response of the host when administered together with the immunogenic polypeptides. It is known in the art that adjuvants may act as surfactants which promote concentration of immunogenic polypeptides over a large surface area, or may have immunostimulatory properties.
Preferred adjuvants in the context of the present invention are muramyl dipeptide, saponins such as QS21 and Quil A, monophosphoryl lipid A, mineral oil/surfactant mixtures (e.g., Montanide), aluminum hydroxide, aluminum phosphate, hydroxyapatite, complete and/or incomplete Freund's adjuvant, or cytokines such as interleukins, macrophage derived chemokines, complement binding proteins and tumor necrosis factor (either free or fused to the scaffold protein), and human use-approved live microbial carriers such as the live attenuated Salmonella enterica serovar Typhimurium strain.
Moreover the present invention relates to the use of the immunogenic polypeptide according the invention for the preparation of a vaccine for immunization of a subject against infection with HPV.
Preferably, said subject is an animal, more preferably, said subject is a vertebrate, even more preferably, said subject is a mammal and, most preferably, said subject is a human. Preferably, the immunization of said subject, establishes or improves immunity of said subject to various HPV genotypes as referred to elsewhere herein. It is to be understood that the immunogenic polypeptide according to the invention or vaccine according to the invention has to be administered to said subject for immunization. Said administration can be done by any method deemed appropriate such as oral or parentcral administration.
Moreover, the present invention relates to a method for producing an antibody against the immunogenic polypeptide according to the invention, comprising the following steps:

    
    
        a) providing the immunogenic polypeptide according to the invention;
        b) immunizing a host with said immunogenic polypeptide, and
        c) harvesting the antibody against said immunogenic polypeptide.
    
    


Preferably, the host will be sacrificed after the method has been carried out. It is to be understood that such a method is not deemed to be a method of treatment of the human or animal body.
The “host” in the context may be any host deemed appropriate. Preferably, the host is a non-human host. Preferred host for the production of monoclonal antibodies is a mouse or a rabbit. A host for the production of polyclonal antibodies is preferably selected from the group consisting of rabbits, mice, chickens, goats, guinea pigs, hamsters, horses, rats, and sheep.
Antibodies against the immunogenic polypeptide according to the present invention can be prepared by well known methods using said immunogenic polypeptide as an antigen. Preferably, the produced antibody is a polyclonal antibody. More preferably, said antibody is a monoclonal antibody.
Most preferably, said monoclonal antibody is produced by the hybridoma cell line which has been deposited with the German Collection of Microorganisms and Cell Cultures (DSMZ), Braunschweig, Germany on Nov. 27, 2008 under deposit number DSM ACC2983 according to the Budapest Treaty, or a fragment thereof (preferably, F(ab)2, F(ab′)2, Fab, F (ab′), Dab, Fv, sFv, scFv, or Fc fragments), or said monoclonal antibody produced by the hybridoma cell line which has been deposited with the German Collection of Microorganisms and Cell Cultures (DSMZ), Braunschweig, Germany on Nov. 27, 2008 under deposit number DSM ACC2984 according to the Budapest Treaty, or a fragment thereof (preferably, F(ab)2, F(ab′)2, Fab, F (ab′), Dab, Fv, sFv, scFv, or Fc fragments). The monoclonal antibody produced by the hybridoma cell line which has been deposited with the German Collection of Microorganisms and Cell Cultures (DSMZ), Braunschweig, Germany on Nov. 27, 2008 under deposit number DSM ACC2983 is herein also referred to as K4L2(20-38)4.1B. The monoclonal antibody produced by the hybridoma cell line which has been deposited with the German Collection of Microorganisms and Cell Cultures (DSMZ), Braunschweig, Germany on Nov. 27, 2008 under deposit number DSM ACC2984 is herein also referred to as K18L2(20-38)XIII.5G.
It is also contemplated by the present invention that the antibody is a single chain antibody, a recombinant, human or humanized antibody or primatized, chimerized or a fragment of the antibody according to the present invention.
Also comprised by the aforementioned method of the present invention is the production of a synthetic antibody, an antibody fragment, such as F(ab)2, F(ab′)2, Fab, F (ab′), Dab, Fv, sFv, scFv, or Fc fragments etc., or a chemically modified derivative of any of these. The antibody may belong to any immunoglobulin class, including IgM, IgG, IgD, IgE, IgA, or subclasses of IgG (such as IgG1, IgG2, IgG2, IgG2a, IgG2b, IgG3 or IgGM).
How to produce and harvest the aforementioned antibodies and fragments is well known in the art. Antibodies or fragments thereof can be obtained by using methods which are described, e.g., in Harlow and Lane “Antibodies, A Laboratory Manual”, CSH Press, Cold Spring Harbor, 1988. Monoclonal antibodies can be prepared by the techniques originally described in Köhler and Milstein, Nature 256 (1975), 495, and Galfré, Meth. Enzymol. 73 (1981), 3, which comprise the fusion of mouse myeloma cells to spleen cells derived from immunized mammals. It is also contemplated that monoclonal antibodies are produced by fusing myeloma cells with the B-cells from rabbits that have been immunized with the desired antigen.
It is to be understood that the antibody produced by the aforementioned method shall specifically bind the immunogenic polypeptide according to the invention. Specific binding can be tested by various well known techniques. Preferably, the antibody produced by the aforementioned method shall specifically bind the L2 polypeptide or fragment thereof. More preferably, said antibody shall specifically bind the L2 polypeptide or fragment thereof, when comprised by the immunogenic polypeptide according to the present invention (linked to the scaffold polypeptide), and thus when being present in a constrained structure. Thus, the antibody according to the present invention shall not specifically bind the parts of the immunogenic polypeptide that are derived from the scaffold polypeptide.
The aforementioned method of the present invention, preferably, allows for the production of an antibody against human papillomavirus. Preferably, said antibody binds the L2 polypeptide or fragments thereof of various HPV genotypes. Preferably, said antibody binds the L2 polypeptide or fragment thereof of HPV genotypes 16, 18, 31, 45 and 58. Preferably, the said antibody also binds the L2 polypeptide or fragments thereof of HPV genotypes 52, 2, 27, 57 and/or 11.
The present invention relates also to an antibody obtainable/produced by the aforementioned method of the present invention.
Said antibody of the present invention, preferably is a polyclonal antibody and, more preferably, a monoclonal antibody.
Most preferably, the antibody according to the present invention is the monoclonal antibody K4L2(20-38)4.1B (see Examples) produced by the hybridoma cell line which has been deposited with the German Collection of Microorganisms and Cell Cultures (DSMZ), Braunschweig, Germany on Nov. 27, 2008 under deposit number DSM ACC2983 according to the Budapest Treaty, or a fragment thereof (preferably, F(ab)2, F(ab′)2, Fab, F (ab′), Dab, Fv, sFv, scFv, or Fc fragments), or the antibody according to the present invention is the monoclonal antibody K18L2(20-38)XIII.5G (see Examples), which has been deposited with the German Collection of Microorganisms and Cell Cultures (DSMZ), Braunschweig, Germany on Nov. 27, 2008 under deposit number DSM ACC2984 according to the Budapest Treaty, or a fragment thereof (preferably, F(ab)2, F(ab′)2, Fab, F (ab′), Dab, Fv, sFv, scFv, or Fc fragments).
The antibodies according to the present invention can be used, for example, for the immunoprecipitation and immunolocalization of the immunogenic polypeptides of the present invention as well as for monitoring the presence of said variant polypeptides; for example, for the diagnosis of HPV infection, particularly for diagnosing infection with HPV genotypes 16, 18, 31, 45 and/or 58. Preferably, said diagnosis is done by determining the amount (or presence) of the L2 polypeptide in a biological sample from a subject suspected to be infected with HPV genotype 16, 18, 31, 45 and/or 58 (e.g. in a Pap smear). The presence of the L2 polypeptide (or increased amounts of the L2 polypeptide compared with a reference amount, e.g. the amount of said polypeptide in a sample from a subject not infected with HPV) indicates infection with HPV, whereas the absence of the L2 polypeptide (or decreased amounts of the L2 polypeptide compared with a reference amount, e.g. the amount of said polypeptide in a sample of a subject not infected with HPV) indicates that said subject is not infected with HPV.
Moreover, the antibodies according to the present invention can be used for the preparation of a pharmaceutical composition for passive immunization against various HPV genotypes, particularly against HPV genotypes 16, 18, 31, 45 and/or 58. For passive immunization, the antibody according to the present invention is administered to a subject in order to protect said subject against infection with various HPV genotypes and/or to treat an existing HPV infection, particularly infection with HPV genotypes 16, 18, 31, 45 or 58.
Also, the antibody of the present invention can be used for the production of anti-idiotypic antibodies. An “anti-idiotypic antibody” in the context of the present invention is an antibody that specifically binds to the idiotypic region of the antibody according to the present invention, or a fragment thereof. The idiotypic region of the antibody according to the present invention (or a fragment thereof) is, preferably, the unique part of its variable region that specifically binds to the immunogenic polypeptide according to the present invention. Preferably, the anti-idiotypic antibody is a monoclonal antibody.
Anti-idiotypic antibodies as well as methods for their production are well known in the art, see, e.g., US20080127359, or U.S. Pat. No. 5,792,455; Dalgleish: An anti-idiotype vaccine for AIDS based on the HIV receptor. Ann Ist Super Sanita. 1991; 27(1):27-31, or Attanasio, Int Rev Immunol. 1990; 7(1):109-19.
Preferably, said anti-idiotypic antibodies are produced by a) providing an antibody according to the present invention (preferably, a monoclonal antibody according to the invention, more preferably, K4L2(20-38)4.1B, or a fragment thereof, or K18L2(20-38)XIII.5G, or a fragment thereof), b) immunizing a host with said antibody, and c) harvesting the resulting anti-idiotypic antibody.
Accordingly, the present invention also relates to a method for producing anti-idiotypic antibodies by carrying out the aforementioned steps a) and b).
Moreover, the present invention relates to the use of the hybridoma cell line which has been deposited with the German Collection of Microorganisms and Cell Cultures (DSMZ), Braunschweig, Germany on Nov. 27, 2008 under deposit number DSM ACC2983, and to the use of the hybridoma cell line which has been deposited with the German Collection of Microorganisms and Cell Cultures (DSMZ), Braunschweig, Germany on Nov. 27, 2008 under deposit number DSM ACC2984 for the production of a monoclonal antibody that specifically binds the L2 peptide (as described herein).
Finally, the present invention also relates to the hybridoma cell line which has been deposited with the German Collection of Microorganisms and Cell Cultures (DSMZ), Braunschweig, Germany on Nov. 27, 2008 under deposit number DSM ACC2983 or under deposit number DSM ACC2984 according to the Budapest Treaty.
All references cited in this specification are herewith incorporated by reference with respect to their entire disclosure content and the disclosure content specifically mentioned in this specification.



The Figures show:
FIG. 1. Trx-L2 Peptides.
(A) Schematic representation of the HPV16 L2 peptides examined in this study. L2 aa 1-120 1x (1x SEQ ID NO:1+1x SEQ ID NO:24, thus the L2 polypeptide having a sequence as shown in SEQ ID NO1 inserted within the display site of the thioredoxin polypeptide having a sequence as shown in SEQ ID NO:24), 2x (SEQ ID NO:1 (2x)+SEQ ID NO:16(1x)+SEQ ID NO:24, thus two fragments of the L2 polypeptide, said fragments having a sequence as shown in SEQ ID NO:2, said fragments linked via one linker peptide having a sequence as shown in SEQ ID NO:16, inserted within the display site of the thioredoxin polypeptide having a sequence as shown in SEQ ID NO:24), 3x (SEQ ID NO:1 (3x)+SEQ ID NO:16(2x)+SEQ ID NO:24); L2 aa 20-38 1x (SEQ IS NO:2+SEQ ID NO:24), 3x (SEQ ID NO:29), 9x (SEQ ID NO:30), 15x (SEQ IS NO:2 (15x)+SEQ ID NO:16 (14x)+SEQ ID NO:24); L2 aa 28-42 1x, 4x, 8x; L2 aa 56-75 1x, 4×; L2 aa 64-81 1x, 4x, 8x; L2 aa 95-115 1x, 4x, 8x. (B) Representative example of the expression analysis of pTrx-L2(20-38)n constructs with varying L2 peptide insert multiplicity (n). SDS-PAGE of total bacterial lysates from different clones ordered according to the multiplicity of their L2(20-38) peptide inserts; the peptide insert multiplicity (n) of the various fusion proteins and the migration positions of molecular mass markers are indicated on the right hand side and on the left hand side, respectively. (C) Representative examples of purified Trx-L2(20-38)n fusion proteins used for mice immunization (1) L2 aa 20-38 1x (SEQ IS NO:2+SEQ ID NO:24), 3x (SEQ ID NO:29), 9x (SEQ ID NO:30), 15x (SEQ IS NO:2 (15x)+SEQ ID NO:16 (14x)+SEQ ID NO:24). (D) Comparison of the immune responses elicited by the HPV16 L2(20-38) peptide chemically conjugated to KLH and by the same peptide grafted to Trx, both administered (100 μg/dose) with the same CFA/IFA immunization protocol described in ‘Materials and methods’. ELISA data, obtained using GST-L2 as target antigen and expressed as A405 values, are presented as dot plots. The L2 binding activity of individual sera as well as the mean binding activity of each group (horizontal bars) are shown; KLH and Trx indicate the unconjugated carrier proteins utilized as negative controls. Please note that the numbers correspond to the amino acid positions of the L2 polypeptide as shown in SEQ ID NO:1. E.g., “L2(20-38)” stands for a fragment of the L2 polypeptide as shown in SEQ ID NO:1 comprising amino acids 20 to 28 of said polypeptide.
FIG. 2. Antibody Titers of Mice Vaccinated with the Trx-L2 Peptide Fusions.
GST-L2 ELISA was used to determine the antibody titers of sera from mice immunized three times with the indicated Trx-L2(peptide)n fusions, for group L2 aa 20-38 1x (SEQ IS NO:2+SEQ ID NO:24), 3x (SEQ ID NO:29), 9x (SEQ ID NO:30), 15x (SEQ IS NO:2 (15x)+SEQ ID NO:16 (14x)+SEQ ID NO:24) and group Trx-L2 L2 aa 1-120 1x (1x SEQ ID NO:1+1x SEQ ID NO:24), 2x (SEQ ID NO:1 (2x)+SEQ ID NO:16(1x)+SEQ ID NO:24), 3x (SEQ ID NO:1 (3x)+SEQ ID NO:16(2x)+SEQ ID NO:24); L2 aa 28-42 1x, 4x, 8x; L2 aa 56-75 1x, 4x; L2 aa 64-81 1x, 4x, 8x; L2 aa 95-115 1x, 4x, 8x (100 μg each, corresponding to 1.7-4.3 nmol of protein, depending on the size of the peptide insert; n values are shown on the x-axis) administered with the CFA/IFA immunization protocol described in ‘Materials and methods’. Sera from mice immunized with the Trx protein scaffold only (not shown) were used as negative controls and were assayed in parallel in each set of ELISAs. Binding titers are given as the reciprocal of the maximum antisera dilutions that yielded A405 values higher than the mean absorbance plus four standard deviations of sera from mice immunized with the Trx scaffold only. Data are presented as log 10 dot-plots of the titers; horizontal bars represent the geometric mean of the titers for each of the indicated subgroups of Trx-L2 antisera. The P values in each panel indicate the statistical significance of the differences between the immune responses induced by monopeptide and multipeptide Trx-L2 fusions in each group.
FIG. 3. Neutralization of HPV 16 Infection by Trx-L2 Peptide Antisera.
Serial dilutions of antisera raised against the monopeptide and multipeptide Trx-L2 fusions shown in FIG. 2 were analyzed for their capacity to block infection of 293TT cells by HPV16 pseudovirions using secreted alkaline phosphatase (SEAP) activity as readout. Neutralization efficiency was determined relative to that of mock-treated (0% neutralization) and HPV16 L1-specific mAb-treated (100% neutralization) controls, which were run in parallel in each assay (see ‘Materials and methods’ for details). Data for the monopeptide and the aggregated multipeptide forms of each Trx-L2 immunogen L2 aa 20-38 1x (SEQ IS NO:2+SEQ ID NO:24), 3x (SEQ ID NO:29), 9x (SEQ ID NO:30), 15x (SEQ IS NO:2 (15x)+SEQ ID NO:16 (14x)+SEQ ID NO:24); L2 aa 28-421×, 4×, 8x; L2 aa 56-751×, 4×; L2 aa 64-81 1x, 4x, 8x and L2 aa 95-1151×, 4×, 8x are expressed as the reciprocal of the maximum dilution causing ≧70% neutralization. The geometric means of the titers and the 95% confidence intervals for each group of anti-Trx-L2 peptide antisera plus the anti-Trx-L2(1-120) 1x (1x SEQ ID NO:1+1x SEQ ID NO:24), 2x (SEQ ID NO:1 (2x)+SEQ ID NO:16(1x)+SEQ ID NO:24), 3x (SEQ ID NO:1 (3x)+SEQ ID NO:16(2x)+SEQ ID NO:24) reference are represented on a log scale.
FIG. 4. Cross-Neutralization of HPV 31, 45, and 58 Pseudovirions.
The crossneutralization activities of the indicated subset of Trx-L2 peptide antisera were assayed at a fixed 1:200 dilution against three heterologous pseudovirions (HPV 31, 45 and 58) plus the cognate HPV16 type. Mock-treated 293TT cells and cells treated with type-specific neutralizing antibodies served as negative and positive controls, respectively (see FIG. 3) legend and ‘Materials and methods’ for details). Cumulative monopeptide and multipeptide data are presented for each immunogen except Trx-L2 aa 20-38 1x (SEQ IS NO:2+SEQ ID NO:24), 3x (SEQ ID NO:29), 9x (SEQ ID NO:30), 15x (SEQ IS NO:2 (15x)+SEQ ID NO:16 (14x)+SEQ ID NO:24), the only one for which a trend toward a peptide multiplicity-dependent increase in cross-neutralization activity was observed; they are represented as the mean plus SD of the neutralization values for the various Trx-L2 peptide antisera relative to those obtained with HPV type-specific antibodies.
FIG. 5. Neutralization of Homologous and Heterologous Pseudovirions by Trx-L2(20-38)n Antisera.
The strongest HPV 16 neutralizing antisera from each group of Trx-L2(20-38)n antigens (n=1, 3, 9, 15) 1x (SEQ IS NO:2+SEQ ID NO:24), 3x (SEQ ID NO:29), 9x (SEQ ID NO:30), 15x (SEQ IS NO:2 (15x)+SEQ ID NO:16 (14x)+SEQ ID NO:24) were titrated against homologous (HPV16) and heterologous (HPV18, 31, 45, 58) pseudovirions (see ‘Materials and methods’ and FIG. 3 legend for details).
FIG. 6. Sequence Comparison of the L2(20-38) Region of the Examined HPV Types. Multiple sequence alignment was performed with CLUSTAL W [30]; amino acids identical to those of the cognate HPV16 type are indicated with dots. Conservative and non-conservative substitutions are shown in standard and in bold characters, respectively; non-conservative substitutions occurring in only one of the five examined HPV types are boxed.
FIG. 7. Neutralizing Titers of Supernatants of Monoclonal Antibodies Against the aa 20-31 from HPV16 L2 Protein
IgG concentration in supernatants was adjusted to 0.6 μg/ml, titer was defined as the last dilution that can protect 70% of pseudovirions infection. There are not big differences in the neutralization capacity of antibodies #4 (K4L2(20-38)4.1B) and #18 (K18L2(20-38)XIII.5G) except for the neutralization of HPV31. Antibody #18 can neutralize the infection although with low titer, but, antibody #4 is unable to neutralize the infection even at low dilution factor. Antibody #8 and #1 can neutralize only HPV16. Antibody #1 can neutralize HPV 16 with high titer.
FIG. 8. Identification of Epitopes Recognized by Neutralizing (Boxed) and Non-Neutralizing Antibodies
The different monoclonal antibodies raised against different regions of the HPV 16 N-terminus were tested for their reactivity with a set of overlapping peptides (amino acids 1-15, 5-19, 106-120) in ELISA. All four neutralizing antibodies show a distinct pattern in binding the peptides, different to the pattern of the non-neutralizing antibodies. The two cross-neutralizing antibodies (K4L2(20-38)4.1B) and #18 (K18L2(20-38)XIII.5G) are directed against region 20-38. Antibody #15, which shows a similar binding pattern compared to #18, has an about 30 fold lower affinity to its target which explains its failure to neutralize HPV pseudovirions.
FIG. 9. Epitopes for Non-Neutralizing, Neutralizing and Cross-Neutralizing Antibodies (K4L2(20-38)4.1B and K18L2(20-38)XIII.5G) within Region 20-42 of HPV 16 L2.
Scheme with the recognition patron of all mAbs isolated against the region 20-42. Cross-neutralizing antibodies Mab K4L2(20-38)4.1B recognize the sequence aa 21-30 SEQ ID NO:4 and K18L2(20-38)XIII.5G recognize the sequence aa 22-30 SEQ ID NO:5. Neutralizing antibody anti HPV16 K8L2(28-42)12.4B recognize the sequence aa 32-39 SEQ ID NO:31.
FIG. 10. Epitope Mapping for the Two Neutralizing Antibodies (K4L2(20-38)4.1B) and #18 (K18L2(20-38)XIII.5G).
To determine the amino acids required for binding of the two antibodies K4 (A9 and K18 (B) an peptide-alanine scan was performed. Antibody #4 the five amino acids xTCKxxxxCPxx are essential for binding while for K8 only the two cysteine residues are crucial for binding, although the remainder residues might contribute to the binding.
FIG. 11. Neutralization Assay of HPV 16 and HPV 31 Pseudovirions with Modified L2 Proteins.
To determine why antibodies #4 (K4L2(20-38)4.1B) and #18 (K18L2(20-38)XIII.5G) have different abilities to neutralize HPV 31 we tested hybrid particles composed of HPV 16 L1 HPV 31 L2 and vice versa. In addition, the corresponding epitope in HPV 31 recognized by K4 and K18 was modified. Results indicate that the ability of (K4L2(20-38)4.1B) and #18 (K18L2(20-38)XIII.5G) antibodies to neutralize depends on the epitope sequence as HPV 31 L1/16L2 pseudovirions can be neutralized by both antibodies. Altering serine at position 30 into proline restores the ability to neutralize HPV 31 pseudovirions indicating that this residue is important in binding the antibodies.



EXAMPLES
Example 1
Monopeptide (1x SEQ ID NO:2) and multipeptide ((SEQ ID NO:2 (3x)+SEQ ID NO:16(2x)) or 3x (SEQ ID NO:2 (3x)+SEQ ID NO:16(2x)) immunogenic peptides are inserted within the display site of the thioredoxin polypeptide having a sequence as shown in SEQ ID NO: 493 to SEQ ID NO: 496. Fusion proteins are produced in E. coli cells, purified from cell extracts and used for immunization.







TABLE 1





List of L2 peptide immunogens


(and variants thereof)—
















SEQ ID NO: 33
RGCKQAGTCPPDVINKVEQ


 


SEQ ID NO: 34
RGCKASNTCPPDVINKVEQ


 


SEQ ID NO: 35
RGCKAAGTCPPDVINKVEQ


 


SEQ ID NO: 36
QSCKAAGTCPPDVLNKVEQ


 


SEQ ID NO: 37
QSCKAAGTCPPDVVNKVEQ


 


SEQ ID NO: 38
QTCKQAGTCPPDVVNKVEQ


 


SEQ ID NO: 39
QTCKQAGTCPPDVVNKVEQ


 


SEQ ID NO: 40
RTCKQAGTCPPDVINKVES


 


SEQ ID NO: 41
RTCKQAGTCPPDVINKVEQ


 


SEQ ID NO: 42
KGCKASGTCPPDVINKVEQ


 


SEQ ID NO: 43
RTCKQSGTCPPDVVPKVEG


 


SEQ ID NO: 44
RTCKQAGTCPPDVIPKVEG


 


SEQ ID NO: 45
RTCKVTGTCPADVVPKVEG


 


SEQ ID NO: 46
RTCKATGTRPADVIPKVEG


 


SEQ ID NO: 47
RTCKQSGTCPPDIIPRVEQ


 


SEQ ID NO: 48
RTCKQAGTCPPDIIPRLEQ


 


SEQ ID NO: 49
RTCKQAGTCPPDIIPRVEQ


 


SEQ ID NO: 50
KTCKVAGTCPPDVIPKVEG


 


SEQ ID NO: 51
KTCKAAGTCPPDVIPKVEG


 


SEQ ID NO: 52
RTCKAAGTCPPDVIPKVEG


 


SEQ ID NO: 53
RTCKASGTCPPDVIPKVEG


 


SEQ ID NO: 54
STCKAAGTCPADVIPKVEG


 


SEQ ID NO: 55
KTCKLSGTCPEDVINKVEQ


 


SEQ ID NO: 56
KTCKQSGTCPPDIIPKVEG


 


SEQ ID NO: 57
KTCKQAGTCPPDIVPKVEG


 


SEQ ID NO: 58
QTCKASGTCPPDVIPKVEG


 


SEQ ID NO: 59
KTCKQAGTCPPDVIPKVEG


 


SEQ ID NO: 60
QTCKAAGTCPSDIIPKVEH


 


SEQ ID NO: 61
QTCKASGTCPPDVIPKVEQ


 


SEQ ID NO: 62
QTCKLTGTCPPDVIPKVEH


 


SEQ ID NO: 63
QTCKAAGTCPSDVINKVEH


 


SEQ ID NO: 64
KQCQLGADCPPDVRNKVEG


 


SEQ ID NO: 65
AKCQLSGNCLPDVKNKVEA


 


SEQ ID NO: 66
AKCQLSGDCLPDVKNKVEA


 


SEQ ID NO: 67
RHCALSGTCPDDVKNKVEN


 


SEQ ID NO: 68
KHCAGSGTCPEDVKNKVEQ


 


SEQ ID NO: 69
KTCLQGGDCIPDVKNKFEN


 


SEQ ID NO: 70
RSCLQGGDCIPDVQNKFEG


 


SEQ ID NO: 71
QTCKATGTCPPDVIPKVEG


 


SEQ ID NO: 72
KTCKQSGTCPPDVVPKVEG


 


SEQ ID NO: 73
RTCKQSGTCPPDVINKVEG


 


SEQ ID NO: 74
KTCKQAGTCPSDVINKVEG


 


SEQ ID NO: 75
KTCKLSGTCPEDVVNKIEQ


 


SEQ ID NO: 76
RTCKQSGTCPPDVVDKVEG


 


SEQ ID NO: 77
STCKAAGTCPPDVVNKVEG


 


SEQ ID NO: 78
PTCKIAGNCPADIQNKFEN


 


SEQ ID NO: 79
PACKISNTCPPDIINKYEN


 


SEQ ID NO: 80
RGCKQAGTCPPD


 


SEQ ID NO: 81
RGCKASNTCPPD


 


SEQ ID NO: 82
RGCKAAGTCPPD


 


SEQ ID NO: 83
QSCKAAGTCPPD


 


SEQ ID NO: 84
QTCKQAGTCPPD


 


SEQ ID NO: 85
RTCKQAGTCPPD


 


SEQ ID NO: 86
KGCKASGTCPPD


 


SEQ ID NO: 87
RTCKQSGTCPPD


 


SEQ ID NO: 88
RTCKVTGTCPAD


 


SEQ ID NO: 89
RTCKATGTRPAD


 


SEQ ID NO: 90
KTCKVAGTCPPD


 


SEQ ID NO: 91
KTCKVAGTCPPD


 


SEQ ID NO: 92
RTCKAAGTCPPD


 


SEQ ID NO: 93
RTCKASGTCPPD


 


SEQ ID NO: 94
STCKAAGTCPAD


 


SEQ ID NO: 95
KTCKLSGTCPED


 


SEQ ID NO: 96
KTCKQAGTCPED


 


SEQ ID NO: 97
QTCKASGTCPPD


 


SEQ ID NO: 98
QTCKAAGTCPSD


 


SEQ ID NO: 99
QTCKLTGTCPPD


 


SEQ ID NO: 100
KQCQLGADCPPD


 


SEQ ID NO: 101
AKCQLSGNCLPD


 


SEQ ID NO: 102
AKCQLSGDCLPD


 


SEQ ID NO: 103
RHCALSGTCPDD


 


SEQ ID NO: 104
KHCAGSGTCPED


 


SEQ ID NO: 105
KTCLQGGDCIPD


 


SEQ ID NO: 106
RSCLQGGDCIPD


 


SEQ ID NO: 107
QTCKATGTCPPD


 


SEQ ID NO: 108
KTCKQSGTCPPD


 


SEQ ID NO: 109
KTCKQAGTCPSD


 


SEQ ID NO: 110
STCKAAGTCPPD


 


SEQ ID NO: 111
PTCKIAGNCPAD


 


SEQ ID NO: 112
PACKISNTCPPD


 


SEQ ID NO: 113
GCKQAGTCPPD


 


SEQ ID NO: 114
GCKASNTCPPD


 


SEQ ID NO: 115
GCKAAGTCPPD


 


SEQ ID NO: 116
SCKAAGTCPPD


 


SEQ ID NO: 117
TCKQSGTCPSD


 


SEQ ID NO: 118
GCKASGTCPPD


 


SEQ ID NO: 119
TCKQSGTCPPD


 


SEQ ID NO: 120
TCKVTGTCPAD


 


SEQ ID NO: 121
TCKATGTRPAD


 


SEQ ID NO: 122
TCKVAGTCPPD


 


SEQ ID NO: 123
TCKAAGTCPPD


 


SEQ ID NO: 124
TCKASGTCPPD


 


SEQ ID NO: 125
TCKAAGTCPAD


 


SEQ ID NO: 126
TCKLSGTCPED


 


SEQ ID NO: 127
TCKAAGTCPSD


 


SEQ ID NO: 128
TCKLTGTCPPD


 


SEQ ID NO: 129
QCQLGADCPPD


 


SEQ ID NO: 130
KCQLSGNCLPD


 


SEQ ID NO: 131
KCQLSGDCLPD


 


SEQ ID NO: 132
HCALSGTCPDD


 


SEQ ID NO: 133
HCAGSGTCPED


 


SEQ ID NO: 134
TCLQGGDCIPD


 


SEQ ID NO: 135
SCLQGGDCIPD


 


SEQ ID NO: 136
TCKATGTCPPD


 


SEQ ID NO: 137
TCKQAGTCPSD


 


SEQ ID NO: 138
TCKIAGNCPAD


 


SEQ ID NO: 139
ACKISNTCPPD


 


SEQ ID NO: 140
CKQSGTCPDD


 


SEQ ID NO: 141
CKASNTCPPD


 


SEQ ID NO: 142
CKAAGTCPPD


 


SEQ ID NO: 143
CKASGTCPPD


 


SEQ ID NO: 144
CKQSGTCPPD


 


SEQ ID NO: 145
CKVTGTCPAD


 


SEQ ID NO: 146
CKATGTRPAD


 


SEQ ID NO: 147
CKVAGTCPPD


 


SEQ ID NO: 148
CKAAGTCPAD


 


SEQ ID NO: 149
CKLSGTCPED


 


SEQ ID NO: 150
CKAAGTCPSD


 


SEQ ID NO: 151
CKLTGTCPPD


 


SEQ ID NO: 152
CQLGADCPPD


 


SEQ ID NO: 153
CQLSGNCLPD


 


SEQ ID NO: 154
CQLSGDCLPD


 


SEQ ID NO: 155
CALSGTCPDD


 


SEQ ID NO: 156
CAGSGTCPED


 


SEQ ID NO: 157
CLQGGDCIPD


 


SEQ ID NO: 158
CKATGTCPPD


 


SEQ ID NO: 159
CKQAGTCPSD


 


SEQ ID NO: 160
CKIAGNCPAD


 


SEQ ID NO: 161
CKISNTCPPD


 


SEQ ID NO: 162
GCKQAGTCPP


 


SEQ ID NO: 163
GCKASNTCPP


 


SEQ ID NO: 164
GCKAAGTCPP


 


SEQ ID NO: 165
SCKAAGTCPP


 


SEQ ID NO: 166
TCKLAGTCPP


 


SEQ ID NO: 167
GCKASGTCPP


 


SEQ ID NO: 168
TCKQSGTCPP


 


SEQ ID NO: 169
TCKVTGTCPA


 


SEQ ID NO: 170
TCKATGTRPA


 


SEQ ID NO: 171
TCKVAGTCPP


 


SEQ ID NO: 172
TCKAAGTCPP


 


SEQ ID NO: 173
TCKASGTCPP


 


SEQ ID NO: 174
TCKAAGTCPA


 


SEQ ID NO: 175
TCKLSGTCPE


 


SEQ ID NO: 176
TCKAAGTCPS


 


SEQ ID NO: 177
TCKLTGTCPP


 


SEQ ID NO: 178
QCQLGADCPP


 


SEQ ID NO: 179
KCQLSGNCLP


 


SEQ ID NO: 180
KCQLSGDCLP


 


SEQ ID NO: 181
HCALSGTCPD


 


SEQ ID NO: 182
HCAGSGTCPE


 


SEQ ID NO: 183
TCLQGGDCIP


 


SEQ ID NO: 184
SCLQGGDCIP


 


SEQ ID NO: 185
TCKATGTCPP


 


SEQ ID NO: 186
TCKQAGTCPS


 


SEQ ID NO: 187
TCKIAGNCPA


 


SEQ ID NO: 188
ACKISNTCPP


 


SEQ ID NO: 189
CKLAGTCPP


 


SEQ ID NO: 190
CKASNTCPP


 


SEQ ID NO: 191
CKAAGTCPP


 


SEQ ID NO: 192
CKASGTCPP


 


SEQ ID NO: 193
CKQSGTCPP


 


SEQ ID NO: 194
CKVTGTCPA


 


SEQ ID NO: 195
CKATGTRPA


 


SEQ ID NO: 196
CKVAGTCPP


 


SEQ ID NO: 197
CKAAGTCPA


 


SEQ ID NO: 198
CKLSGTCPE


 


SEQ ID NO: 199
CKAAGTCPS


 


SEQ ID NO: 200
CKLTGTCPP


 


SEQ ID NO: 201
CQLGADCPP


 


SEQ ID NO: 202
CQLSGNCLP


 


SEQ ID NO: 203
CQLSGDCLP


 


SEQ ID NO: 204
CALSGTCPD


 


SEQ ID NO: 205
CAGSGTCPE


 


SEQ ID NO: 206
CLQGGDCIP


 


SEQ ID NO: 207
CKATGTCPP


 


SEQ ID NO: 208
CKQAGTCPS


 


SEQ ID NO: 209
CKIAGNCPA


 


SEQ ID NO: 210
CKISNTCPP


 


SEQ ID NO: 211
DVINKVEQTT


 


SEQ ID NO: 212
DVINKVEQST


 


SEQ ID NO: 213
DVINKVEQKT


 


SEQ ID NO: 214
DVLNKVEQTT


 


SEQ ID NO: 215
DVVNKVEQTT


 


SEQ ID NO: 216
DVINKVESTT


 


SEQ ID NO: 217
DVINKVEQNT


 


SEQ ID NO: 218
DVVPKVEGDT


 


SEQ ID NO: 219
DVIPKVEGDT


 


SEQ ID NO: 220
DIIPRVEQNT


 


SEQ ID NO: 221
DIIPRLEQNT


 


SEQ ID NO: 222
DIIPRVEQDT


 


SEQ ID NO: 223
DVIPKVEGTT


 


SEQ ID NO: 224
DIIPKVEQKT


 


SEQ ID NO: 225
DVIPKVEGST


 


SEQ ID NO: 226
DIIPKVEHNT


 


SEQ ID NO: 227
DVIPKVEQNT


 


SEQ ID NO: 228
DVIPKVEHNT


 


SEQ ID NO: 229
DVINKVEHTT


 


SEQ ID NO: 230
DVRNKVEGTT


 


SEQ ID NO: 231
DVKNKVEADT


 


SEQ ID NO: 232
DVKNKVEANT


 


SEQ ID NO: 233
DVKNKVENNT


 


SEQ ID NO: 234
DVKNKVEQTT


 


SEQ ID NO: 235
DVKNKFENST


 


SEQ ID NO: 236
DVQNKFEGNT


 


SEQ ID NO: 237
DIQNKIEQTT


 


SEQ ID NO: 238
DVIKRYEQTT


 


SEQ ID NO: 239
VINKVEQTT


 


SEQ ID NO: 240
VINKVEQST


 


SEQ ID NO: 241
VINKVEQKT


 


SEQ ID NO: 242
VLNKVEQTT


 


SEQ ID NO: 243
VVNKVEQTT


 


SEQ ID NO: 244
VINKVESTT


 


SEQ ID NO: 245
VINKVEQNT


 


SEQ ID NO: 246
VVPKVEGDT


 


SEQ ID NO: 247
VIPKVEGDT


 


SEQ ID NO: 248
IIPRVEQNT


 


SEQ ID NO: 249
IIPRLEQNT


 


SEQ ID NO: 250
IIPRVEQDT


 


SEQ ID NO: 251
VIPKVEGTT


 


SEQ ID NO: 252
IIPKVEQKT


 


SEQ ID NO: 253
VIPKVEGST


 


SEQ ID NO: 254
IIPKVEHNT


 


SEQ ID NO: 255
VIPKVEQNT


 


SEQ ID NO: 256
VIPKVEHNT


 


SEQ ID NO: 257
VINKVEHTT


 


SEQ ID NO: 258
VRNKVEGTT


 


SEQ ID NO: 259
VKNKVEADT


 


SEQ ID NO: 260
VKNKVEANT


 


SEQ ID NO: 261
VKNKVENNT


 


SEQ ID NO: 262
VKNKVEQTT


 


SEQ ID NO: 263
VKNKFENST


 


SEQ ID NO: 264
VQNKFEGNT


 


SEQ ID NO: 265
IQNKIEQTT


 


SEQ ID NO: 266
VIKRYEQTT


 


SEQ ID NO: 267
INKVEQTT


 


SEQ ID NO: 268
INKVEQTT


 


SEQ ID NO: 269
INKVEQKT


 


SEQ ID NO: 270
LNKVEQTT


 


SEQ ID NO: 271
VNKVEQTT


 


SEQ ID NO: 272
INKVESTT


 


SEQ ID NO: 273
INKVEQNT


 


SEQ ID NO: 274
VPKVEGDT


 


SEQ ID NO: 275
IPKVEGDT


 


SEQ ID NO: 276
IPRVEQNT


 


SEQ ID NO: 277
IPRLEQNT


 


SEQ ID NO: 278
IPRVEQDT


 


SEQ ID NO: 279
IPKVEGTT


 


SEQ ID NO: 280
IPKVEHKT


 


SEQ ID NO: 281
IPKVEGST


 


SEQ ID NO: 282
IPKVEHNT


 


SEQ ID NO: 283
IPKVEQNT


 


SEQ ID NO: 284
INKVEHTT


 


SEQ ID NO: 285
RNKVEGTT


 


SEQ ID NO: 286
KNKVEADT


 


SEQ ID NO: 287
KNKVEANT


 


SEQ ID NO: 288
KNKVENNT


 


SEQ ID NO: 289
KNKVEQTT


 


SEQ ID NO: 290
KNKFENST


 


SEQ ID NO: 291
QNKFEGNT


 


SEQ ID NO: 292
QNKIEQTT


 


SEQ ID NO: 293
IKRYEQTT


 


SEQ ID NO: 294
TGYIPLQTR


 


SEQ ID NO: 295
TGYVPLGST


 


SEQ ID NO: 296
TGYVPLGNT


 


SEQ ID NO: 297
TGYVPLSTG


 


SEQ ID NO: 298
TGYIPLQST


 


SEQ ID NO: 299
TGYVPVGST


 


SEQ ID NO: 300
TGYVPLQTS


 


SEQ ID NO: 301
TGYVPLTTG


 


SEQ ID NO: 302
RGCKQXGTCPPDVINKVEQ


 


SEQ ID NO: 303
RGCKAXNTCPPDVINKVEQ


 


SEQ ID NO: 304
RGCKAXGTCPPDVINKVEQ


 


SEQ ID NO: 305
QSCKAXGTCPPDVLNKVEQ


 


SEQ ID NO: 306
QSCKAXGTCPPDVVNKVEQ


 


SEQ ID NO: 307
QTCKQXGTCPPDVINKVEQ


 


SEQ ID NO: 308
QTCKQXGTCPPDVVNKVEQ


 


SEQ ID NO: 309
RTCKQXGTCPPDVINKVES


 


SEQ ID NO: 310
RTCKQXGTCPPDVINKVEQ


 


SEQ ID NO: 311
KGCKAXGTCPPDVINKVEQ


 


SEQ ID NO: 312
RTCKQXGTCPPDVVPKVEG


 


SEQ ID NO: 313
RTCKQXGTCPPDVIPKVEG


 


SEQ ID NO: 314
RTCKVXGTCPADVVPKVEG


 


SEQ ID NO: 315
RTCKAXGTRPADVIPKVEG


 


SEQ ID NO: 316
STCKAXGTCPPDVIPKLEG


 


SEQ ID NO: 317
RTCKQXGTCPPDIIPRLEQ


 


SEQ ID NO: 318
RTCKQXGTCPPDIIPRVEQ


 


SEQ ID NO: 319
KTCKVXGTCPPDVIPKVEG


 


SEQ ID NO: 320
KTCKAXGTCPPDVIPKVEG


 


SEQ ID NO: 321
STCKAXGTCPPDVIPKVEG


 


SEQ ID NO: 322
RTCKAXGTCPPDVIPKVEG


 


SEQ ID NO: 323
STCKAXGTCPADVIPKVEG


 


SEQ ID NO: 324
KTCKLXGTCPEDVINKVEQ


 


SEQ ID NO: 325
KTCKQXGTCPPDIIPKIEG


 


SEQ ID NO: 326
KTCKQXGTCPPDIVPKVEG


 


SEQ ID NO: 327
STCKQXGTCPPDIIPRVEQ


 


SEQ ID NO: 328
KTCKQXGTCPPDVIPKVEG


 


SEQ ID NO: 329
QTCKAXGTCPSDIIPKVEH


 


SEQ ID NO: 330
QTCKAXGTCPPDVIPKVEQ


 


SEQ ID NO: 331
QTCKLXGTCPPDVIPKVEH


 


SEQ ID NO: 332
QTCKAXGTCPSDVINKVEH


 


SEQ ID NO: 333
KQCQLXADCPPDVRNKVEG


 


SEQ ID NO: 334
AKCQLXGNCLPDVKNKVEA


 


SEQ ID NO: 335
AKCQLXGDCLPDVKNKVEA


 


SEQ ID NO: 336
RHCALXGTCPDDVKNKVEN


 


SEQ ID NO: 337
KHCAGXGTCPEDVKNKVEQ


 


SEQ ID NO: 338
KTCLQXGDCIPDVKNKFEN


 


SEQ ID NO: 339
RSCLQXGDCIPDVQNKFEG


 


SEQ ID NO: 340
QTCKAXGTCPPDVIPKVEG


 


SEQ ID NO: 341
KTCKQXGTCPPDVVPKVEG


 


SEQ ID NO: 342
RTCKQXGTCPPDVINKVEG


 


SEQ ID NO: 343
KTCKQXGTCPSDVINKVEG


 


SEQ ID NO: 344
KTCKLXGTCPEDVVNKIEQ


 


SEQ ID NO: 345
RTCKQXGTCPPDVVDKVEG


 


SEQ ID NO: 346
STCKAXGTCPPDVVNKVEG


 


SEQ ID NO: 347
PTCKIXGNCPADIQNKFEN


 


SEQ ID NO: 348
PACKIXNTCPPDIINKYEN


 


SEQ ID NO: 349
RGCKQXGTCPPD


 


SEQ ID NO: 350
RGCKAXNTCPPD


 


SEQ ID NO: 351
RGCKAXGTCPPD


 


SEQ ID NO: 352
QSCKAXGTCPPD


 


SEQ ID NO: 353
QTCKQXGTCPPD


 


SEQ ID NO: 354
RTCKQXGTCPPD


 


SEQ ID NO: 355
KGCKAXGTCPPD


 


SEQ ID NO: 356
PTCKAXGTCPPD


 


SEQ ID NO: 357
RTCKVXGTCPAD


 


SEQ ID NO: 358
RTCKAXGTRPAD


 


SEQ ID NO: 359
KTCKVXGTCPPD


 


SEQ ID NO: 360
KTCKAXGTCPPD


 


SEQ ID NO: 361
RTCKAXGTCPPD


 


SEQ ID NO: 362
STCKAXGTRPPD


 


SEQ ID NO: 363
STCKAXGTCPAD


 


SEQ ID NO: 364
KTCKLXGTCPED


 


SEQ ID NO: 365
ATCKQXGTCPPD


 


SEQ ID NO: 366
STCKQXGTCPPD


 


SEQ ID NO: 367
QTCKAXGTCPSD


 


SEQ ID NO: 368
QTCKLXGTCPPD


 


SEQ ID NO: 369
KQCQLXADCPPD


 


SEQ ID NO: 370
AKCQLXGNCLPD


 


SEQ ID NO: 371
AKCQLXGDCLPD


 


SEQ ID NO: 372
RHCALXGTCPDD


 


SEQ ID NO: 373
KHCAGXGTCPED


 


SEQ ID NO: 374
KTCLQXGDCIPD


 


SEQ ID NO: 375
RSCLQXGDCIPD


 


SEQ ID NO: 376
QTCKAXGTCPPD


 


SEQ ID NO: 377
KTCKQXGTCPED


 


SEQ ID NO: 378
KTCKQXGTCPSD


 


SEQ ID NO: 379
STCKAXGTCPPD


 


SEQ ID NO: 380
PTCKIXGNCPAD


 


SEQ ID NO: 381
PACKIXNTCPPD


 


SEQ ID NO: 382
GCKQXGTCPPD


 


SEQ ID NO: 383
GCKAXNTCPPD


 


SEQ ID NO: 384
ACKAXGTCPPD


 


SEQ ID NO: 385
SCKAXGTCPPD


 


SEQ ID NO: 386
KCKAXGTCIPD


 


SEQ ID NO: 387
GCKAXGTCPPD


 


SEQ ID NO: 388
KCKAXGTCPPD


 


SEQ ID NO: 389
TCKVXGTCPAD


 


SEQ ID NO: 390
TCKAXGTRPAD


 


SEQ ID NO: 391
TCKVXGTCPPD


 


SEQ ID NO: 392
SCKLXGTCPPD


 


SEQ ID NO: 393
SCKQXGTCPSD


 


SEQ ID NO: 394
TCKAXGTCPAD


 


SEQ ID NO: 395
TCKLXGTCPED


 


SEQ ID NO: 396
TCKAXGTCPSD


 


SEQ ID NO: 397
TCKLXGTCPPD


 


SEQ ID NO: 398
QCQLXADCPPD


 


SEQ ID NO: 399
KCQLXGNCLPD


 


SEQ ID NO: 400
KCQLXGDCLPD


 


SEQ ID NO: 401
HCALXGTCPDD


 


SEQ ID NO: 402
HCAGXGTCPED


 


SEQ ID NO: 403
TCLQXGDCIPD


 


SEQ ID NO: 404
SCLQXGDCIPD


 


SEQ ID NO: 405
TCKAXGTCPPD


 


SEQ ID NO: 406
TCKQXGTCPSD


 


SEQ ID NO: 407
TCKIXGNCPAD


 


SEQ ID NO: 408
ACKIXNTCPPD


 


SEQ ID NO: 409
CKQXGTCPDD


 


SEQ ID NO: 410
CKAXNTCPPD


 


SEQ ID NO: 411
CLAXGTCPAD


 


SEQ ID NO: 412
CLAXGTCPPD


 


SEQ ID NO: 413
CKLXGTCPAD


 


SEQ ID NO: 414
CKVXGTCPAD


 


SEQ ID NO: 415
CKAXGTRPAD


 


SEQ ID NO: 416
CKVXGTCPPD


 


SEQ ID NO: 417
CKAXGTCPAD


 


SEQ ID NO: 418
CKLXGTCPED


 


SEQ ID NO: 419
CKAXGTCPSD


 


SEQ ID NO: 420
CKLXGTCPPD


 


SEQ ID NO: 421
CQLXADCPPD


 


SEQ ID NO: 422
CQLXGNCLPD


 


SEQ ID NO: 423
CQLXGDCLPD


 


SEQ ID NO: 424
CALXGTCPDD


 


SEQ ID NO: 425
CAGXGTCPED


 


SEQ ID NO: 426
CLQXGDCIPD


 


SEQ ID NO: 427
CKAXGTCPPD


 


SEQ ID NO: 428
CKQXGTCPSD


 


SEQ ID NO: 429
CKIXGNCPAD


 


SEQ ID NO: 430
CKIXNTCPPD


 


SEQ ID NO: 486
KTCKQSGTCPSDVVNKVEG


 


SEQ ID NO: 487
QTCKAAGTCPSDVIPKIEH


 


SEQ ID NO: 488
KTCKQSGTCPPDVIDKVEG


 


SEQ ID NO: 489
STCKAAGTCPPDVIPKVKG


 


SEQ ID NO: 490
KTCKQSGTCPSD


 







SEQ ID NO: 491 ((SEQ ID NO: 2)x3 +


(SEQ ID NO: 487)x3 + (SEQ ID NO: 77)x3 with a


tripeptide (GGP) linker):


KTCKQAGTCPPDIIPKVEGGGPKTCKQAGTCPPDIIPKVEGGGPKTCK


QAGTCPPDIIPKVEGGGPQTCKAAGTCPSDVIPKIEHGGPQTCKAAGT


CPSDVIPKIEHGGPQTCKAAGTCPSDVIPKIEHGGPSTCKAAGTCPPD


VVNKVEGGGPSTCKAAGTCPPDVVNKVEGGGPSTCKAAGTCPPDVVNK


VEG


 


SEQ ID NO: 492 ((SEQ ID NO: 2) + (SEQ ID


NO: 487) + (SEQ ID NO: 77))x3 with a tripeptide


(GGP) linker


KTCKQAGTCPPDIIPKVEGGGPQTCKAAGTCPSDVIPKIEHGGPSTCK


AAGTCPPDVVNKVEGGGPKTCKQAGTCPPDIIPKVEGGGPQTCKAAGT


CPSDVIPKIEHGGPSTCKAAGTCPPDVVNKVEGGGPKTCKQAGTCPPD


IIPKVEGGGPQTCKAAGTCPSDVIPKIEHGGPSTCKAAGTCPPDVVNK


VEG





***X = Gly (G) or Ala (A)













TABLE 2





List of thioredoxin variants















SEQ ID NO: 493 (variant thiorexodin polypeptide


from hyperthermophile archaebacterium Pyrococcus


furiosus)


MIIEYDGEIDFTKGRVVLWFSIPGCGPCRLVERFMTELSEYFEDIQIV


HINAGKWKNIVDKFNILNVPTLVYLKDGREVGRQNLIRSKEEILKKLK


ELQE


 


SEQ ID NO: 494 (variant thiorexodin polypeptide


from hyperthermophile archaebacterium


Thermococcus kodakarensis)


MIVEYDENVDFTKGKAVLWFSIPGCGPCRLVEAFMKELSEEFGEIAIV


HVNAEKWSGLVEGFRILNVPTLVYLKDGKEVARQNLIRGKGEVLIKFE


EPREL


 


SEQ ID NO: 495 (variant thiorexodin polypeptide


from hyperthermophile archaebacterium


Thermococcus onnurineus)


MIREFDGDFGKVERAKYALLWFSSPGCGPCRMIEPFMHELSEEYKEVE


FWEVDVEKHLPLAEKFDVMNVPTLIYLKEGNEIARQNLVRKKEEVEEK


LMMLLGSDS


 


SEQ ID NO: 496 (variant of thiorexodin poly-


peptide from hyperthermophile archaebacterium


Thermococcus sibiricus)


MIHEYDGKIDFNRGKVVLWFSIQGCGPCRLVESFMEEVSEEFSEIRFI


HVGAEKWSNIVKRFEVLNVPTLVYLKDGKEVARQNLIRSKEEVLAKIE


ELHE


 


SEQ ID NO: 497 (Dimer of Escherichia coli


thioredoxin variants)


MSDKIIHLTDDSFDTDVLKADGAILVDFWAEWCGPCKMIAPILDEIAD


EYQGKLTVAKLNIDQNPGTAPKYGIRGIPTLLLFKNGEVAATKVGALS


KGQLKEFLDANLAGGGGSEGGGSEGGGSEGGGSEGGGSEGGGSEGGGM


SDKIIHLTDDSFDTDVLKADGAILVDFWAEWCGPGCKMIAPILDEIAD


EYQGKLTVAKLNIDQNPGTAPKYGIRGIPTLLLFKNGEVAATKVGALS


KGQLKEFLDANLA


 


SEQ ID NO: 498 (Trimer of Escherichia coli


thioredoxin variants)


MSDKIIHLTDDSFDTDVLKADGAILVDFWAEWCGPCKMIAPILDEIAD


EYQGKLTVAKLNIDQNPGTAPKYGIRGIPTLLLFKNGEVAATKVGALS


KGQLKEFLDANLAGGGGSEGGGSEGGGSEGGGSEGGGSEGGGSEGGGM


SDKIIHLTDDSFDTDVLKADGAILVDFWAEWCGPGCKMIAPILDEIAD


EYQGKLTVAKLNIDQNPGTAPKYGIRGIPTLLLFKNGEVAATKVGALS


KGQLKEFLDANLAGGGGSEGGGSEGGGSEGGGSEGGGSEGGGSEGGGM


SDKIIHLTDDSFDTDVLKADGAILVDFWAEWCLSCKMIAPILDEIADE


YQGKLTVAKLNIDQNPGTAPKYGIRGIPTLLLFKNGEVAATKVGALSK


GQLKEFLDANLA

## Claims

1. An immunogenic fusion polypeptide comprising:
(a) a scaffold polypeptide selected from the group consisting of thioredoxin polypeptides, and thioredoxin polypeptides from thermophile bacteria; and
(b) a L2 peptide as set forth in one of SEQ ID NOs: 1-15, 20-22 and 31-479, wherein the scaffold polypeptide constrains the structure of the L2 peptide.

2. The immunogenic fusion polypeptide of claim 1, wherein the scaffold polypeptide is a thioredoxin polypeptide selected from the group consisting of:
(a) a polypeptide as set forth in one of SEQ ID No: 24, SEQ ID No: 25, SEQ ID No: 26, SEQ ID No: 27, Of and SEQ ID No: 28; and
(b) a variant polypeptide that is at least 70% identical to one of the sequences set forth in SEQ ID No: 24, SEQ ID No: 25, SEQ ID No: 26, SEQ ID No: 27, and SEQ ID No: 28.

3. The immunogenic fusion polypeptide according to claim 1, wherein the L2 peptide is selected from the group consisting of SEQ ID NO: 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 31 and 32.

4. The immunogenic fusion polypeptide according to claim 1, wherein the L2 peptide has the sequence as shown in SEQ ID NO:2.

5. The immunogenic fusion polypeptide according to claim 1, wherein the immunogenic polypeptide comprises a multimer of the L2 peptide.

6. The immunogenic fusion polypeptide according to claim 1, wherein the immunogenic polypeptide has the sequence shown in SEQ ID NO: 29 or 30.

7. A vaccine comprising the immunogenic fusion polypeptide according to claim 1.

8. A method of immunizing a subject against infection with human papillomavirus (HPV) comprising administering a vaccine comprising the immunogenic fusion polypeptide of claim 1.

9. A method for producing an antibody against the immunogenic fusion polypeptide of claim 1, comprising the steps:
(a) providing the immunogenic fusion polypeptide;
(b) immunizing a host with the immunogenic fusion polypeptide; and
(c) harvesting the resulting antibody against the immunogenic fusion polypeptide.

10. The method of claim 9, wherein the antibody is against human papillomavirus (HPV) genotypes 52, 2, 27, 57 and/or 11.

11. The method of claim 9, wherein the antibody is polyclonal or monoclonal.

12. The immunogenic fusion polypeptide of claim 1, wherein:
(a) the scaffold polypeptide is selected from the group consisting of SEQ ID Nos: 24, 25, 26, 27, 28, and 493-496; and
(b) the L2 peptide is selected from the group consisting of SEQ ID Nos: 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 31 and 32.

13. The immunogenic fusion polypeptide of claim 1, wherein the L2 peptide is inserted within the sequence of a thioredoxin polypeptide.

14. An immunogenic fusion polypeptide comprising:
(a) a scaffold polypeptide which is a thioredoxin polypeptide;
(b) an L2 peptide as set forth in one of SEQ ID NOs: 1-15, 20-22 and 31-479, wherein the scaffold polypeptide constrains the structure of the L2 peptide; and
wherein the thioredoxin polypeptide comprises a display site having the sequence of CGPC (SEQ ID NO: 23), and wherein the L2 peptide is inserted between (a) C and G of the display site, (b) G and P of the display site, or (c) P and C of the display site.

15. The immunogenic fusion polypeptide of claim 1, wherein the immunogenic polypeptide comprises more than one L2 peptides having the same sequence or at least 70% sequence identity.

16. An immunogenic fusion polypeptide comprising:
(a) a scaffold polypeptide which is a thioredoxin polypeptide from a thermophile bacterium; and
(b) an L2 peptide as set forth in one of SEQ ID NOs: 1-15, 20-22 and 31-479, wherein the scaffold polypeptide constrains the structure of the L2 peptide.