ZA200106800B - Use of an OmpA enterobacterium protein associated with the elagigiltv peptide for treating melanomas. - Google Patents

Use of an OmpA enterobacterium protein associated with the elagigiltv peptide for treating melanomas. Download PDF

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ZA200106800B
ZA200106800B ZA200106800A ZA200106800A ZA200106800B ZA 200106800 B ZA200106800 B ZA 200106800B ZA 200106800 A ZA200106800 A ZA 200106800A ZA 200106800 A ZA200106800 A ZA 200106800A ZA 200106800 B ZA200106800 B ZA 200106800B
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fragment
protein
sequence seq
peptide
sequence
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ZA200106800A
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Toufic Renno
Pedro Romero
Isabelle Miconnet
Jean-Charles Carottini
Jean-Yves Bonnefoy
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Pf Medicament
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    • C07ORGANIC CHEMISTRY
    • C07KPEPTIDES
    • C07K14/00Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
    • C07K14/195Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from bacteria
    • C07K14/24Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from bacteria from Enterobacteriaceae (F), e.g. Citrobacter, Serratia, Proteus, Providencia, Morganella, Yersinia
    • C07K14/26Klebsiella (G)
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61KPREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K39/00Medicinal preparations containing antigens or antibodies
    • A61K39/385Haptens or antigens, bound to carriers
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61PSPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
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    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61PSPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P31/00Antiinfectives, i.e. antibiotics, antiseptics, chemotherapeutics
    • A61P31/04Antibacterial agents
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61PSPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P31/00Antiinfectives, i.e. antibiotics, antiseptics, chemotherapeutics
    • A61P31/10Antimycotics
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61PSPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P31/00Antiinfectives, i.e. antibiotics, antiseptics, chemotherapeutics
    • A61P31/12Antivirals
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61PSPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P33/00Antiparasitic agents
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61PSPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P35/00Antineoplastic agents
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61PSPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P37/00Drugs for immunological or allergic disorders
    • A61P37/02Immunomodulators
    • A61P37/04Immunostimulants
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61KPREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K39/00Medicinal preparations containing antigens or antibodies
    • A61K2039/57Medicinal preparations containing antigens or antibodies characterised by the type of response, e.g. Th1, Th2
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61KPREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K39/00Medicinal preparations containing antigens or antibodies
    • A61K2039/60Medicinal preparations containing antigens or antibodies characteristics by the carrier linked to the antigen
    • A61K2039/6031Proteins
    • A61K2039/6068Other bacterial proteins, e.g. OMP

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Abstract

The invention concerns the use of an enterobacterium membrane protein OmpA, in particular of Klebsiella pneumoniae, associated with an antigen or a hapten for preparing a pharmaceutical composition designed to generate or enhance a cytotoxic T response directed against a tumor cell. The invention also concerns the use of said compounds for preventing or treating infection or cancer, in particular cancers associated with a tumoral antigen such as melanoma, and pharmaceutical compositions comprising some of said compounds.

Description

’ v
USE OF AN OmpA ENTEROBACTERIUM PROTEIN ASSOCIATED WITH
THE ELAGIGILTV PEPTIDE, FOR TREATING MELANOMAS
The invention relates to the use of an enterobacterium, in particular Klebsiella pneumoniae, OmpA membrane protein, associated with an antigen or a hapten, for preparing a pharmaceutical composition intended to generate or increase a cytotoxic T response directed against an infectious agent or a tumor cell. The invention comprises the use of these compounds for preventing and treating infection or cancer, in particular cancers associated with a tumor antigen, such as melanomas, and also for pharmaceutical compositions comprising some of these compounds.
Vaccination is an effective means of preventing or reducing viral or bacterial infections. The success of vaccination campaigns in these domains has made it possible to extend the vaccine concept, until now used in the domain of infectology, to the domains of cancer and of autoimmune diseases. Vaccinal antigens administered alone to the host are often not immunogenic enough to induce an immune response and must, therefore, be associated with an adjuvant or coupled to a carrier protein in order to induce (or increase) the immunogenicity. Under these conditions, only an immune response of the humoral type can be induced. Now, in the context of antiviral therapy, the generation of cytotoxic T lymphocytes (CTLs) capable of recognizing and destroying the virus is of great importance (Bachmann et al., 1994, Eur. J. Immunol., 24, 2228-2236; Borrow P., 1997, J. Virol. Hepat., 4, 16-24), as attested by many studies showing, in vivo, the protective role of responses directed against viral epitopes (Arvin AM, 1992, J. Inf. Dis., 166, S 35-5841;
Koszinowski et al., 1987 Immunol. Lett., 16, 185-192).
The importance of CTL responses has also been greatly documented in antitumor responses, in particular those 40 directed against melanoma cells (review in Rivoltini et
» t directed against melanoma cells (review in Rivoltini et al., 1998, Crit. Rev. Immunol. 18, 55-63). The CTL epitope (s) (peptide sequences which interact with class
I molecules and are presented to CD8+ T lymphocytes) have been defined for several antigens.
However, the difficulty lies in generating CTLs in vivo, due to the weak immunogenicity of these peptides (Melief, 1992, Adv. Cancer Res., 58, 143-175;
Nandaz and Sercaz, 1995, Cell, 82, 13-17).
Research 1s consequently directed toward identifying novel adjuvants, or of an antigen delivery system, making it possible to induce CTLs. Due to their effectiveness in presenting antigens and in stimulating the immune system, dendritic cells, for example, have been used to generate antiviral CTL responses (Ludewig
B et al., 1998, J. Virol., 72, 3812-3818; Brossard P. et al., 1997, J. Immunol., 158, 3270-3276) or anticancer CTL responses (Nestle F.O. et al., 1998,
Nat. Med., 4, 328-332). The approaches have consisted in loading the dendritic cells ex vivo, with the antigen of interest (peptides or cell lysate) and reimplanting these cells into the patient. Other approaches consist in transfecting, ex vivo, the dendritic cells with the gene encoding the antigen of interest and in reinjecting these transfected cells (Gilboa E. et al., 1998, Cancer Immunol. Immunother., 46, 82-87). These approaches have been used successfully in mice and recently in humans (Hsu F.J. et al., 1996, Nat. Med., 2, 52-58), but nevertheless remain complex since the cells must be treated ex vivo (transformation of the cells or internalization of the antigens) and transplanted into the host organism.
Similarly, the use of viral-type particles (Layton G.T. et al., 1993, J. Immunol., 151, 1097-1107) or of incomplete Freund's adjuvant (IFA) (Valmori et al.,
Eur. J. Immunol., 1994, 24, 1458-1462) makes it possible to generate CTL responses. However, antiviral
, ‘ corresponding to CTL epitopes and in the presence of such an adjuvant may lead to a state of specific tolerance, which may, in certain cases, produce the opposite effect to that desired, i.e. a decrease in the immune response (Toes et al., Proc. Nat. Acad. Sci.
USA, 1996, 93, 7855-7860).
Thus, there exists, today, a great need for a compound which, when associated with a molecule, in particular an antigen or hapten, is capable of generating CTLs directed against said molecule. Such a compound could, in particular, be used for preparing a vaccinal composition intended to induce immune protection of the antiviral, antibacterial, antifungal, antiparasitic or antitumor CTL type.
Surprisingly, it has been demonstrated that an outer membrane protein of a gram-negative bacterium, in particular an enterobacterium OmpA protein such as the
Klebsiella pneumoniae P40 protein (protein described in
WO 95/27787 and WO 96/14415), has the property of eliciting a CTL response against a molecule which is covalently or noncovalently associated with it, preferably without having to add another adjuvant.
Thus, the present invention relates to the use of an enterobacterium OmpA protein, of a fragment thereof or of a nucleic acid sequence encoding said OmpA protein or a fragment thereof, for preparing a pharmaceutical composition intended to generate or increase a cytotoxic T response against an infectious agent or a tumor cell, in vitro or in vivo, preferably in vivo, and also for preparing a pharmaceutical composition intended to generate or increase said cytotoxic T response.
In the present invention, the term “protein” is intended to denote both peptides or polypeptides and
. ‘ the term “OmpA” (for “outer membrane protein”) is intended to denote outer membrane proteins of the A type.
The expression “fragment of an OmpA protein” is intended to denote, in particular, any fragment of amino acid sequence included in the amino acid sequence of the OmpA protein which, when it is associated with an antigen or hapten specific for an infectious agent or for a tumor cell, is capable of generating or increasing a cytotoxic T response directed against said infectious agent or said tumor cell, said fragment of the OmpA protein comprising at least 5 amino acids, preferably at least 10 amino acids or more preferably at least 15 amino acids.
The expression “antigen or hapten specific for an infectious agent or for a tumor cell” is intended to dencte, in particular, any compound expressed by an infectious agent, such as a virus, a bacterium, a veast, a fungus or a parasite, or by a tumor cell, or a structural analog thereof, which, alone or in association with an adjuvant of immunity, is capable of inducing an immune response specific for said infectious agent or for said tumor cell.
In the present description, the expression “analog of an antigen or hapten” is intended to denote, in particular, a compound having structural similarity with said antigen or hapten, capable of inducing an immunological response directed against said antigen or hapten 1n an organism immunized beforehand with said similar compound.
A subject of the invention is also the use as claimed in the invention, characterized in that said pharmaceutical composition also comprises, associated with said enterobacterium OmpA protein, an antigen or a
R : hapten specific for said infectious agent or for said tumor cell.
Preferably, the invention comprises the use as claimed in the invention, characterized in that said infectious agent 1s a viral particle, a bacterium, a yeast, a fungus or a parasite.
In a particular embodiment, the invention comprises the use of an enterobacterium OmpA protein, or of a fragment thereof, as claimed in the invention, characterized in that said enterobacterium OmpA protein, or a fragment thereof, is obtained using a method of extraction from a culture of said enterobacterium.
The methods for extracting bacterial membrane proteins are known to those skilled in the art and will not be developed in the present description. Mention may, for example, be made, but without being limited thereto, of the extraction method described by Haeuw J.H. et al. (Eur. J. Biochem, 255, 446-454, 1998).
In another preferred embodiment, the invention also comprises the use of an enterobacterium OmpA protein, or of a fragment thereof, as claimed in the invention, characterized in that said enterobacterium OmpA protein, or a fragment thereof, is obtained via the recombinant route.
The methods for preparing the recombinant proteins are, today, well known to those skilled in the art and will not be developed in the present description; reference may however be made to the method described in the examples. Among the cells which may be used for producing these recombinant proteins, mention should, of course, be made of bacterial cells (0lins P.O. and
Lee S.C., 1993, Recent advances in heterologous gene expression in E. coli. Curr. Op. Biotechnology
. ‘ 4:520-525), and also yeast cells (Buckholz R.G., 1993,
Yeast Systems for the Expression of Heterologous Gene
Products. Curr. Op. Biotechnology 4:538-542), as well as animal cells, in particular mammalian cell cultures (Edwards C.P. and Aruffo A., 1993, Current applications of COS cell based transient expression systems. Curr.
Op. Biotechnology 4:558-563), and also insect cells in which methods may be used which implement, for example, baculoviruses (Luckow V.A., 1993, Baculovirus systems for the expression of human gene products. Curr. Op.
Biotechnology 4:564-572).
Entirely preferably, the use as «claimed in the invention is characterized in that the said enterobacterium is Klebsiella pneumoniae.
In particular, the invention relates to the use as claimed in the invention, characterized in that the amino acid sequence of said Klebsiella pneumoniae OmpA protein, or a fragment thereof, comprises: a) the amino acid sequence of sequence SEQ ID No. 2; b) the amino acid sequence of a sequence having at least 80%, preferably 90% and 95% homology, after optimal alignment, with the sequence SEQ ID No. 2; or c) the amino acid sequence of a fragment of at least 5 amino acids of a sequence as defined in a).
The expression “nucleic acid or amino acid sequence with at least 80% homology, after optimal alignment, with a given nucleic acid or amino acid sequence” is intended to denote a sequence which, after optimal alignment with said given sequence, comprises a percentage identity of at least 80% with said given sequence.
For the purposes of the present invention, the term “percentage identity” between two nucleic acid or amino
—- 7 = acid sequences is intended to denote the percentage of nucleotides ox of amino acid residues which are identical between the two sequences to be compared, cbtained after the best alignment, this percentage being purely statistical and the differences between the two sequences being distributed randomly and over their entire length. Sequence comparisons between two nucleic acid or amino acid sequences are conventionally carried out by comparing these sequences after having aligned them optimally, said comparison being carried out by segment or by “window of comparison” in order to identify and compare local regions of sequence similarity. The optimal alignment of the sequences for comparison may be produced, other than manually, by means of the local homology algorithm of Smith and
Waterman (1981) [Ad. App. Math. 2:482], by means of the local homology algorithm of Neddleman and Wunsch (1970) [J. Mol. Biol. 48:443], by means of the similarity search method of Pearson and Lipman (1988) ([Proc. Natl.
Acad. Sci. USA 85:2444), by means of computer software which uses these algorithms (GAP, BESTFIT, FASTA and
TFASTA in the Wisconsin Genetics Software Package,
Genetics Computer Group, 575 Science Dr., Madison, WI, or with BLAST N or BLAST P comparison software).
The percentage identity between two nucleic acid or amino acid sequences 1s determined by comparing these two sequences which are optimally aligned by the window of comparison in which the region of the nucleic acid or amino acid sequence to be compared may comprise additions or deletions with respect to the reference sequence for optimal alignment between these two sequences. The percentage identity 1s calculated by determining the number of identical positions for which the nucleotide or the amino acid residue is identical between the two sequences, dividing this number of identical positions by the total number of positions in the window of comparison and multiplying the result
, . obtained by 100 in order to obtain the percentage identity between these two sequences.
Use may, for example, be made of the BLAST program “BLAST 2 sequences”, which is available on the site http://www.ncbi.nlm.nih.gov/gorf/bl2.html, the parameters used being those given by default (in particular for the “open gap penalty” parameter: 5, and the “extension gap penalty” parameter: 2; the matrix chosen being, for example, the “BLOSUM 62” matrix provided by the program), the percentage identity between the two sequences to be compared being calculated directly by the program.
Among said sequences having at least 80% homology with the reference OmpA sequence, preference is given to the sequences of, or encoding, peptides capable of inducing
CTL activity directed specifically against the antigen or hapten which is associated with it, such as the CTL activity measured using the standard techniques described in the examples hereinafter.
The invention alsc comprises the use as claimed in the invention, characterized in that said antigen or hapten is chosen from proteins, lipopeptides, polysaccharides, oligosaccharides, nucleic acids, lipids or any compound capable of specifically directing the CTL response against said infectious antigen or said tumor cell.
A subject of the present invention is also the use as claimed in the invention, characterized in that said antigen or hapten is coupled to or mixed with said OmpA protein or a fragment thereof.
The invention also comprises the use as claimed in the invention, characterized in that said antigen or hapten is coupled by covalent attachment, in particular by chemical coupling, with said OmpA protein or a fragment thereof.
. ‘
In a particular embodiment, the use as claimed in the invention is characterized in that one or more attachment elements is(are) introduced into said OmpA protein, or a fragment thereof, and/or into said antigen or hapten, in order to facilitate the chemical coupling; preferably, said attachment element introduced is an amino acid.
As claimed in the invention, it is ©possible to introduce one or more attachment elements, in particular amino acids, in order to facilitate the coupling reactions between the OmpA protein, or a fragment thereof, and said antigen or hapten. The covalent coupling between the OmpA protein, or a fragment thereof, and said antigen or hapten as claimed in the invention may be carried out at the N- or
C-terminal end of the OmpA protein or a fragment thereof. The difunctional reagents which enable this coupling will be determined as a function of the end of the OmpA protein, or a fragment thereof, which is chosen for carrying out the coupling, and of the nature of said antigen or hapten to be coupled.
In another particular embodiment, the use as claimed in the invention is characterized in that the coupling between said antigen or hapten and said OmpA protein, or a fragment thereof, is produced by genetic recombination, when said antigen or hapten is peptide in nature.
The conjugates derived from coupling to said OmpA protein, or a fragment thereof, may be prepared by genetic recombination. The chimeric or hybrid protein (conjugate) may be produced using recombinant DNA techniques, by inserting or adding a sequence encoding said antigen or hapten which is peptide in nature into the DNA sequence encoding said OmpA protein or a fragment thereof.
. ‘
The methods for synthesizing the hybrid molecules encompass the methods used in genetic engineering for constructing hybrid polynucleotides encoding desired polypeptide sequences. Advantageously, reference may, for example, be made to the technique for obtaining genes encoding fusion proteins, described by
D.V. Goeddel (Gene expression technology, Methods in
Enzymology, Vol. 185, 3-187, 1990).
In another aspect, the invention relates to the use as claimed in the invention, characterized in that the pharmaceutical composition comprises a nucleic acid construct encoding said hybrid protein, or comprises a vector containing a nucleic acid construct encoding said hybrid protein or a transformed host cell containing said nucleic acid construct, which is capable of expressing said hybrid protein.
The invention also comprises the use as claimed in the invention, for preparing a pharmaceutical composition intended to eliminate infectious agents or inhibit tumor growth.
Preferably, the use as claimed in the invention relates to the preparation of a pharmaceutical composition intended to prevent or treat infectious diseases or cancers, preferably cancers associated with a tumor antigen.
Among cancers in which the tumors express an associated tumor antigen, and which may be prevented or treated with the uses as claimed in the present invention, mention may be made, in particular, but without being limited thereto, of: e breast cancer, lung cancer, colon cancer and gastric carcinoma (Kawashima et al., 1999, Cancer Res. 59:431-5);
®* mesothelioma, osteosarcoma, brain cancers (Xie et al., 1999, J. Natl. Cancer. Inst. 91:169-75); * melanoma (Zheuten et al., 1998, Bratilsl. Lek. Listy 99:426-34) ; ®¢ cystic adinoma of the pancreas (Hammel et al., 1998,
Eur. J. gastroenterol. Hepatol. 10:345-8); ® colorectal cancer (Ogura et al., 1998, Anticancer
Res. 18:3669~75); * renal cell carcinoma (Jantzer et al., 1998, Cancer
Res. 58:3078-86); and ® cancer of the ovary and of the cervix (Sonoda et al., 1996, Cancer. 77:1501-9).
A subject of the invention is in particular the use of an enterobacterium OmpA protein, or of a fragment thereof, as claimed in the invention, for preparing a pharmaceutical immunization composition intended to prevent or treat an infectious disease, in particular of viral, bacterial, fungal or parasitic origin, or a cancer, preferably associated with a tumor antigen, in particular melanomas.
The invention also comprises the use as claimed in the invention, characterized in that said pharmaceutical composition is vehicled in a form which makes it possible to improve its stability and/or its immunogenicity, in particular in the form of a liposome.
Preferably, the invention comprises the use as claimed in the invention, characterized in that said vehicle is a viral vector containing a nucleic acid construct encoding said OmpA protein or a fragment thereof, said antigen or hapten, or said hybrid protein, or a transformed host cell capable of expressing said OmpA protein or a fragment thereof, said antigen or hapten, or said hybrid protein.
The invention also comprises the use as claimed in the invention, characterized in that said nucleic acid construct, or the nucleic acid construct contained in said vector or said transformed host cell, comprises a nucleic acid sequence chosen from the sequence SEQ ID
No. 1, a fragment thereof having at least 15 consecutive nucleotides, preferably 30 consecutive nucleotides, of the sequence SEQ ID No. 1, or a sequence having at least 80% homology, after optimal alignment, with one of said sequences.
Preferably, a subject of the present invention is the use of an enterobacterium OmpA protein, or of a fragment thereof, associated with an antigen or a hapten, for preparing a pharmaceutical composition intended to generate a cytotoxic T response directed against a tumor cell, as claimed in the present invention, characterized in that said antigen or hapten is the peptide of sequence SEQ ID No. 3: ELAGIGILTV and in that the cytotoxic T response is directed against melanoma cells.
Also preferably, a subject of the present invention is the use of an enterobacterium OmpA protein, or a fragment thereof, associated with the peptide of sequence ELAGIGILTV, as claimed in the present invention, for preparing a pharmaceutical composition intended to treat or prevent malignant melanomas.
In another aspect, a subject of the invention is a pharmaceutical composition as defined above, in particular: - a pharmaceutical composition, characterized in that it comprises an enterobacterium OmpA protein, or a fragment thereof, associated, by mixing or by covalent coupling, with the peptide of sequence ELAGIGILTV; or - a pharmaceutical composition, characterized in that it comprises a nucleic acid construct containing a nucleic acid encoding an enterobacterium OmpA protein, or a fragment thereof, and a nucleic acid encoding the peptide of sequence ELAGIGILTV.
As defined above for the use as claimed in the invention, said pharmaceutical composition as claimed in the invention may, for example, comprise an enterobacterium OmpA protein, or a fragment thereof, coupled, by covalent attachment, to the peptide of sequence ELAGIGILTV by chemical synthesis, using recombinant CmpA or OmpA obtained via an extraction method, or coupled by genetic recombination.
As also defined above for the use as claimed in the invention, said pharmaceutical composition as claimed in the invention may, for example, comprise a vector comprising a nucleic acid «construct containing a nucleic acid encoding an enterobacterium OmpA protein, or a fragment thereof, and/or a nucleic acid encoding the peptide of sequence ELAGIGILTV, or alternatively a transformed cell capable of expressing an enterobacterium OmpA protein, or a fragment thereof, and/or the peptide of sequence ELAGIGILTV.
A subject of the invention is also a pharmaceutical composition, characterized in that it comprises the
Klebsiella pneumoniae OmpA protein of sequence SEQ ID
No. 2, a protein, the sequence of which has at least 80% homology, after optimal alignment, with the sequence SEQ ID No. 2, or a fragment of at least 5 amino acids of said OmpA protein of sequence SEQ ID
No. 2, associated, by mixing or by coupling, with the peptide of sequence ELAGIGILTV.
A subject of the present invention is also a pharmaceutical composition, characterized in that it comprises a nucleic acid construct containing a nucleic acid encoding the Klebsiella pneumoniae OmpA protein of sequence SEQ ID No. 2, a protein, the sequence of which has at least 80% homology, after optimal alignment, with the sequence SEQ ID No. 2, or a fragment of at least 5 amino acids of said OmpA protein of sequence
SEQ ID No. 2, and a nucleic acid encoding the peptide of sequence ELAGIGILTV.
According to the present invention, said compositions will be vehicled in a form which makes it possible to improve its stability and/or its immunogenicity, such as in the form of a liposome, or of a viral vector or of a transformed host cell capable of expressing said
OmpA protein, or a fragment thereof, and said peptide of sequence ELAGIGILTV.
According to the present invention, said compositions will preferably be contained in a pharmaceutically acceptable medium.
For the purposes of the present invention, the pharmaceutically acceptable medium is the medium in which the compounds of the invention are administered, preferably a medium which can be injected into humans.
It may consist of water, of an aqueous saline solution or of an aqueous solution based on dextrose and/or on glycerol.
According to the present invention, said compositions may also contain a detergent.
The compositions as claimed in the invention may also contain a detergent, and in particular any type of pharmaceutically acceptable surfactant, such as for example anionic, cationic, nonionic or amphoteric surfactants. Use is preferably made of the detergents
Zwittergent 3-12 and octylglucopyrannoside, and even more preferably Zwittergent 3-14. ad
—_ 1 5 —_
The invention also comprises the compositions as claimed in the invention, characterized in that they contain no other adjuvant for inducing a CTL response.
Preferably, said pharmaceutical composition as claimed in the invention contains no adjuvant of immunity, besides the enterobacterium OmpA protein, or a fragment thereof, or a nucleic acid encoding the enterobacterium
OmpA protein, or a fragment thereof, characteristic of the pharmaceutical compositions of the invention.
The legends to the figures and examples which follow are intended to illustrate the invention without in any way limiting the scope thereof.
Legends to the figures:
Figures 1A, 1B, 1C and 1D: Measurement of the anti-
MELAN-A and anti-TRP-2 CTL activity of effector cells
After immunization with 50 pg of hELA mixed with 3 pg of rpP40 (figure 1A), 50 pg of hELA mixed with 300 pg of rP40 (figure 1B), 50 pg of hELA coupled to rP40 (figure 1C) or 50 pg of the TRP-2 peptide mixed with 300 pg of rP40 (figure 1D), the draining lymph mode cells are stimulated with EL-4 A2/Kb cells (figures 1A, 1B and 1C) or EL-4 cells (figure 1D) which had been irradiated and prepulsed with 1 uM of the relevant peptide, before being evaluated for their capacity to kill target cells which may (rectangle) or may not (diamond) have been prepulsed with the relevant peptide.
The X-axes of the points of figures 1A to 1D correspond to the ratio of the effector T cells (active lymphocytes) mixed together with the target cells (EL-4
A2/Kb or EL-4).
Figures 2A, 2B, 2C and 2D: Measurement of the anti-
MELAN-A CTL activity of effector cells in the presence of the rP40 protein compared to the CTL activity obtained with standard immunization protocol.
After immunization with hELA (50 pg) alone (ELA, figure 2A), hELA mixed with 300 ug of rP40 (ELA + P40, figure 2B), hELA coupled to 300 pg of rP40 (ELA/P40, figure 2C) or hELA mixed with 50 pg of P30 peptide adjuvanted with IFA (ELA + IFA + TT, figure 2D) (IFA for Incomplete Freund’s Adjuvant and TT for Tetanus
Toxcid), the draining lymph node cells are stimulated in vitro for two weeks with EL-4 A2/Kb cells which have been irradiated and prepulsed with 1 uM of the relevant peptide, before being evaluated for their capacity to kill EL-4 A2/Kb target cells which may (rectangle) or may not (diamond) have been prepulsed with the hELA peptide.
Example 1: Cloning of the gene encoding the Klebsiella pneumoniae P40 protein
The gene encoding the P40 protein was obtained by PCR amplification using the genomic DNA of Klebsiella pneumoniae IP 1145 (Nguyen et col., Gene, 1998). The gene fragment encoding this gene 1s inserted into various expression vectors under the control of various promoters, in particular that of the Trp operon. The nucleotide sequence and the peptide sequence of the P40 protein are represented by the sequences SEQ ID No. 1 and SEQ ID No. 2 hereinafter. An FE. coli K12 producer strain was transformed with a pvalP40 expression vector. The recombinant P40 protein (named rP40) is produced, in the form of inclusion bodies, with a considerable yield (> 10% in g of proteins/g of dry biomass) .
This example is merely an illustration of the expression of the rP40 protein, this illustration possible being extended to other bacterial strains and to other expression vectors. ei
Example 2: Method for fermentation of rP40 fusion proteins
An Erlenmeyer flask containing 250 ml of TSB (Tryptic
Soy Broth, Difco) medium containing ampicilline (100 pg/ml, Sigma) and tetracyclin (8 pg/ml, Sigma) is inoculated with the transformed E. coli strain described above. After overnight incubation at 37°C, 200 ml of this culture are used to seed 2 liters of culture medium in a fermenter (Biolaffite, France). In a quite conventional way, the culture medium may be composed of chemical agents supplemented with vitamins and/or yeast extracts, which are known to promote high density bacterial cell growth.
The parameters controlled during the fermentation are: pH, stirring, temperature, level of oxygenation and supply of combined sources (glycerol or glucose). In general, the pH is regulated at 7.0 and the temperature is fixed at 37°C. The growth is controlled by supplying glycerol (87%) at a constant rate (12 ml/h) in order to maintain the dissolved oxygen tension signal at 30%.
When the turbidity of the culture (measured at 580 nm) reaches the value of 80 (after culturing for approximately 24 hours), the protein production is treated by adding indole acrylic acid (IAA) at the final concentration of 25 mg/l. Approximately 4 hours after induction, the cells are harvested by centrifugation. The amount of wet biomass obtained is approximately 200 g.
Example 3: Method for extracting and purifying the rP40 protein
Extracting the rP40
After centrifugation of the culture broth (4000 rpm, 10 min, 4°C), the cells are resuspended in a 25 mM
Tris-HCl buffer, pH 8.5. The insoluble components, or inclusion bodies, are obtained after treatment with arid
~ 18 - lysozyme (0.5 g/liter, 1 hour at room temperature with gentle stirring). The inclusion body pellet obtained by centrifugation (15 min at 10,000 g at 4°C) is taken up in a 25 mM Tris-HCl buffer at pH 8.5 containing 5 mM
MgCl, and then centrifuged (15 min at 10,000 gq).
The inclusion bodies are solubilized at 37°C for 2 hours in a 25 mM Tris-HCl buffer, pH 8.5, containing 7 M urea (denaturing agent) and 10 mM of dithiothreitol (reduction of disulfide bridges). Centrifugation (15 min at 10,000 g) makes it possible to eliminate the insoluble particles.
This is then followed by resuspension in 13 volumes of 25 mM Tris-HCl buffer, pH 8.5, containing NaCl (8.76 g/l) and Zwittergent 3-14 (0.1%, w/v). The solution is left overnight at room temperature with gentle stirring in contact with the air (to promote renaturation of the protein by dilution and reoxidation of the disulfide bridges).
Purifying the rP40 protein - Anion exchange chromatography step
After a further centrifugation, the solution is dialyzed against a 25 mM Tris-HCl buffer, pH 8.5, containing 0.1% Zwittergent 3-14 (100 volumes of buffer) overnight at 4°C.
The dialyzate is loaded on to a column containing a support of the strong anion exchanger type (Biorad
Macro Prop High Q gel) equilibrated in the buffer described above, at a linear flow rate of 15 cm/h. The proteins are detected at 280 nm. The rP40 protein is eluted, with a linear flow rate of 60 cm/h, for an NaCl concentration of 0.2 M in the 25 mM Tris-HCl buffer, pH 8.5: 0.1% Zwittergent 3-14.
- Cation exchange chromatography step
The fractions containing the rP40 protein are pooled and concentrated by ultrafiltration with the aid of an
Amicon cell system with stirring, used with a YM10-type
Diaflo membrane (10 kDa cut-off threshold), for volumes of about 100 ml, or with the aid of a Millipore Minitan tangential flow filtration system, used with membrane plates having a 10 kDa cut-off threshold, for larger volumes. The fraction thus concentrated is dialyzed overnight at 4°C against a 20 mM citrate buffer, pH 3.0, containing 0.1% of Zwittergent 3-14.
The dialyzate is loaded on to a column containing a support of the strong cation exchanger type (Biorad
Macro Prep High S gel) equilibrated in the 20 mM citrate buffer, pH 3.0, containing 0.1% of Zwittergent 3-14. The rP40 protein is eluted (rate 61 cm/h) for a 0.7 M NaCl concentration. The electrophoretic profiles show about a 95% degree of purity. The condition of the protein is monitored by SDS-PAGE. The P40 protein, extracted from the Klebsiella pneumoniae membrane, has a characteristic electrophoretic (migration) behavior depending on whether it is in denatured or native form.
The native form (P-sheet structure) in fact has a lower molecular mass than the form which is denatured (a- helical structure) by the action of a denaturing agent, such as urea or guanidine hydrochloride, or by heating at 100°C in the presence of SDS. The rP40 protein is not properly renatured at the end of renaturation, regardless of whether the latter is carried out in the presence or absence of 0.1% (w/v) Zwittergent 3-14. On the other hand, total renaturation is obtained after dialysis against a 25 mM Tris/HCl buffer, pH 8.5, containing 0.1% (w/v) Zwittergent 3-14. However, it should be noted that this renaturation is only obtained when the dilution step and treatment at room temperature are, themselves, carried out in the
- 20 ~- presence of Zwittergent 3-14 (negative results in the absence of detergent).
Example 4: Generation of CTLs
The antitumor CTL responses directed against melanoma cells were defined for several antigens. These antigens are included in one of three categories: a) rejection antigen specific for melanoma, such as those of the MAGE family (review by van der Bruggen et al., Science 254:1643); b) antigens resulting from the mutation of normal proteins. This group includes MUM-1 (Coulie et al.,
Proc. Natl. Acad. Sci. USA 82:7976-7980 (1995)); CDK4 (Wolfel et al., Science 296:1281-1284 (1995)) and HLA-
A2 (Brandel et al., J. Exp. Med. 183:2501-2508 (1996));
Cc) differentiation antigens expressed by melanomas and melanocytes. This group includes tyrosinase (Wolfel et al., Eur. J. Immunol. 4:759 (1994) and Brichard et al., Bur. J. Immunol. 26:224 (1996)); gp 100 (Kang et al., J. Immunol. 155:1343 (1995), Cox et al., Science 264:716 (1994), and Kawakami et al., J. Immunol. 155:3961 (1995)); gp75 (Wang et al., J. Exp. Med. 183:1131 (1996)), and Mart-1/MelanA (see US patent 5,620,886).
Of all these antigens, Mart-1/MelanA appears to be the best candidate for use in immunotherapy, this being for several reasons. Firstly, this antigen was identified on the basis of the CTL response, in vivo, of the lymphocytes infiltrating the melanoma and not that, in vitro, of the peripheral blood cells, which would suggest greater relevance of this antigen in the natural response, in vivo, against melanoma (Kawakami et al., J. Exp. Med. 180:347 (1994)). In addition,
Mart-1/MelanA is expressed on all melanomas examined, which makes it a preferred target for intervention by immunotherapy. Finally, peptides derived from id
Mart-1/MelanA are capable of inducing a specific CTL response 1n patients with melanoma expressing the
HLA-A2 histocompatibility antigen (Rivoltini et al., J.
Immunol. 154:2257 (1995); Valmori et al., J. Immunol. 160:1750 (1998)).
HLA-A2 is the most common allele expressed in
Caucasians. The CTL epitopes of Mart-1/MelanA have been defined for this allele. The antigenic peptide recognized by the majority of human CTL lines comprises amino acids 27-35 AAGIGILTV (Kawakami et al., J. Exp.
Med. 180:347 (1994)). In addition, studies on the affinity of binding with HLA-A*0201 and recognition by
CTL clones have demonstrated that the optimum peptide for these two functions is the 26-35 decapeptide
EAAGIGILTV (Romero et al., J. Immunol. 159:2366 (1997)). However, it appears that these peptides are weakly immunogenic in vitro (Valmori et al., J.
Immunol. 160:1750 (1998)) and in vivo (Jaeger et al.,
Int. J. Cancer 66:162 (1996}).
When comparing the amino acid sequence of the T epitopes of Mart-1/MelanA with the peptide motifs of
A*0201 (Rammensee et al., Immunogenetics 41:178 (1995)), it appears that the 26-35 and 27-35 peptides have nondominant anchoring residues at position 2 and therefore weakly bind the HLA-A*0201 molecule (Kawakami et al., J. Immunol. 154:3961 (1995)), which might explain their weak immunogenicity. The international patent application published under the number
WO 98/58951 describes an analog to the 26-35 peptide, in which the alanine at position 2 has been replaced with a leucine (sequence which will be named ELA).
The hELA peptide, used in the experiments below, is the subject of patent application WO 98/58951 which is the property of the Institut Ludwig de Recherche sur le
Cancer [Ludwig Cancer Research Institute}. hELA is an analog of the 26-35 decapeptide (EAAGIGILTV) of
Melan-A/MART-1, which is a protein expressed on melanocytes and melanomas. Although the 26-35 decapeptide of Melan-A/MART-1 is capable of binding to the HLA-A0201 molecule (Romero et al., 1997, J.
Immunol. 159, 2366-2374), it is weakly immunogenic in vitro and in vivo (Valmori et al., 1998, J. Immunol. 160, 1750-1758). The hELA analog was generated by substituting the second amino acid of the 26-35 decapeptide of Melan-A/MART-1 (an alanine) with a leucine. The result of this substitution, which is based on analysis of the residues required for anchoring the peptides to the HLA-A0201 molecule, is more effective recognition by the CTLs of patients with melanoma and better immunogenicity in vitro (Valmori et al., 1998, J. Immunol. 160, 1750-1758).
HLA-A*0201/Kb (A2/Kb) transgenic mice of the strain
CS7B1/6 x BDA/2 (Vitiello et al., 1991, J. Exp. Med., 173, 1007-1015) were used in this study to test ELA.
The class I MHC molecule expressed in these mice is a chimeric molecule made from the al and a2 domains of the human HLA-A0201 molecule (the most common allotype found) and from the a3 domain of the murine K® molecule.
The TRP-2 peptide of sequence SEQ ID No. 4 is an octapeptide corresponding to amino acids 181-188 (VYDFFVWL) of tyrosinase-related protein 2 (TRP-2).
TRP-2 is expressed in melanocytes and melanomas. It has been demonstrated that this antigen induces CTL responses which protect against melanoma in C57BL/6 (H-2K°) mice (Bloom et al., 1997, J. Exp. Med. 185, 453-459) .
A: Generation of anti-Melan-A and anti-TRP-2 CTLs after immunization with rP40 mixed with a peptide which is an analog to Melan-A or TRP-2
Experimental protocol yr
A2/Kb mice received, by subcutaneous injection at the base of the tail: - 50 pg of ELA mixed with 3 or 300 pg of rP40; ~ 50 pg of ELA covalently coupled to 300 pg of rP40.
C57BL/6 mice received, by subcutaneous injection into the base of the tail: - 50 pg of the TRP-2 peptide (181-188) mixed with 300 pg of rP4o0.
Generation of cytotoxic effector cells 10 days after immunization, the mice are sacrificed and the lymphocytes from the draining lymph nodes are recovered in order to be stimulated, in vitro, with the relevant peptide.
These lymphocytes (4 to 5 Xx 10°) are cultured in a 24 well plate in DMEM plus 10 mM HEPES, 10% FCS and 50 uM B-2-mercaptoethanol, with 2 to 5 x 10° EL-4 A2/Kb cells or ELA4 cells which have been irradiated (10 kRads) and prepulsed for 1 h at 37°C with 1 uM of the relevant peptide. After two weekly stimulations, the cells are assayed for their cytotoxic activity.
Measurement of cytotoxic activity
The EL-4 A2/Kb cells or EL4 cells are incubated for 1 h with °Cr in the presence or absence of the relevant peptide, washed and then coincubated with the effector cells at various ratios, in a 96-well plate in a volume of 200 pl for 4 to 6 h at 37°C. The cells are then centrifuged and the °!Cr release is measured in 100 ul of supernatant. The percentage of specific lysis is calculated as follows: % specific lysis = (experimental release — spontaneous release) / (total release - spontaneous release) X 100.
Results
As shown in figures 1A to 1D, the immunization of mice with an optimal dose of rP40 (300 pg) in a mixture with hELA (figure 1B) or TRP-2 (figure 1D) induces a strong specific CTL response. Such a response is also observed after immunization with rP40 coupled to hELA (figure 1C). On the other hand, the immunization with the peptide alone or rP40 alone (results not shown) or with the hELA peptide in a mixture with a suboptimal dose of rP40 (3 pg) does not induce any CTL activity (figure 1A). These results demonstrate that the rP40 molecule mixed with or coupled to immunogenic peptides makes it possible to induce a specific CTL response in vivo, this being without the addition of adjuvant.
B: Generation of anti-Melan-A CTLs after immunization with rP40 mixed with a peptide which is an analog to
Melan-A, compared to a standard immunization protocol
Experimental protocol
A2/Kb mice received: = 50 pl of IFA (incomplete Freud’s adjuvant) by subcutaneous injection at the base of the tail, then, 3 weeks later, 50 pg of hELA in the presence of 50 pg of a helper-T p30 peptide derived from Tetanus Toxoid (TT) (Panina-Bordignon et al., Eur. J. Immunol., 1989, 19, 2237) adjuvanted with IFA. This protocol has been described for generating anti-peptide CTLs (Valmori et al., Eur. J. Immunol., 1994, 24, 1458) and is used as a positive control. - 50 pg of hELA alone or 300 pg of rP40 mixed with or coupled to 50 pg of hELA.
Generation of cytotoxic effector cells 10 days after the final immunization, the mice are sacrificed and the lymphocytes from the draining lymph nodes are recovered in order to be stimulated, in vitro, with the relevant peptide.
These lymphocytes (4 to 5 x 10%) are cultured in a 24-well plate in DMEM plus 10 mM HEPES, 10% FCS and 50 uM B-2-mercaptoethanol, with 2 to 5 x 10° EL-4 A2/Kb cells (murine cells transfected with the HLA-A* 0201/Kb gene) which have been irradiated {10 kRads) and prepulsed for 1 h at 37°C with 1 uM of the relevant peptide.
After one, two or three weekly stimulations, the cells are assayed for their cytotoxic activity.
The cytotoxic activity is measured according to the method described above.
Results
After immunization with nonadjuvanted rP40C coupled to hELA, an anti-hkELA CTL activity comparable to that observed after immunization with hELA + P30/IFA is measured (cf. figures 2C and 2D). Similarly, the rP40 + hELA peptide mixture, itself also nonadjuvanted, generates CTLs in a way which 1s similar to that obtained with a conventional protocol for generating
CTLs (cf. figures 2B and 2D).
No CTL activity was detected after immunization with the peptide alone (cf. figure 2A) or the rP40 protein alone (not shown), regardless of the day on which the effector cells were stimulated.

Claims (24)

1. The use of an enterobacterium OmpA protein, or of a fragment thereof, associated with the peptide of sequence SEQ ID No. 3 ELAGIGILTV, for preparing a pharmaceutical composition intended to generate a cytotoxic T response directed against melanoma cells.
2. The use of an enterobacterium OmpA protein, or of a fragment thereof, associated with the peptide of sequence SEQ ID No. 3, as claimed in claim 1, for preparing a pharmaceutical composition intended for treating or preventing malignant melanomas.
3. The use as claimed in claim 1 or 2, characterized in that said enterobacterium OmpA protein, or a fragment thereof, is obtained using a method of extraction from a culture of said enterobacterium.
4. The use as claimed in claim 1 or 2, characterized in that said enterobacterium OmpA protein, or a fragment thereof, is obtained via the recombinant route.
5. The use as claimed in one of claims 1 to 4, characterized in that said enterobacterium is Klebsiella pneumoniae.
6. The use as claimed in claim 5, characterized in that the amino acid sequence of said OmpA protein, or a fragment thereof, comprises: a) the amino acid sequence of sequence SEQ ID
No. 2; b) the amino acid sequence of a sequence having at least 80% homology with the sequence SEQ ID No. 2; or
¢) the amino acid sequence of a fragment of at least 5 amino acids of a sequence as defined in aj.
7. The use as claimed in one of claims 1 to 6, characterized in that said peptide of sequence SEQ ID No. 3 is coupled to or mixed with said OmpA protein or a fragment thereof.
8. The use as claimed in claim 6, characterized in that said peptide of sequence SEQ ID No. 3 is coupled, by covalent attachment, with said Ompa protein or a fragment thereof.
9. The use as claimed in claim 8, characterized in that the coupling by covalent attachment is coupling produced by chemical synthesis.
10. The use as claimed in claim 9, characterized in that one or more attachment elements is(are) introduced into said OmpA protein, or a fragment thereof, and/or into said peptide of sequence SEQ ID No. 3, in order to facilitate the chemical coupling.
11. The use as claimed in claim 10, characterized in that said attachment element introduced is an amino acid.
12. The use as claimed in claim 8, characterized in that the hybrid protein resulting from the coupling between said peptide of sequence SEQ ID
No. 3 and said OmpA protein, or a fragment thereof, is obtained by genetic recombination.
13. The use as claimed in claim 12, characterized in that the pharmaceutical composition comprises a nucleic acid construct encoding said hybrid protein.
14. The use as claimed in claim 13, characterized in that said nucleic acid construct is contained in a vector, or in a transformed host cell capable of expressing said hybrid protein.
15. The use as claimed in one of claims 1 to 14, for preparing a pharmaceutical composition which can be administered by the subcutaneous or intradermal route.
16. The use as claimed in one of claims 1 to 15, characterized in that said pharmaceutical composition is vehicled in a form which makes it possible to improve its stability and/or its immunogenicity.
17. A pharmaceutical composition as defined in any one of claims 1 to 16.
18. The pharmaceutical composition as claimed in claim 17, characterized in that it comprises the Klebsiella pneumoniae OmpA protein of sequence SEQ ID No. 2, a protein, the sequence of which has at least 80% homology with the sequence SEQ ID No. 2, or a fragment of at least 5 amino acids of said OmpA protein of sequence SEQ ID No. 2, associated, by mixing or by coupling, with the peptide of sequence SEQ ID No. 3.
19. A pharmaceutical composition, characterized in that it comprises a nucleic acid construct containing a nucleic acid encoding the Klebsiella pneumoniae OmpA protein of sequence SEQ ID No. 2, a protein, the sequence of which has at least 80% homology with sequence SEQ ID No. 2, or a fragment of at least 5 amino acids of said OmpA protein of sequence SEQ ID No. 2, and a nucleic acid encoding the peptide of sequence SEQ ID No. 3.
20. The composition as claimed in one of claims 17 to 19, characterized in that said pharmaceutical composition is wvehicled in a form which makes it possible to improve its stability and/or its immunogenicity.
21. The composition as claimed in claim 20, characterized in that said vehicle is a liposome, or a viral vector or a transformed host cell capable of expressing said OmpA protein, or a fragment thereof, and said peptide of sequence SEQ ID No. 3.
22. The composition as claimed in one of claims 17 to 21, characterized in that said composition is contained in a pharmaceutically acceptable medium.
23. The composition as claimed in one of claims 17 to 22, characterized in that said composition also contains a detergent.
24. The composition as claimed in one of claims 17 to 23, without any other adjuvant for inducing a CTL response.
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