NOVEL FabD

Abstract: The invention provides FabD polypeptides and polynucleotides encoding FabD polypeptides and methods for producing such polypeptides by recombinant techniques. Also provided are methods for utilizing FabD polypeptides to screen for antibacterial compounds.

Description: Novel FabD FIELD OF THE INVENTION This invention relates to newly identified polynucleotides and polypeptides, and their production and uses, as well as their variants, agonists and antagonists, and their uses. In particular, the invention relates to novel polynucleotides and polypeptides of the malonyl- CoA:ACP family, hereinafter referred to as "FabD". BACKGROUND OF THE INVENTION The Streptococci make up a medically important genera of microbes known to cause several types of disease in humans, including, for example, otitis media, conjunctivitis, pneumonia, bacteremia, meningitis, sinusitis, pleural empyema and endocarditis, and most particularly meningitis, such as for example infection of cerebrospinal fluid. Since its isolation more than 100 years ago, Streptococcus pneumoniae has been one of the more intensively studied microbes. For example, much of our early understanding that DNA is, in fact, the genetic material was predicated on the work of Griffith and of Avery, Macleod and McCarty using this microbe. Despite the vast amount of research with S. pneumoniae, many questions concerning the virulence of this microbe remain. It is particularly preferred to employ Streptococcal genes and gene products as targets for the development of antibiotics. The frequency of Streptococcus pneumoniae infections has risen dramatically in the past few decades. This has been attributed to the emergence of multiply antibiotic resistant strains and an increasing population of people with weakened immune systems. It is no longer uncommon to isolate Streptococcus pneumoniae strains which are resistant to some or all of the standard antibiotics. This phenomenon has created a demand for both new antimicrobial agents, vaccines, and diagnostic tests for this organism. The pathway for the biosynthesis of saturated fatty acids is very similar in prokaryotes and eukaryotes. However, whilst the chemical reactions may not vary, the organisation of the biosynthetic apparatus is very different. Vertebrates and yeasts possess type I fatty acid synthases (FASs) in which all of the enzymatic activities are encoded on one or two polypeptide chains, respectively. The acyl carrier protein (ACP) is an integral part of the complex. In contrast, in most bacterial and plant FASs (type II) each of the reactions are catalysed by distinct monofunctional enzymes and the ACP is a discrete protein. Mycobacteria are unique in that they possess both type I and II FASs; the former is involved in basic fatty acid biosynthesis whereas the latter is involved in synthesis of complex cell envelope lipids such as mycolic acids. There therefore appears to be considerable potential for selective inhibition of the bacterial systems by broad spectrum antibacterial agents (Rock, C. & Cronan, J. 1996. Biochimica et Biophysica Acta 1302, 1- 16; Jackowski. S. 1992. In Emerging Targets in Antibacterial and Antifungal Chemotherapy. Ed. J. Sutcliffe & N. Georgopapadakou. Chapman & Hall, New York; Jackowski, S. et al. ( 1989). J. Biol. Chem. 264, 7624-7629.) The first step in the biosynthetic cycle is the condensation of malonyl-ACP with acetyl-CoA by FabH. Prior to this, malonyl-ACP is synthesised from ACP and malonyl- CoA by FabD, malonyl CoA:ACP transacylase. In subsequent rounds malonyl-ACP is condensed with the growing-chain acyl-ACP (FabB and FabF, synthases I and II respectively). The second step in the elongation cycle is ketoester reduction by NADPH- dependent β-ketoacyl-ACP reductase (FabG). Subsequent dehydration by β-hydroxyacyl- ACP dehydrase (either FabA or FabZ) leads to trans-2-enoyl-ACP which is in turn converted to acyl-ACP by NADH-dependent enoyl-ACP reductase (FabI). Further rounds of this cycle, adding two carbon atoms per cycle, eventually lead to palmitoyl-ACP whereupon the cycle is stopped largely due to feedback inhibition of FabH and I by palmitoyl-ACP (Heath, et al, (1996), f.Biol.Chem. 271, 1833- 1836). Cerulenin and thiolactomycin are potent and selective inhibitors of bacterial fatty acid biosynthesis. Extensive work with these inhibitors in Gram-negative bacteria has proved that this biosynthetic pathway is essential for viability. Little work has been carried out in Gram-positive bacteria. No mutants totally lacking FabD activity have been described. No mammalian homologues to FabD have yet been identified. No marketed antibiotics are targeted against fatty acid biosynthesis, therefore it is unlikely that novel antibiotics would be rendered inactive by known antibiotic resistance mechanisms Clearly, there exists a need for factors, such as the FabD embodiments of the invention, that have a present benefit of being useful to screen compounds for antibiotic activity. Such factors are also useful to determine their role in pathogenesis of infection, dysfunction and disease. There is also a need for identification and characterization of such factors and their antagonists and agonists to find ways to prevent, ameliorate or correct such infection, dysfunction and disease. Certain of the polypeptides of the invention possess amino acid sequence homology to a known proteins. There is clearly an unmet need for developing new classes of antibiotic compounds. Clearly, there is a need for factors that may be used to screen compounds for antibiotic activity and which may also be used to determine their roles in pathogenesis of infection, dysfunction and disease There is a need, therefore, for identification and characterization of such factors which can play a role in preventing, ameliorating or correcting infections, dysfunctions or diseases. The polypeptide of the present invention has the conserved residues, and have amino acid sequence homology to known transacylase protein. SUMMARY OF THE INVENTION It is an object of the invention to provide polypeptides that have been identified as novel FabD polypeptides by homology between the amino acid sequence set out in Table 1 [SEQ ID NO 2 or 4] and a known amino acid sequence or sequences of other proteins such as FabD protein. It is a further object of the invention to provide polynucleotides that encode FabD polypeptides, particularly polynucleotides that encode the polypeptide herein designated FabD. In a particularly preferred embodiment of the invention the polynucleotide comprises a region encoding FabD polypeptides comprising a sequence set out in Table 1 [SEQ ID NO 1 or 3 or 5] which includes a full length gene, or a variant thereof In another particularly preferred embodiment of the invention there is a novel FabD protein from Streptococcus pneumoniae comprising the amino acid sequence of Table I [SEQ ID NO 2 or 4 or 6], or a vaπant thereof In accordance with another aspect of the invention there is provided an isolated nucleic acid molecule encoding a mature polypeptide expressible by the Streptococcus pneumoniae 0100993 strain contained in the deposited strain A further aspect of the invention there are provided isolated nucleic acid molecules encoding FabD, particularly Streptococcus pneumoniae FabD, including mRNAs, cDNAs, genomic DNAs Further embodiments of the invention include biologically, diagnostically, prophylactically, clinically or therapeutically useful vaπants thereof, and compositions composing the same. In accordance with another aspect of the invention, there is provided the use of a polynucleotide of the invention for therapeutic or prophylactic purposes, in particular genetic immunization Among the particularly preferred embodiments of the invention are naturally occurring allelic vaπants of FabD and polypeptides encoded thereby Another aspect of the invention there are provided novel polypeptides of Streptococcus pneumoniae referred to herein as FabD as well as biologically, diagnostically, prophylactically, clinically or therapeutically useful variants thereof, and compositions comprising the same. Among the particularly preferred embodiments of the invention are variants of FabD polypeptide encoded by naturally occurring alleles of the FabD gene. In a preferred embodiment of the invention there are provided methods for producing the aforementioned FabD polypeptides. In accordance with yet another aspect of the invention, there are provided inhibitors to such polypeptides, useful as antibacterial agents, including, for example, antibodies. In accordance with certain preferred embodiments of the invention, there are provided products, compositions and methods for assessing FabD expression, treating disease, assaying genetic variation, and administering a FabD polypeptide or polynucleotide to an organism to raise an immunological response against a bacteria, especially a Streptococcus pneumoniae bacteria. In accordance with certain preferred embodiments of this and other aspects of the invention there are provided polynucleotides that hybridize to FabD polynucleotide sequences, particularly under stringent conditions. In certain preferred embodiments of the invention there are provided antibodies against FabD polypeptides. In other embodiments of the invention there are provided methods for identifying compounds which bind to or otherwise interact with and inhibit or activate an activity of a polypeptide or polynucleotide of the invention comprising: contacting a polypeptide or polynucleotide of the invention with a compound to be screened under conditions to permit binding to or other interaction between the compound and the polypeptide or polynucleotide to assess the binding to or other interaction with the compound, such binding or interaction being associated with a second component capable of providing a detectable signal in response to the binding or interaction of the polypeptide or polynucleotide with the compound; and determining whether the compound binds to or otherwise interacts with and activates or inhibits an activity of the polypeptide or polynucleotide by detecting the presence or absence of a signal generated from the binding or interaction of the compound with the polypeptide or polynucleotide. In accordance with yet another aspect of the invention, there are provided FabD agonists and antagonists, preferably bacteriostatic or bacteriocidal agonists and antagonists. In a further aspect of the invention there are provided compositions comprising a FabD polynucleotide or a FabD polypeptide for administration to a cell or to a multicellular organism. Various changes and modifications within the spirit and scope of the disclosed invention will become readily apparent to those skilled in the art from reading the following descriptions and from reading the other parts of the present disclosure. DESCRIPTION OF THE INVENTION The invention relates to novel FabD polypeptides and polynucleotides as described in greater detail below. In particular, the invention relates to polypeptides and polynucleotides of a novel FabD of Streptococcus pneumoniae. which is related by amino acid sequence homology to FabD polypeptide of a different species. The invention relates especially to FabD having the nucleotide and amino acid sequences set out in Table 1 as SEQ ID NO: 1 and SEQ ID NO: 2 respectively, and to the FabD nucleotide sequences of the DNA in the deposited strain and amino acid sequences encoded thereby. TABLE 1 FabD Polynucleotide and Polypeptide Sequences (A) Sequences from Streptococcus pneumoniae FabD polynucleotide sequence [SEQ ID NO: 1 J. 5 ' -ATGACTAAAACAGCCTTTTTATTTGCTGGTCAAGGTGCCCAGTATCTAGGGATGGGACGG GATTTCTATGATCAGTATCCGATTGTCAAAGAAACGATTGATCGAGCGAGTCAGGTGCTC GGTTATGATTTACGTTATCTCATCGATACGGAAGAAGACAAACTCAATCAGACCCGCTAT ACGCAACCAGCCATTCTAGCGACTTCGGTTGCTATCTACCGTTTATTGCAAGAAAAGGGC TATCAGCCTGATATGGTTGCTGGTTTGTCTCTTGGAGAATACTCTGCCTTGGTGGCAAGC GGCGCCTTGGATTTTGAAGATGCGGTTGCCTTGGTAGCTAAGCGTGGAGCCTATATGGAA GAAGCGGCTCCTGCTGACTCTGGCAAGATGGTAGCAGTTCTCAATACGCCAGTAGAGGTC ATTGAAGAAGCCTGTCAAAAAGCTTGTGAACTTGGAGTGGTTACTCCAGCCAACTATAAC ACACCTGCACAAATCGTCATTGCTGGAGAAGTGGTTGCAGTTGATCGAGCGGTTGAACTT TTGCAAGAAGCAGGTGCCAAACGCTTGATTCCTCTTAAGGTGTCAGGTCCCTTTCACACC GCTCTCCTTGAGCCTGCTAGCCAGAAACTAGCTGAAACTCTAGCTCAGGTAAGTTTTTCA GATTTTACTTGTCCCCTAGTCGGCAATACAGAAGCTGCTGTGATGCAAAAAGAGGACATT GCTCAGCTCTTGACGCGTCAGGTCAAGGAACCCGTTCGTTTCTATGAAAGTATTGGGGTC ATGCAAGAAGCAGGCATAAGCAACTTTATCGAGATTGGACCGGGGAAAGTCTTGTCAGGT TTTGTTAAAAAAATTGATCAAACTGCTCACTTAGCTCATGTGGAAGATCAAGCGAGTTTA GTAGCACTTTTAGAAAAATAG-3 ' (B) Streptococcus pneumoniae FabD polypeptide sequence deduced from the polynucleotide sequence in this table [SEQ ID NO:2]. NH.-MTKTAFLFAGQGAQY GMGRDFYDQYPIVKETIDRASQV GYDLRYLIDTEEDKLNQTRY TQPAI ATSVAIYRLLQEKGYQPDMVAGLS GEYSALVASGALDFEDAVALVAKRGAYME EAAPADSGKlWAVLNTPVEVIEEACQKASE GVVTPAI rYNTPAQIVIAGEVVAλ/DRAVE QEAGAKR IP KVSGPFHTA LEPASQKLAET AQVSFSDFTCPLVGNTEAAVMQKEDI AQLLTRQVKEPVRFYESIGVMQEAGISNFIEIGPGKV SGFVKKIDQTAH AHVEDQASLVA LEK- COOH (C) Polynucleotide sequences comprising Streptococcus pneumoniae FabD ORF sequence [SEQ ID NO:3]. N-terminal coding region of a fabD embodiment. The open reading frame starts at nucleotide position 85. 5 ' -1 CTGAAGAAAT CCTAAAAGAT TTGTATTACG GAGCCGCTAA GAAAATTCAA 51 GAAGAAGCCT CTCGCTGGGC AGGAGTTGTA AGAAATGACT AAAACAGCCT 101 TTTTATTTGC TGGTCAAGGT GCCCAGTATC TAGGGATGGG ACGGGATTTC 151 TATGATCAGT ATCCGATTGT CAAAGAAACG ATTGATCGAG CGAGTCAGGT 201 GCTCGGTTAT GATTTACGTT ATCTCATCGA TACGGAAGAA GACAAACTCA 251 ATCAGACCCG CTATACGCAA CCAGCCATTC TAGCGACTTC GGTTGCTATC 301 TACCGTTTAT TGCAAGAAAA GGGCTATCAG CCTGATATGG TTGCTGGTTT 351 GTCTCTTGGA GAATACTCTG CCTTGGTGGC AAGCGGCGCC TTGGATTTTG 401 AAGATGCGGT TGCCTTGGTA GCTAAGCGTG GAGCCTATAT GGAAGAAGCG-3 ' (D) Polynucleotide sequences comprising Streptococcus pneumoniae FabD ORF sequence [SEQ ID NO:5]. C-terminal coding region of fabD embodiment. The open reading frame starts at nucleotide position 2. 5 ' -1 TGCTGAACTT GGCAAGATGG TAGCAGTTCT CAATACGCCA GTAGAGGTCA 51 TTGAAGAAGC CTGTCAAAAG CTTCTGGAAC TTGGAGTGGT TACTCCAGCC 101 AACTATAACA CACCTGCACA AATCGTCATT GCTGGAGAAG TGGTTGCAGT 151 TGATCGAGCG GTTGAACTTT TGCAAGAAGC AGGTGCCAAA CGCTTGATTC 201 CTCTTAAGGT GTCAGGTCCC TTTCACACCG CTCTCCTTGA GCCTGCTAGC 251 CAGAAACTAG CTGAAACTCT AGCTCAGGTA AGTTTTTCAG ATTTTACTTG 301 TCCCCTAGTC GGCAATACAG AAGCTGCTGT GATGCAAAAA GAGGACATTG 351 CTCAGCTCTT GACGCGTCAG GTCAAGGAAC CCGTTCGTTT CTATGAAAGT 401 ATTGGGGTCA TGCAAGAAGC AGGCATAAGC AACTTATTCG AGATTGGACC 451 GGGGAAAGTC TTGTCAGGTT TTGTTAAAAA AATTGATCAA ^CTGCTCACT 501 TAGCTCATGT GGAAGATCAA GCGAGTTTAG TAGCACTTTT a.GAAAAA -3 ' (E) Streptococcus pneumoniae FabD polypeptide sequence deduced from the polynucleotide ORF sequence in this table [SEQ ID NO:4] N ' -terminus of a fabD polypeptide embodiment. H 2 -1 MTKTAFLFAG QGAQYLGMGR DFYDQYPIVK ETIDRASQVL GYDLRYLIDT 51 EEDKLNQTRY TQPAILATSV AIYRL QEKG YQPDMVAGLS LGEYSA VAS 101 GALDFEDAVA VAKRGAYME EA-COOH (F) Streptococcus pneumoniae FabD polypeptide sequence deduced from the polynucleotide ORF sequence in this table [SEQ ID NO-6]. A fabD polypeptide sequence embodiment comprising a putative C-terminus. NH 2 -1 AELGKMVAV NTPVEVIEEA CQKL ELGW TPANYNTPAQ IVIAGEWAV 51 DRAVE LQEA GAKRLIPLKV SGPFHTALLE PASQKLAET AQVSFSDFTC 101 PLVGNTEAAV MQKEDIAQ L TRQVKEPVRF YESIGVMQEA GISN FEIGP 151 GKV SGFVKK IDQTAHLAHV EDQAS VA L EK-COOH ' Deposited materials A deposit containing a Streptococcus pneumoniae 0100993 strain has been deposited with the National Collections of Industπal and Maπne Bacteπa Ltd. (herein "NCIMB"), 23 St. Machar Drive, Aberdeen AB2 1RY, Scotland on 1 1 Apπl 1996 and assigned deposit number 40794 The deposit was descπbed as Streptococcus peumnoiae 0100993 on deposit. On 17 Apπl 1996 a Streptococcus peumnoiae 0100993 DNA library in E. coll was similarly depositedwith the NCIMB and assigned deposit number 40800 The Streptococcus pneumoniae strain deposit is referred to herein as "the deposited strain" or as "the DNA of the deposited strain." The deposited strain contains the full length FabD gene The sequence of the polynucleotides contained in the deposited strain, as well as the ammo acid sequence of the polypeptide encoded thereby, are controlling in the event of any conflict with any descπption of sequences herein. The deposit of the deposited strain has been made under the terms of the Budapest Treaty on the International Recognition of the Deposit of Micro-organisms for Purposes of Patent Procedure. The strain will be irrevocably and without restriction or condition released to the public upon the issuance of a patent. The deposited strain is provided merely as convenience to those of skill in the art and is not an admission that a deposit is required for enablement, such as that required under 35 U.S.C. § 1 12. A license may be required to make, use or sell the deposited strain, and compounds derived therefrom, and no such license is hereby granted. Polypeptides The polypeptides of the invention include a polypeptide of Table 1 [SEQ ID NO:2 or 4 or 6] (in particular the mature polypeptide) as well as polypeptides and fragments, particularly those which have the biological activity of FabD, and also those which have at least 70% identity to a polypeptide of Table 1 [SEQ ID NO:l or 3 or 5]or the relevant portion, preferably at least 80% identity to a polypeptide of Table 1 [SEQ ID NO:2 or 4and more preferably at least 90% similarity (more preferably at least 90% identity) to a polypeptide of Table 1 [SEQ ID NO:2 or 4 or 6] and still more preferably at least 95% similarity (still more preferably at least 95% identity) to a polypeptide of Table 1 [SEQ ID NO:2 or 4 or 6] and also include portions of such polypeptides with such portion of the polypeptide generally containing at least 30 amino acids and more preferably at least 50 amino acids. The invention also includes polypeptides of the formula: X-(R 1 ) m -(R 2 )-(R 3 ) n -Y wherein, at the amino terminus, X is hydrogen, and at the carboxyl terminus, Y is hydrogen or a metal. R j and R3 are any amino acid residue, m is an integer between 1 and 1000 or zero, n is an integer between 1 and 1000 or zero, and R 2 is an amino acid sequence of the invention, particularly an amino acid sequence selected from Table 1. In the formula above R 2 is oriented so that its amino terminal residue is at the left, bound to R\ and its carboxy terminal residue is at the right, bound to R3. Any stretch of amino acid residues denoted by either R group, where m and/or n is greater than 1, may be either a heteropolymer or a homopolymer, preferably a heteropolymer. A fragment is a variant polypeptide having an amino acid sequence that entirely is the same as part but not all of the amino acid sequence of the aforementioned polypeptides. As with FabD polypeptides fragments may be "free-standing," or comprised within a larger polypeptide of which they form a part or region, most preferably as a single continuous region, a single larger polypeptide. Preferred fragments include, for example, truncation polypeptides having a portion of an amino acid sequence of Table 1 [SEQ ID NO:2 or 4 or 6], or of variants thereof, such as a continuous series of residues that includes the amino terminus, or a continuous series of residues that includes the carboxyl terminus. Degradation forms of the polypeptides of the invention in a host cell, particularly a Streptococcus pneumoniae, are also preferred. Further preferred are fragments characterized by structural or functional attributes such as fragments that comprise alpha-helix and alpha-helix forming regions, beta-sheet and beta-sheet-forming regions, turn and turn-forming regions, coil and coil-forming regions, hydrophilic regions, hydrophobic regions, alpha amphipathic regions, beta amphipathic regions, flexible regions, surface-forming regions, substrate binding region, and high antigenic index regions. Also preferred are biologically active fragments which are those fragments that mediate activities of FabD, including those with a similar activity or an improved activity, or with a decreased undesirable activity. Also included are those fragments that are antigenic or immunogenic in an animal, especially in a human. Particularly preferred are fragments comprising receptors or domains of enzymes that confer a function essential for viability of Streptococcus pneumoniae or the ability to initiate, or maintain cause disease in an individual, particularly a human. Variants that are fragments of the polypeptides of the invention may be employed for producing the corresponding full-length polypeptide by peptide synthesis; therefore, these variants may be employed as intermediates for producing the full-length polypeptides of the invention. In addition to the standard single and triple letter representations for amino acids, the term "X" or "Xaa" may also be used in describing certain polypeptides of the invention. "X" and "Xaa" mean any of the twenty naturally occuring amino acids may appear at such a designated position in the polypeptide sequence. Polynucleotides Another aspect of the invention relates to isolated polynucleotides, including the full length gene, that encode the FabD polypeptide having a deduced amino acid sequence of Table 1 [SEQ ID NO:2 or 4 or 6] and polynucleotides closely related thereto and variants thereof. Using the information provided herein, such as a polynucleotide sequence set out in Table 1 [SEQ ID NO 1 or 3 or 5], a polynucleotide of the invention encoding FabD polypeptide may be obtained using standard cloning and screening methods, such as those for cloning and sequencing chromosomal DNA fragments from bacteπa using Streptococcus pneumoniae 0100993 cells as starting material, followed by obtaining a full length clone For example, to obtain a polynucleotide sequence of the invention, such as a sequence given in Table 1 [SEQ ID NO 1 or 3 or 5], typically a library of clones of chromosomal DNA of Streptococcus pneumoniae 0100993 in E coli or some other suitable host is probed with a radiolabeled ohgonucleotide, preferably a 17-mer or longer, derived from a partial sequence Clones carrying DNA identical to that of the probe can then be distinguished using stringent conditions By sequencing the individual clones thus identified with sequencing primers designed from the original sequence it is then possible to extend the sequence in both directions to determine the full gene sequence Conveniently, such sequencing is performed using denatured double stranded DNA prepared from a plasmid clone Suitable techniques are described by Maniatis, T , Fritsch, E F and Sambrook et al , MOLECULAR CLONING, A LABORATORY MANUAL, 2nd Ed , Cold Spπng Harbor Laboratory Press, Cold Spπng Harbor, New York (1989) (see in particular Screening By Hybridization 1 90 and Sequencing Denatured Double-Stranded DNA Templates 13 70). Illustrative of the invention, the polynucleotide set out in Table 1 [SEQ ID NO 1 or 3 or 5] was discovered in a DNA library deπved from Streptococcus pneumoniae 0100993 The DNA sequence set out in Table 1 [SEQ ID NO 1 or 3 or 5] contains an open reading frame encoding a protein having about the number of amino acid residues set forth in Table 1 [SEQ ID NO 2 or 4 or 6] with a deduced molecular weight that can be calculated using amino acid residue molecular weight values well known in the art The polynucleotide of SEQ ID NO 1, between nucleotide number 1 and the stop codon underlined in Table 1(A) [SEQ ID NO 1], encodes the polypeptide of SEQ ID NO.2. FabD of the invention is structurally related to other proteins of the malonyl- CoA ACP family, as shown by the results of sequencing the DNA encoding FabD of the deposited strain The invention provides a polynucleotide sequence identical over its entire length to a coding sequence in Table 1 [SEQ ID NO 1 or 3 or 5] Also provided by the invention is the coding sequence for the mature polypeptide or a fragment thereof, by itself as well as the coding sequence for the mature polypeptide or a fragment in reading frame with other coding sequence, such as those encoding a leader or secretory sequence, a pre-, or pro- or prepro- protein sequence. The polynucleotide may also contain non-coding sequences, including for example, but not limited to non-coding 5' and 3' sequences, such as the transcribed, non- translated sequences, termination signals, ribosome binding sites, sequences that stabilize mRNA, introns, polyadenylation signals, and additional coding sequence which encode additional amino acids. For example, a marker sequence that facilitates purification of the fused polypeptide can be encoded. In certain embodiments of the invention, the marker sequence is a hexa-histidine peptide, as provided in the pQE vector (Qiagen, Inc.) and described in Gentz et al., Proc. Natl. Acad. Sci., USA 86: 821-824 ( 1989), or an HA tag (Wilson et al., Cell 37: 767 ( 1984). Polynucleotides of the invention also include, but are not limited to, polynucleotides comprising a structural gene and its naturally associated sequences that control gene expression. A preferred embodiment of the invention is a polynucleotide of comprising nucleotide 1 to the nucleotide immediately upstream of the stop codon set forth in SEQ ID NO: 1 of Table 1, both of which encode the FabD polypeptide. The invention also includes polynucleotides of the formula: X-(R 1 ) m -(R 2 )-(R 3 )n-Y wherein, at the 5' end of the molecule, X is hydrogen, and at the 3' end of the molecule, Y is hydrogen or a metal, R j and R3 is any nucleic acid residue, m is an integer between 1 and 3000 or zero , n is an integer between 1 and 3000 or zero, and R is a nucleic acid sequence of the invention, particularly a nucleic acid sequence selected from Table 1. In the polynucleotide formula above R is oriented so that its 5' end residue is at the left, bound to R l and its 3' end residue is at the right, bound to R3. Any stretch of nucleic acid residues denoted by either R group, where m and or n is greater than 1, may be either a heteropolymer or a homopolymer, preferably a heteropolymer. In a preferred embodiment m and/or n is an integer between 1 and 1000. It is most preferred that the polynucleotides of the inventions are derived from Streptococcus pneumoniae. however, they may preferably be obtained from organisms of the same taxonomic genus. They may also be obtained, for example, from organisims of the same taxonomic family or order. The term "polynucleotide encoding a polypeptide" as used herein encompasses polynucleotides that include a sequence encoding a polypeptide of the invention, particularly a bacterial polypeptide and more particularly a polypeptide of the Streptococcus pneumoniae FabD having an amino acid sequence set out in Table 1 [SEQ ID NO:2 or 4 or 6]. The term also encompasses polynucleotides that include a single continuous region or discontinuous regions encoding the polypeptide (for example, interrupted by integrated phage or an insertion sequence or editing) together with additional regions, that also may contain coding and/or non-coding sequences. The invention further relates to variants of the polynucleotides described herein that encode for variants of the polypeptide having a deduced amino acid sequence of Table 1 [SEQ ID NO:2 or 4 or 6]. Variants that are fragments of the polynucleotides of the invention may be used to synthesize full-length polynucleotides of the invention. Further particularly preferred embodiments are polynucleotides encoding FabD variants, that have the amino acid sequence of FabD polypeptide of Table 1 [SEQ ID NO:2 or 4 or 6] in which several, a few, 5 to 10, 1 to 5, 1 to 3, 2, 1 or no amino acid residues are substituted, deleted or added, in any combination. Especially preferred among these are silent substitutions, additions and deletions, that do not alter the properties and activities of FabD. Further preferred embodiments of the invention are polynucleotides that are at least 70% identical over their entire length to a polynucleotide encoding FabD polypeptide having an amino acid sequence set out in Table 1 [SEQ ID NO:2 or 4 or 6], and polynucleotides that are complementary to such polynucleotides. Alternatively, most highly preferred are polynucleotides that comprise a region that is at least 80% identical over its entire length to a polynucleotide encoding FabD polypeptide of the deposited strain and polynucleotides complementary thereto. In this regard, polynucleotides at least 90% identical over their entire length to the same are particularly preferred, and among these particularly prefeπed polynucleotides. those with at least 95% are especially preferred. Furthermore, those with at least 97% are highly preferred among those with at least 95%, and among these those with at least 98% and at least 99% are particularly highly prefeπed, with at least 99% being the more prefeπed. Prefeπed embodiments are polynucleotides that encode polypeptides that retain substantially the same biological function or activity as the mature polypeptide encoded by a DNA of Table 1 [SEQ ID NO: 1 or 3 or 5]. The invention further relates to polynucleotides that hybridize to the herein above- described sequences. In this regard, the invention especially relates to polynucleotides that hybridize under stringent conditions to the herein above-described polynucleotides. As herein used, the terms "stringent conditions" and "stringent hybridization conditions" mean hybπdization will occur only if there is at least 95% and preferably at least 97% identity between the sequences An example of stringent hybridization conditions is overnight incubation at 42°C in a solution comprising 50% formamide, 5x SSC ( 150mM NaCl, 15mM tπsodium citrate), 50 mM sodium phosphate (pH7 6), 5x Denhardt s solution, 10% dextran sulfate, and 20 micrograms/ml denatured, sheared salmon sperm DNA, followed by washing the hybridization support in 0 lx SSC at about 65°C Hybridization and wash conditions are well known and exemplified in Sambrook, et al , Molecular Cloning A Laboratory Manual Second Edition, Cold Spring Harbor, N Y , ( 1989), particularly Chapter 1 1 therein The invention also provides a polynucleotide consisting essentially of a polynucleotide sequence obtainable by screening an appropriate library containing the complete gene for a polynucleotide sequence set forth in SEQ ID NO 1 under stringent hybridization conditions with a probe having the sequence of said polynucleotide sequence set forth in SEQ ID NO 1 or a fragment thereof, and isolating said DNA sequence Fragments useful for obtaining such a polynucleotide include, for example, probes and pπmers described elsewhere herein. As discussed additionally herein regarding polynucleotide assays of the invention, for instance, polynucleotides of the invention as discussed above, may be used as a hybπdization probe for RNA, cDNA and genomic DNA to isolate full-length cDNAs and genomic clones encoding FabD and to isolate cDNA and genomic clones of other genes that have a high sequence similaπty to the FabD gene Such probes generally will compose at least 15 bases Preferably, such probes will have at least 30 bases and may have at least 50 bases Particularly prefeπed probes will have at least 30 bases and will have 50 bases or less For example, the coding region of the FabD gene may be isolated by screening using a DNA sequence provided in Table 1 [SEQ ID NO 1 or 3] to synthesize an oligonucleotide probe A labeled oligonucleotide having a sequence complementary to that of a gene of the invention is then used to screen a library of cDNA, genomic DNA or mRNA to determine which members of the library the probe hybπdizes to The polynucleotides and polypeptides of the invention may be employed, for example, as research reagents and mateπals for discovery of treatments of and diagnostics for disease particularly human disease, as further discussed herein relating to polynucleotide assays Polynucleotides of the invention that are ohgonucleotides derived from the sequences of Table 1 [SEQ ID NOS 1 or 2 or 3 or 4] may be used in the processes herein as described, but preferably for PCR, to determine whether or not the polynucleotides identified herein in whole or in part are transcribed in bacteria in infected tissue It is recognized that such sequences will also have utility in diagnosis of the stage of infection and type of infection the pathogen has attained. The invention also provides polynucleotides that may encode a polypeptide that is the mature protein plus additional amino or carboxyl-terminal amino acids, or amino acids inteπor to the mature polypeptide (when the mature form has more than one polypeptide chain, for instance) Such sequences may play a role in processing of a protein from precursor to a mature form, may allow protein transport, may lengthen or shorten protein half-life or may facilitate manipulation of a protein for assay or production, among other things As generally is the case in vivo, the additional amino acids may be processed away from the mature protein by cellular enzymes. A precursor protein, having the mature form of the polypeptide fused to one or more prosequences may be an inactive form of the polypeptide When prosequences are removed such inactive precursors generally are activated Some or all of the prosequences may be removed before activation Generally, such precursors are called proproteins. In addition to the standard A, G, C, T/U representations for nucleic acid bases, the term "N" may also be used in describing certain polynucleotides of the invention "N" means that any of the four DNA or RNA bases may appear at such a designated position tn the DNA or RNA sequence, except it is preferred that N is not a base that when taken in combination with adjacent nucleotide positions, when read in the coπect reading frame, would have the effect of generating a premature termination codon in such reading frame In sum, a polynucleotide of the invention may encode a mature protein, a mature protein plus a leader sequence (which may be refeπed to as a preprotein), a precursor of a mature protein having one or more prosequences that are not the leader sequences of a preprotein, or a preproprotein, which is a precursor to a proprotein, having a leader sequence and one or more prosequences, which generally are removed duπng processing steps that produce active and mature forms of the polypeptide. Vectors, host cells, expression The invention also relates to vectors that comprise a polynucleotide or polynucleotides of the invention, host cells that are genetically engineered with vectors of the invention and the production of polypeptides of the invention by recombinant techniques. Cell-free translation systems can also be employed to produce such proteins using RNAs deπved from the DNA constructs of the invention For recombinant production, host cells can be genetically engineered to incorporate expression systems or portions thereof or polynucleotides of the invention Introduction of a polynucleotide into the host cell can be effected by methods descπbed in many standard laboratory manuals, such as Davis et al , BASIC METHODS IN MOLECULAR BIOLOGY, (1986) and Sambrook et al , MOLECULAR CLONING A LABORATORY MANUAL, 2nd Ed , Cold Spπng Harbor Laboratory Press, Cold Spπng Harbor, N Y ( 1989), such as, calcium phosphate transfection, DEAE-dextran mediated transfection, transvection, microinjection, cationic lipid-mediated transfection, electroporation, transduction, scrape loading, ballistic introduction and infection. Representative examples of appropriate hosts include bacteπal cells, such as streptococci, staphylococci, enterococci E coli, streptomyces and Bacillus subtihs cells, fungal cells, such as yeast cells and Aspergillus cells, insect cells such as Drosophila S2 and Spodoptera Sf9 cells, animal cells such as CHO, COS, HeLa, C127, 3T3, BHK, 293 and Bowes melanoma cells, and plant cells. A great vaπety of expression systems can be used to produce the polypeptides of the invention Such vectors include, among others, chromosomal, episomal and virus-deπved vectors, e g , vectors deπved from bacteπal plasmids, from bacteπophage, from transposons, from yeast episomes, from insertion elements, from yeast chromosomal elements, from viruses such as baculoviruses, papova viruses, such as SV40, vaccinia viruses, adenoviruses, fowl pox viruses, pseudorabies viruses and retroviruses, and vectors deπved from combinations thereof, such as those derived from plasmid and bacteπophage genetic elements, such as cosmids and phagemids The expression system constructs may contain control regions that regulate as well as engender expression Generall) , any system or vector suitable to maintain, propagate or express polynucleotides and or to express a polypeptide in a host may be used for expression in this regard The appropriate DNA sequence may be inserted into the expression system by any of a vaπety of well-known and routine techniques, such as, for example, those set forth in Sambrook et al , MOLECULAR CLONING, A LABORATORY MANUAL, (supra) For secretion of the translated protein into the lumen of the endoplasmic reticulum, into the peπplasmic space or into the extracellular environment, appropπate secretion signals may be incorporated into the expressed polvpeptide These signals may be endogenous to the polypeptide or they may be heterologous signals Polypeptides of the invention can be recovered and purified from recombinant cell cultures by well-known methods including ammonium sulfate or ethanol precipitation, acid extraction, anion or cation exchange chromatography, phosphocellulose chromatography, hydrophobic interaction chromatography, affinity chromatography, hydroxylapatite chromatography, and lectin chromatography Most preferably, high performance liquid chromatography is employed for puπfication Well known techniques for refolding protein may be employed to regenerate active conformation when the polypeptide is denatured during isolation and or puπfication Diagnostic Assays This invention is also related to the use of the FabD polynucleotides of the invention for use as diagnostic reagents Detection of FabD in a eukaryote, particularly a mammal, and especially a human, will provide a diagnostic method for diagnosis of a disease Eukaryotes (herein also "ιndιvιdual(s)"), particularly mammals, and especially humans, particularly those infected or suspected to be infected with an organism compπsing the FabD gene may be detected at the nucleic acid level by a vaπety of techniques. Nucleic acids for diagnosis may be obtained from an infected individual's cells and tissues, such as bone, blood, muscle, cartilage, and skin Genomic DNA may be used directly for detection or may be amplified enzymatically by using PCR or other amplification technique pπor to analysis RNA, cDNA and genomic DNA may also be used in the same ways Using amplification, characterization of the species and strain of prokaryote present in an individual, may be made by an analysis of the genotype of the prokaryote gene Deletions and insertions can be detected by a change in size of the amplified product in compaπson to the genotype of a reference sequence Point mutations can be identified by hybπdizing amplified DNA to labeled FabD polynucleotide sequences Perfectly matched sequences can be distinguished from mismatched duplexes by RNase digestion or by differences in melting temperatures DNA sequence differences may also be detected by alterations in the electrophoretic mobility of the DNA fragments in gels, with or without denatuπng agents, or by direct DNA sequencing See, e g , Myers et al , Science, 230 1242 (1985) Sequence changes at specific locations also may be revealed by nuclease protection assays, such as RNase and S 1 protection or a chemical cleavage method See, e g , Cotton et al , Proc Natl Acad Sci , USA, 85 4397-4401 (1985) Cells carrying mutations or polymorphisms in the gene of the invention may also be detected at the DNA level by a vaπety of techniques to allow for serotyping, for example For example, RT-PCR can be used to detect mutations It is particularly preferred to used RT- PCR in conjunction with automated detection systems, such as, for example GeneScan RNA, cDNA or genomic DNA may also be used for the same purpose, PCR or RT-PCR As an example, PCR pπmers complementary to a nucleic acid encoding FabD can be used to identify and analyze mutations These pπmers may be used for, among other things, amplifying FabD DNA isolated from a sample deπved from an individual The pπmers may be used to amplify the gene isolated from an infected individual such that the gene may then be subject to vaπous techniques for elucidation of the DNA sequence In this way, mutations in the DNA sequence may be detected and used to diagnose infection and to serotype and/or classify the infectious agent The invention further provides a process for diagnosing, disease, preferably bacteπal infections, more preferably infections by Streptococcus pneumoniae, comprising determining from a sample derived from an individual a increased level of expression of polynucleotide having a sequence of Table 1 [SEQ ID NO 1 or 3] Increased or decreased expression of FabD polynucleotide can be measured using any on of the methods well known in the art for the quantation of polynucleotides, such as, for example, amplification, PCR, RT-PCR, RNase protection, Northern blotting and other hybπdization methods In addition, a diagnostic assay in accordance with the invention for detecting over- expression of FabD protein compared to normal control tissue samples may be used to detect the presence of an infection, for example Assay techniques that can be used to determine levels of a FabD protein, in a sample deπved from a host are well-known to those of skill in the art Such assay methods include radioimmunoassays, competitive-binding assays, Western Blot analysis and ELISA assays Antibodies The polypeptides of the invention or vaπants thereof, or cells expressing them can be used as an immunogen to produce antibodies immunospecific for such polypeptides "Antibodies" as used herein includes monoclonal and polyclonal antibodies, chimeπc, single chain, simianized antibodies and humanized antibodies, as well as Fab fragments, including the products of an Fab immunolglobulin expression library Antibodies generated against the polypeptides of the invention can be obtained by administeπng the polypeptides or epitope-beaπng fragments, analogues or cells to an animal, preferably a nonhuman. using routine protocols. For preparation of monoclonal antibodies, any technique known in the art that provides antibodies produced by continuous cell line cultures can be used. Examples include various techniques, such as those in ohler, G. and Milstein. C, Nature 256: 495-497 (1975); Kozbor et al.. Immunology Today 4: 72 (1983); Cole et al., pg. 77-96 in MONOCLONAL ANTIBODIES AND CANCER THERAPY, Alan R. Liss, Inc. (1985). Techniques for the production of single chain antibodies (U.S. Patent No. 4,946,778) can be adapted to produce single chain antibodies to polypeptides of this invention. Also, transgenic mice, or other organisms such as other mammals, may be used to express humanized antibodies. Alternatively phage display technology may be utilized to select antibody genes with binding activities towards the polypeptide either from repertoires of PCR amplified v- genes of lymphocytes from humans screened for possessing anti-FabD or from naive libraries (McCafferty, J. et al., (1990), Nature 348, 552-554; Marks, J. et al., (1992) Biotechnology 10, 779-783). The affinity of these antibodies can also be improved by chain shuffling (Clackson, T. et al.. (1991) Nature 352, 624-628). If two antigen binding domains are present each domain may be directed against a different epitope - termed 'bispecific' antibodies. The above-described antibodies may be employed to isolate or to identify clones expressing the polypeptides to purify the polypeptides by affinity chromatography. Thus, among others, antibodies against FabD- polypeptide may be employed to treat infections, particularly bacterial infections. Polypeptide variants include antigenically, epitopically or immunologically equivalent variants that form a particular aspect of this invention. The term "antigenically equivalent derivative" as used herein encompasses a polypeptide or its equivalent which will be specifically recognized by certain antibodies which, when raised to the protein or polypeptide according to the invention, interfere with the immediate physical interaction between pathogen and mammalian host. The term "immunologically equivalent derivative" as used herein encompasses a peptide or its equivalent which when used in a suitable formulation to raise antibodies in a vertebrate, the antibodies act to interfere with the immediate physical interaction between pathogen and mammalian host. The polypeptide, such as an antigenically or immunologically equivalent derivative or a fusion protein thereof is used as an antigen to immunize a mouse or other animal such as a rat or chicken. The fusion protein may provide stability to the polypeptide. The antigen may be associated, for example by conjugation, with an immunogenic carrier protein for example bovine serum albumin (BSA) or keyhole limpet haemocyanin (KLH). Alternatively a multiple antigenic peptide comprising multiple copies of the protein or polypeptide, or an antigenically or immunologically equivalent polypeptide thereof may be sufficiently antigenic to improve immunogenicity so as to obviate the use of a caπier. A prefeπed fusion protein comprises a heterologous region from immunolglobulin that is useful to solubilize or purify polypeptides. For example, EP-A-0 464 533 (Canadian counterpart 2045869) discloses fusion proteins comprising various portions of constant region of immunoglobin molecules together with another protein or part thereof. In drug discovery, for example, proteins have been fused with antibody Fc portions for the purpose of high-throughput screening assays to identify antagonists. See, D. Bennett et al, Journal of Molecular Recognition, Vol. 8 52-58 (1995) and K. Johanson et al., The Journal of Biological Chemistry, Vol. 270, No. 16, pp 9459-9471 (1995). Preferably, the antibody or variant thereof is modified to make it less immunogenic in the individual. For example, if the individual is human the antibody may most preferably be "humanized"; where the complimentarity determining region(s) of the hybridoma-derived antibody has been transplanted into a human monoclonal antibody , for example as described in Jones, P. et al. ( 1986), Nature 321 , 522-525 or Tempest et al., ( 1991) Biotechnology 9, 266-273. The use of a polynucleotide of the invention in genetic immunization will preferably employ a suitable delivery method such as direct injection of plasmid DNA into muscles (Wolff et al., Hum Mol Genet 1992, 1 :363, Manthorpe et al., Hum. Gene Ther. 1963:4, 419), delivery of DNA complexed with specific protein caπiers (Wu et al., J Biol Chem. 1989: 264, 16985), coprecipitation of DNA with calcium phosphate (Benvenisty & Reshef, PNAS USA, 1986:83,9551). encapsulation of DNA in various forms of liposomes (Kaneda et al., Science 1989:243,375), particle bombardment (Tang et al., Nature 1992, 356: 152, Eisenbraun et al., DNA Cell Biol 1993, 12:791) and in vivo infection using cloned retroviral vectors (Seeger et al., PNAS USA 1984:81,5849). Antagonists and agonists - assays and molecules Polypeptides of the invention may also be used to assess the binding of small molecule substrates and ligands in. for example, cells, cell-free preparations, chemical libraries, and natural product mixtures. These substrates and ligands may be natural substrates and ligands or may be structural or functional mimetics See, e g , Cohgan et al , Current Protocols in Immunology 1(2) Chapter 5 (1991) T e invention also provides a method of screening compounds to identify those which enhance (agonist) or block (antagonist) the action of FabD polypeptides or polynucleotides, particularly those compounds that are bacteπostatic and/or bacteπocidal. The method of screening may involve high-throughput techniques For example, to screen for agonists or antagoists, a synthetic reaction mix, a cellular compartment, such as a membrane, cell envelope or cell wall, or a preparation of any thereof, compπsing FabD polypeptide and a labeled substrate or ligand of such polypeptide is incubated in the absence or the presence of a candidate molecule that may be a FabD agonist or antagonist The ability of the candidate molecule to agonize or antagonize the FabD polypeptide is reflected in decreased binding of the labeled ligand or decreased production of product from such substrate Molecules that bind gratuitously, / e , without inducing the effects of FabD polypeptide are most likely to be good antagonists Molecules that bind well and increase the rate of product production from substrate are agonists Detection of the rate or level of production of product from substrate may be enhanced by using a reporter system Reporter systems that may be useful in this regard include but are not limited to coloπmetπc labeled substrate converted into product, a reporter gene that is responsive to changes in FabD polynucleotide or polypeptide activity, and binding assays known in the art. Another example of an assay for FabD antagonists is a competitive assay that combines FabD and a potential antagonist with FabD-bmding molecules, recombinant FabD binding molecules, natural substrates or ligands, or substrate or ligand mimetics, under appropπate conditions for a competitive inhibition assay FabD can be labeled, such as by radioactivity or a coloπmetπc compound, such that the number of FabD molecules bound to a binding molecule or converted to product can be determined accurately to assess the effectiveness of the potential antagonist. Potential antagonists include small organic molecules, peptides, polypeptides and antibodies that bind to a polynucleotide or polypeptide of the invention and thereby inhibit or extinguish its activity Potential antagonists also may be small organic molecules, a peptide, a polypeptide such as a closely related protein or antibody that binds the same sites on a binding molecule, such as a binding molecule, without inducing FabD-induced activities, thereby preventing the action of FabD by excluding FabD from binding Potential antagonists include a small molecule that binds to and occupies the binding site of the polypeptide thereby preventing binding to cellular binding molecules, such that normal biological activity is prevented. Examples of small molecules include but are not limited to small organic molecules, peptides or peptide-like molecules. Other potential antagonists include antisense molecules (see Okano, J. Neurochem. 56: 560 (1991); OLIGODEOXYNUCLEOTIDES AS ANTISENSE INHIBITORS OF GENE EXPRESSION, CRC Press, Boca Raton, FL (1988), for a description of these molecules). Preferred potential antagonists include compounds related to and variants of FabD. Each of the DNA sequences provided herein may be used in the discovery and development of antibacterial compounds. The encoded protein, upon expression, can be used as a target for the screening of antibacterial drugs. Additionally, the DNA sequences encoding the amino terminal regions of the encoded protein or Shine-Delgarno or other translation facilitating sequences of the respective mRNA can be used to construct antisense sequences to control the expression of the coding sequence of interest. The invention also provides the use of the polypeptide, polynucleotide or inhibitor of the invention to interfere with the initial physical interaction between a pathogen and mammalian host responsible for sequelae of infection. In particular the molecules of the invention may be used: in the prevention of adhesion of bacteria, in particular gram positive bacteria, to mammalian extracellular matrix proteins on in-dwelling devices or to extracellular matrix proteins in wounds; to block FabD protein-mediated mammalian cell invasion by, for example, initiating phosphorylation of mammalian tyrosine kinases (Rosenshine et al.. Infect. Immun. 60:221 1 ( 1992); to block bacterial adhesion between mammalian extracellular matrix proteins and bacterial FabD proteins that mediate tissue damage and; to block the normal progression of pathogenesis in infections initiated other than by the implantation of in-dwelling devices or by other surgical techniques. The antagonists and agonists of the invention may be employed, for instance, to inhibit and treat diseases. Helicobacter pylori (herein H. pylori) bacteria infect the stomachs of over one-third of the world's population causing stomach cancer, ulcers, and gastritis (International Agency for Research on Cancer (1994) Schistosomes, Liver Flukes and Helicobacter Pylori (International Agency for Research on Cancer, Lyon, France; http://www.uicc.ch/ecp/ecp2904.htm). Moreover, the international Agency for Research on Cancer recently recognized a cause-and-effect relationship between H. pylori and gastric adenocarcinoma, classifying the bacterium as a Group I (definite) carcinogen Preferred antimicrobial compounds of the invention (agonists and antagonists of FabD) found using screens provided by the invention, particularly broad-spectrum antibiotics, should be useful in the treatment of H pylori infection Such treatment should decrease the advent of H py/σπ-induced cancers, such as gastrointestinal carcinoma Such treatment should also cure gastric ulcers and gastπtis Vaccines Another aspect of the invention relates to a method for inducing an immunological response in an individual, particularly a mammal which comprises inoculating the individual with FabD, or a fragment or variant thereof, adequate to produce antibody and/ or T cell immune response to protect said individual from infection, particularly bacterial infection and most particularly Streptococcus pneumoniae infection Also provided are methods whereby such immunological response slows bacteπal replication Yet another aspect of the invention relates to a method of inducing immunological response in an individual which comprises delivering to such individual a nucleic acid vector to direct expression of FabD, or a fragment or a variant thereof, for expressing FabD, or a fragment or a vaπant thereof m vivo in order to induce an immunological response, such as, to produce antibody and/ or T cell immune response, including, for example, cytokine- producing T cells or cytotoxic T cells, to protect said individual from disease, whether that disease is already established within the individual or not One way of administering the gene is by accelerating it into the desired cells as a coating on particles or otherwise Such nucleic acid vector may comprise DNA, RNA, a modified nucleic acid, or a DNA/RNA hybrid A further aspect of the invention relates to an immunological composition which, when introduced into an individual capable or having induced within it an immunological response, induces an immunological response in such individual to a FabD or protein coded therefrom, wherein the composition comprises a recombinant FabD or protein coded therefrom comprising DNA which codes for and expresses an antigen of said FabD or protein coded therefrom The immunological response may be used therapeutically or prophylactically and may take the form of antibody immunity or cellular immunity such as that arising from CTL or CD4+ T cells A FabD polypeptide or a fragment thereof may be fused with co-protein which may not by itself produce antibodies, but is capable of stabilizing the first protein and producing a fused protein which will have immunogenic and protective properties Thus fused recombinant protein, preferably further comprises an antigenic co-protein, such as hpoprotein D from Hemophdus influenzae, Glutathione-S-transferase (GST) or beta- galactosidase, relatively large co-proteins which solubihze the protein and facilitate production and purification thereof Moreover, the co-protein may act as an adjuvant in the sense of providing a generalized stimulation of the immune system The co-protein may be attached to either the amino or carboxy terminus of the first protein Provided by this invention are compositions, particularly vaccine compositions, and methods comprising the polypeptides or polynucleotides of the invention and immunostimulatory DNA sequences, such as those described in Sato. Y et al Science 273. 352 (1996). Also, provided by this invention are methods using the described polynucleotide or particular fragments thereof which have been shown to encode non-variable regions of bacterial cell surface proteins in DNA constructs used in such genetic immunization experiments in animal models of infection with Streptococcus pneumoniae will be particularly useful for identifying protein epitopes able to provoke a prophylactic or therapeutic immune response It is believed that this approach will allow for the subsequent preparation of monoclonal antibodies of particular value from the requisite organ of the animal successfully resisting or cleaπng infection for the development of prophylactic agents or therapeutic treatments of bacteπal infection, particularly Streptococcus pneumoniae infection, in mammals, particularly humans The polypeptide may be used as an antigen for vaccination of a host to produce specific antibodies which protect against invasion of bacteria, for example by blocking adherence of bacteria to damaged tissue Examples of tissue damage include wounds in skin or connective tissue caused, e g , by mechanical, chemical or thermal damage or by implantation of indwelling devices, or wounds in the mucous membranes, such as the mouth, mammary glands, urethra or vagina. The invention also includes a vaccine formulation which comprises an immunogenic recombinant protein of the invention together with a suitable earner Since the protein may be broken down in the stomach, it is preferably administered parenterally, including, for example, administration that is subcutaneous, intramuscular, intravenous, or intradermal Formulations suitable for parenteral administration include aqueous and non- aqueous sterile injection solutions which may contain anti-oxidants, buffers, bacteπostats and solutes which render the formulation insotonic with the bodily fluid, preferably the blood, of the individual, and aqueous and non-aqueous sterile suspensions which may include suspending agents or thickening agents The formulations may be presented in unit-dose or multi-dose containers, for example, sealed ampules and vials and may be stored in a freeze-dπed condition requiring only the addition of the sterile liquid caπier immediately prior to use The vaccine formulation may also include adjuvant systems for enhancing the immunogenicity of the formulation, such as oil-in water systems and other systems known in the art The dosage will depend on the specific activity of the vaccine and can be readily determined by routine experimentation While the invention has been described with reference to certain FabD protein, it is to be understood that this co\ers fragments of the naturally occumng protein and similar proteins with additions, deletions or substitutions which do not substantially affect the immunogenic properties of the recombinant protein Compositions, kits and administration The invention also relates to compositions compπsing the polynucleotide or the polypeptides discussed above or their agonists or antagonists The polypeptides of the invention may be employed in combination with a non-steπle or steπle earner or earners for use with cells, tissues or organisms, such as a pharmaceutical earner suitable for administration to a subject Such compositions compnse, for instance, a media additive or a therapeutically effective amount of a polypeptide of the invention and a pharmaceutically acceptable earner or excipient Such earners may include, but are not limited to, saline, buffered saline, dextrose, water, glycerol, ethanol and combinations thereof The formulation should suit the mode of administration The invention further relates to diagnostic and pharmaceutical packs and kits compnsing one or more containers filled with one or more of the ingredients of the aforementioned compositions of the invention Polypeptides and other compounds of the invention may be employed alone or in conjunction with other compounds, such as therapeutic compounds. The pharmaceutical compositions may be administered in any effective, convenient manner including, for instance, administration by topical, oral, anal, vaginal, intravenous, intrapeπtoneal, intramuscular, subcutaneous, mtranasal or intradermal routes among others. In therapy or as a prophylactic, the active agent may be administered to an individual as an injectable composition, for example as a sterile aqueous dispersion, preferably lsotonic. Alternatively the composition may be formulated for topical application for example in the form of ointments, creams, lotions, eye ointments, eye drops, ear drops, mouthwash, impregnated dressings and sutures and aerosols, and may contain appropriate conventional additives, including, for example, preservatives, solvents to assist drug penetration, and emollients in ointments and creams. Such topical formulations may also contain compatible conventional caπiers, for example cream or ointment bases, and ethanol or oleyl alcohol for lotions. Such caπiers may constitute from about 1 % to about 98% by weight of the formulation; more usually they will constitute up to about 80% by weight of the formulation. For administration to mammals, and particularly humans, it is expected that the daily dosage level of the active agent will be from 0.01 mg/kg to 10 mg/kg, typically around 1 mg kg. The physician in any event will determine the actual dosage which will be most suitable for an individual and will vary with the age, weight and response of the particular individual. The above dosages are exemplary of the average case. There can, of course, be individual instances where higher or lower dosage ranges are merited, and such are within the scope of this invention. In-dwelling devices include surgical implants, prosthetic devices and catheters, i.e., devices that are introduced to the body of an individual and remain in position for an extended time. Such devices include, for example, artificial joints, heart valves, pacemakers, vascular grafts, vascular catheters, cerebrospinal fluid shunts, urinary catheters, continuous ambulatory peritoneal dialysis (CAPD) catheters. The composition of the invention may be administered by injection to achieve a systemic effect against relevant bacteria shortly before insertion of an in-dwelling device. Treatment may be continued after surgery during the in-body time of the device. In addition, the composition could also be used to broaden perioperative cover for any surgical technique to prevent bacterial wound infections, especially Streptococcus pneumoniae wound infections. Many orthopaedic surgeons consider that humans with prosthetic joints should be considered for antibiotic prophylaxis before dental treatment that could produce a bacteremia. Late deep infection is a serious complication sometimes leading to loss of the prosthetic joint and is accompanied by significant morbidity and mortality. It may therefore be possible to extend the use of the active agent as a replacement for prophylactic antibiotics in this situation. In addition to the therapy described above, the compositions of this invention may be used generally as a wound treatment agent to prevent adhesion of bacteria to matrix proteins exposed in wound tissue and for prophylactic use in dental treatment as an alternative to, or in conjunction with, antibiotic prophylaxis Alternatively, the composition of the invention may be used to bathe an indwelling device immediately before insertion The active agent will preferably be present at a concentration of lμg/ml to lOmg/ml for bathing of wounds or indwelling devices A vaccine composition is conveniently in injectable form Conventional adjuvants may be employed to enhance the immune response A suitable unit dose for vaccination is 0 5-5 microgram/kg of antigen, and such dose is preferably administered 1-3 times and with an interval of 1-3 weeks With the indicated dose range, no adverse toxicological effects will be observed with the compounds of the invention which would preclude their administration to suitable individuals Each reference disclosed herein is incorporated by reference herein in its entirety Any patent application to which this application claims priority is also incorporated by reference herein in its entirety GLOSSARY The following definitions are provided to facilitate understanding of certain terms used frequently herein "Dιsease(s)" means and disease caused by or related to infection by a bacteπa, including otitis media, conjunctivitis, pneumonia, bacteremia, meningitis, sinusitis, pleural empyema and endocarditis, and most particularly meningitis, such as for example infection ot cerebrospinal fluid. "Host cell" is a cell which has been transformed or transfected, or is capable of transformation or transfection by an exogenous polynucleotide sequence "Identity," as known in the art. is a relationship between two or more polypeptide sequences or two or more polynucleotide sequences, as determined by compaπng the sequences In the art, "identity" also means the degree of sequence relatedness between polypeptide or polynucleotide sequences, as the case may be, as determined by the match between strings of such sequences "Identity" and "similaπty ' can be readily calculated by known methods, including but not limited to those described in (Computational Molecular Biology, Lesk, A M , ed , Oxford University Press, New York, 1988, Biocomputing Informatics and Genome Projects, Smith, D W , ed , Academic Press, New York, 1993, Computer Analysis of Sequence Data. Part I, Griffin, A.M., and Griffin, H.G., eds., Humana Press, New Jersey, 1994; Sequence Analysis in Molecular Biology, von Heinje, G., Academic Press, 1987; and Sequence Analysis Primer, Gribskov, M. and Devereux, J., eds., M Stockton Press, New York, 1991 ; and Carillo, H., and Lipman. D., SIAM J. Applied Math., 48: 1073 (1988). Prefeπed methods to determine identity are designed to give the largest match between the sequences tested. Methods to determine identity and similarity are codified in publicly available computer programs. Prefeπed computer program methods to determine identity and similarity between two sequences include, but are not limited to, the GCG program package (Devereux, J., et al., Nucleic Acids Research 12(1): 387 ( 1984)), BLASTP, BLASTN, and FASTA (Atschul, S.F. et al.. J. Molec. Biol. 215: 403-410 (1990). The BLAST X program is publicly available from NCBI and other sources (BLAST Manual, Altschul, S., et al, NCBI NLM NIH Bethesda, MD 20894; Altschul, S., et al. J. Mol. Biol. 215: 403-410 ( 1990). As an illustration, by a polynucleotide having a nucleotide sequence having at least, for example, 95% "identity" to a reference nucleotide sequence of SEQ ID NO: 1 it is intended that the nucleotide sequence of the polynucleotide is identical to the reference sequence except that the polynucleotide sequence may include up to five point mutations per each 100 nucleotides of the reference nucleotide sequence of SEQ ID NO: 1. In other words, to obtain a polynucleotide having a nucleotide sequence at least 95% identical to a reference nucleotide sequence, up to 5% of the nucleotides in the reference sequence may be deleted or substituted with another nucleotide, or a number of nucleotides up to 5% of the total nucleotides in the reference sequence may be inserted into the reference sequence. These mutations of the reference sequence may occur at the 5 or 3 terminal positions of the reference nucleotide sequence or anywhere between those terminal positions, interspersed either individually among nucleotides in the reference sequence or in one or more contiguous groups within the reference sequence. Analogously , by a polypeptide having an amino acid sequence having at least, for example, 95% identity to a reference amino acid sequence of SEQ ID NO:2 is intended that the amino acid sequence of the polypeptide is identical to the reference sequence except that the polypeptide sequence may include up to five amino acid alterations per each 100 amino acids of the reference amino acid of SEQ ID NO: 2. In other words, to obtain a polypeptide having an amino acid sequence at least 95% identical to a reference amino acid sequence, up to 5% of the amino acid residues in the reference sequence may be deleted or substituted with another amino acid, or a number of amino acids up to 5% of the total amino acid residues in the reference sequence may be inserted into the reference sequence. These alterations of the reference sequence may occur at the amino or carboxy terminal positions of the reference amino acid sequence or anywhere between those terminal positions, interspersed either individually among residues in the reference sequence or in one or more contiguous groups within the reference sequence. "Isolated" means altered "by the hand of man" from its natural state, i.e., if it occurs in nature, it has been changed or removed from its original environment, or both. For example, a polynucleotide or a polypeptide naturally present in a living organism is not "isolated," but the same polynucleotide or polypeptide separated from the coexisting materials of its natural state is "isolated", as the term is employed herein. "Polynucleotide(s)" generally refers to any polyribonucleotide or polydeoxribonucleotide, which may be unmodified RNA or DNA or modified RNA or DNA. "Polynucleotide(s)" include, without limitation, single- and double-stranded DNA, DNA that is a mixture of single- and double-stranded regions or single-, double- and triple-stranded regions, single- and double-stranded RNA, and RNA that is mixture of single- and double- stranded regions, hybrid molecules comprising DNA and RNA that may be single-stranded or, more typically, double-stranded, or triple-stranded regions, or a mixture of single- and double- stranded regions. In addition, "polynucleotide" as used herein refers to triple-stranded regions comprising RNA or DNA or both RNA and DNA. The strands in such regions may be from the same molecule or from different molecules. The regions may include all of one or more of the molecules, but more typically involve only a region of some of the molecules. One of the molecules of a triple-helical region often is an oligonucleotide. As used herein, the term "polynucleotide(s)" also includes DNAs or RNAs as described above that contain one or more modified bases. Thus, DNAs or RNAs with backbones modified for stability or for other reasons are "polynucleotide(s)" as that term is intended herein. Moreover, DNAs or RNAs comprising unusual bases, such as inosine, or modified bases, such as tritylated bases, to name just two examples, are polynucleotides as the term is used herein. It will be appreciated that a great variety of modifications have been made to DNA and RNA that serve many useful purposes known to those of skill in the art. The term "polynucleotide(s)" as it is employed herein embraces such chemically, enzymatically or metabolically modified forms of polynucleotides. as well as the chemical forms of DNA and RNA characteristic of viruses and cells, including, for example, simple and complex cells "Polynucleotιde(s)" also embraces short polynucleotides often refeπed to as ohgonucleotιde(s). "Polypeptιde(s)" refers to any peptide or protein compπsing two or more amino acids joined to each other by peptide bonds or modified peptide bonds "Polypeptιde(s)" refers to both short chains, commonly refeπed to as peptides, ohgopeptides and oligomers and to longer chains generally refeπed to as proteins Polypeptides may contain amino acids other than the 20 gene encoded amino acids "Polypeptιde(s)" include those modified either by natural processes, such as processing and other post-translational modifications, but also by chemical modification techniques Such modifications are well descπbed in basic texts and in more detailed monographs, as well as in a voluminous research literature, and they are well known to those of skill in the art It will be appreciated that the same type of modification may be present in the same or varying degree at several sites in a given polypeptide Also, a given polypeptide may contain many types of modifications Modifications can occur anywhere in a polypeptide, including the peptide backbone, the amino acid side-chains, and the ammo or carboxyl termini Modifications include, for example, acetylation, acylation, ADP-nbosylation, amidation, covalent attachment of flavin, covalent attachment of a heme moiety, covalent attachment of a nucleotide or nucleotide deπvative, covalent attachment of a hpid or hpid denvative, covalent attachment of phosphotidyhnositol, cross-linking, cychzation, disulfide bond formation, demethylation, formation of covalent cross-links, formation of cysteme, formation of pyroglutamate, formylation, gamma-carboxylation, glycosylation, GPI anchor formation, hydroxylation, lodination, methylation, myπstoylation, oxidation, proteolytic processing, phosphorylation, prenylation, racemization, glycosylation, hpid attachment, sulfation, gamma-carboxylation of glutamic acid residues, hydroxylation and ADP-nbosylation, selenoylation, sulfation, transfer-RNA mediated addition of amino acids to proteins, such as arginylation, and ubiquitination See, for instance, PROTEINS - STRUCTURE AND MOLECULAR PROPERTIES, 2nd Ed , T E Creighton, W H Freeman and Company, New York (1993) and Wold, F , Posttranslational Protein Modifications. Perspectives and Prospects, pgs 1-12 in POSTTRANSLATIONAL COVALENT MODIFICATION OF PROTEINS, B C Johnson, Ed , Academic Press, New York (1983), Seifter et al , Meth Enzymol 182 626-646 (1990) and Rattan et al , Protein Synthesis: Posttranslational Modifications and Aging, Ann N Y Acad Sci 663 48-62 (1992) Polypeptides may be branched or cyclic, with or without branching Cyclic, branched and branched circular polypeptides may result from post-translational natural processes and may be made by entirely synthetic methods, as well. "Variant(s)" as the term is used herein, is a polynucleotide or polypeptide that differs from a reference polynucleotide or polypeptide respectively, but retains essential properties. A typical variant of a polynucleotide differs in nucleotide sequence from another, reference polynucleotide. Changes in the nucleotide sequence of the variant may or may not alter the amino acid sequence of a polypeptide encoded by the reference polynucleotide. Nucleotide changes may result in amino acid substitutions, additions, deletions, fusions and truncations in the polypeptide encoded by the reference sequence, as discussed below. A typical variant of a polypeptide differs in amino acid sequence from another, reference polypeptide. Generally, differences are limited so that the sequences of the reference polypeptide and the variant are closely similar overall and, in many regions, identical. A variant and reference polypeptide may differ in amino acid sequence by one or more substitutions, additions, deletions in any combination. A substituted or inserted amino acid residue may or may not be one encoded by the genetic code. A variant of a polynucleotide or polypeptide may be a naturally occuπing such as an allelic variant, or it may be a variant that is not known to occur naturally. Non-naturally occuπing variants of polynucleotides and polypeptides may be made by mutagenesis techniques, by direct synthesis, and by other recombinant methods known to skilled artisans. EXAMPLES The examples below are carried out using standard techniques, which are well known and routine to those of skill in the art, except where otherwise described in detail. The examples are illustrative, but do not limit the invention. Example 1 Strain selection, Library Production and Sequencing The polynucleotide having a DNA sequence given in Table 1 [SEQ ID NO: 1 or 3 or 5] was obtained from a library of clones of chromosomal DNA of Streptococcus pneumoniae in E. coli. The sequencing data from two or more clones containing overlapping Streptococcus pneumoniae DNAs was used to construct the contiguous DNA sequence in SEQ ID NO: 1. Libraries may be prepared by routine methods, for example: Methods 1 and 2 below. Total cellular DNA is isolated from Streptococcus pneumoniae 0100993 according to standard procedures and size-fractionated by either of two methods. Method 1 Total cellular DNA is mechanically sheared by passage through a needle in order to size-fractionate according to standard procedures. DNA fragments of up to 1 l bp in size are rendered blunt by treatment with exonuclease and DNA polymerase, and EcoRI linkers added. Fragments are ligated into the vector Lambda ZapII that has been cut with EcoRI, the library packaged by standard procedures and E.coli infected with the packaged library. The library is amplified by standard procedures. Method 2 Total cellular DNA is partially hydrolyzed with a one or a combination of restriction enzymes appropriate to generate a series of fragments for cloning into library vectors (e.g., Rsal, Pall, Alul, Bshl235I), and such fragments are size-fractionated according to standard procedures. EcoRI linkers are ligated to the DNA and the fragments then ligated into the vector Lambda ZapII that have been cut with EcoRI, the library packaged by standard procedures, and E.coli infected with the packaged library. The library is amplified by standard procedures. Example 2 FabD Characterization FabD malonyl-CoA.ACP transacylase activity can be readily assayed via the incorporation of ^C -malonate from trichloroacetic acid soluble '^C-malonyl-CoA into TCA insoluble ^C-malonyl-ACP, using ACP as acceptor. Test compounds may be added to this assay to determine whether they agonise or antagonise enzyme activity. SEQUENCE LISTING (1) GENERAL INFORMATION (i) APPLICANT: Gentry, Daniel Lonsdale, John Payne , David Pearson, Stewart Van Aller, Glenn (ii) TITLE OF THE INVENTION: Novel FabD (iii) NUMBER OF SEQUENCES: 6 (iv) CORRESPONDENCE ADDRESS: (A) ADDRESSEE: SmithKline Beecham Corporation (B) STREET: 709 Swedeland Road (C) CITY: King of Prussia (D) STATE: PA (E) COUNTRY: USA (F) ZIP: 19406-0939 (v) COMPUTER READABLE FORM: (A) MEDIUM TYPE: Diskette (B) COMPUTER: IBM Compatible (C) OPERATING SYSTEM: DOS (D) SOFTWARE: FastSEQ for Windows Version 2.0 (vi) CURRENT APPLICATION DATA: (A) APPLICATION NUMBER: (B) FILING DATE: 14-NOV-1997 (C) CLASSIFICATION: (vii) PRIOR APPLICATION DATA: (A) APPLICATION NUMBER: 60/031,160 (B) FILING DATE: 18-NOV-1996 (viii) ATTORNE /AGENT INFORMATION: (A) NAME: Gimmi, Edward R (B) REGISTRATION NUMBER: 38,891 (C) REFERENCE/DOCKET NUMBER: P50593 (ix) TELECOMMUNICATION INFORMATION: (A) TELEPHONE: 610-270-4478 (B) TELEFAX: 610-270-5090 (C) TELEX: (2) INFORMATION FOR SEQ ID NO : 1 : (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 921 base pairs (B) TYPE: nucleic acid (C) STRANDEDNESS : single (D) TOPOLOGY: linear (ii) MOLECULE TYPE: Genomic DNA (xi) SEQUENCE DESCRIPTION: SEQ ID NO : 1 : ATGACTAAAA CAGCCTTTTT ATTTGCTGGT CAAGGTGCCC AGTATCTAGG GATGGGACGG 60 GATTTCTATG ATCAGTATCC GATTGTCAAA GAAACGATTG ATCGAGCGAG TCAGGTGCTC 120 GGTTATGATT TACGTTATCT CATCGATACG GAAGAAGACA AACTCAATCA GACCCGCTAT 180 ACGCAACCAG CCATTCTAGC GACTTCGGTT GCTATCTACC GTTTATTGCA AGAAAAGGGC 240 TATCAGCCTG ATATGGTTGC TGGTTTGTCT CTTGGAGAAT ACTCTGCCTT GGTGGCAAGC 300 GGCGCCTTGG ATTTTGAAGA TGCGGTTGCC TTGGTAGCTA AGCGTGGAGC CTATATGGAA 360 GAAGCGGCTC CTGCTGACTC TGGCAAGATG GTAGCAGTTC TCAATACGCC AGTAGAGGTC 420 ATTGAAGAAG CCTGTCAAAA AGCTTCTGAA CTTGGAGTGG TTACTCCAGC CAACTATAAC 480 ACACCTGCAC AAATCGTCAT TGCTGGAGAA GTGGTTGCAG TTGATCGAGC GGTTGAACTT 540 TTGCAAGAAG CAGGTGCCAA ACGCTTGATT CCTCTTAAGG TGTCAGGTCC CTTTCACACC 600 GCTCTCCTTG AGCCTGCTAG CCAGAAACTA GCTGAAACTC TAGCTCAGGT AAGTTTTTCA 660 GATTTTACTT GTCCCCTAGT CGGCAATACA GAAGCTGCTG TGATGCAAAA AGAGGACATT 720 GCTCAGCTCT TGACGCGTCA GGTCAAGGAA CCCGTTCGTT TCTATGAAAG TATTGGGGTC 780 ATGCAAGAAG CAGGCATAAG CAACTTTATC GAGATTGGAC CGGGGAAAGT CTTGTCAGGT 840 TTTGTTAAAA AAATTGATCA AACTGCTCAC TTAGCTCATG TGGAAGATCA AGCGAGTTTA 900 GTAGCACTTT TAGAAAAATA G 921 (2) INFORMATION FOR SEQ ID NO : 2 : (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 306 amino acids (B) TYPE: amino acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (ii) MOLECULE TYPE: protein (xi) SEQUENCE DESCRIPTION: SEQ ID NO : 2 : Met Thr Lys Thr Ala Phe Leu Phe Ala Gly Gin Gly Ala Gin Tyr Leu 1 5 10 15 Gly Met Gly Arg Asp Phe Tyr Asp Gin Tyr Pro lie Val Lys Glu Thr 20 25 30 lie Asp Arg Ala Ser Gin Val Leu Gly Tyr Asp Leu Arg Tyr Leu lie 35 40 45 Asp Thr Glu Glu Asp Lys Leu Asn Gin Thr Arg Tyr Thr Gin Pro Ala 50 55 60 lie Leu Ala Thr Ser Val Ala lie Tyr Arg Leu Leu Gin Glu Lys Gly 65 70 75 80 Tyr Gin Pro Asp Met Val Ala Gly Leu Ser Leu Gly Glu Tyr Ser Ala 85 90 95 Leu Val Ala Ser Gly Ala Leu Asp Phe Glu Asp Ala Val Ala Leu Val 100 105 110 Ala Lys Arg Gly Ala Tyr Met Glu Glu Ala Ala Pro Ala Asp Ser Gly 115 120 125 Lys Met Val Ala Val Leu Asn Thr Pro Val Glu Val He Glu Glu Ala 130 135 140 Cys Gin Lys Ala Ser Glu Leu Gly Val Val Thr Pro Ala Asn Tyr Asn 145 150 155 160 Thr Pro Ala Gin He Val He Ala Gly Glu Val Val Ala Val Asp Arg 165 170 175 Ala Val Glu Leu Leu Gin Glu Ala Gly Ala Lys Arg Leu He Pro Leu 180 185 190 Lys Val Ser Gly Pro Phe His Thr Ala Leu Leu Glu Pro Ala Ser Gin 195 200 205 Lys Leu Ala Glu Thr Leu Ala Gin Val Ser Phe Ser Asp Phe Thr Cys 210 215 220 Pro Leu Val Gly Asn Thr Glu Ala Ala Val Met Gin Lys Glu Asp He 225 230 235 240 Ala Gin Leu Leu Thr Arg Gin Val Lys Glu Pro Val Arg Phe Tyr Glu 245 250 255 Ser He Gly Val Met Gin Glu Ala Gly He Ser Asn Phe He Glu He 260 265 270 Gly Pro Gly Lys Val Leu Ser Gly Phe Val Lys Lys He Asp Gin Thr 275 280 285 Ala His Leu Ala His Val Glu Asp Gin Ala Ser Leu Val Ala Leu Leu 290 295 300 Glu Lys 305 (2) INFORMATION FOR SEQ ID NO : 3 : (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 450 base pairs (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (ii) MOLECULE TYPE: Genomic DNA (xi) SEQUENCE DESCRIPTION: SEQ ID NO : 3 : CTGAAGAAAT CCTAAAAGAT TTGTATTACG GAGCCGCTAA GAAAATTCAA GAAGAAGCCT 60 CTCGCTGGGC AGGAGTTGTA AGAAATGACT AAAACAGCCT TTTTATTTGC TGGTCAAGGT 120 GCCCAGTATC TAGGGATGGG ACGGGATTTC TATGATCAGT ATCCGATTGT CAAAGAAACG 180 ATTGATCGAG CGAGTCAGGT GCTCGGTTAT GATTTACGTT ATCTCATCGA TACGGAAGAA 240 GACAAACTCA ATCAGACCCG CTATACGCAA CCAGCCATTC TAGCGACTTC GGTTGCTATC 300 TACCGTTTAT TGCAAGAAAA GGGCTATCAG CCTGATATGG TTGCTGGTTT GTCTCTTGGA 360 GAATACTCTG CCTTGGTGGC AAGCGGCGCC TTGGATTTTG AAGATGCGGT TGCCTTGGTA 420 GCTAAGCGTG GAGCCTATAT GGAAGAAGCG 450 (2) INFORMATION FOR SEQ ID NO : 4 : (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 122 amino acids (B) TYPE: amino acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (ii) MOLECULE TYPE: protein (xi) SEQUENCE DESCRIPTION: SEQ ID NO : 4 : Met Thr Lys Thr Ala Phe Leu Phe Ala Gly Gin Gly Ala Gin Tyr Leu 1 5 10 15 Gly Met Gly Arg Asp Phe Tyr Asp Gin Tyr Pro He Val Lys Glu Thr 20 25 30 He Asp Arg Ala Ser Gin Val Leu Gly Tyr Asp Leu Arg Tyr Leu He 35 40 45 Asp Thr Glu Glu Asp Lys Leu Asn Gin Thr Arg Tyr Thr Gin Pro Ala 50 55 60 He Leu Ala Thr Ser Val Ala He Tyr Arg Leu Leu Gin Glu Lys Gly 65 70 75 80 Tyr Gin Pro Asp Met Val Ala Gly Leu Ser Leu Gly Glu Tyr Ser Ala 85 90 95 Leu Val Ala Ser Gly Ala Leu Asp Phe Glu Asp Ala Val Ala Leu Val 100 105 110 Ala Lys Arg Gly Ala Tyr Met Glu Glu Ala 115 120 (2) INFORMATION FOR SEQ ID NO : 5 : (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 547 base pairs (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (ii) MOLECULE TYPE: Genomic DNA (xi) SEQUENCE DESCRIPTION: SEQ ID NO : 5 : TGCTGAACTT GGCAAGATGG TAGCAGTTCT CAATACGCCA GTAGAGGTCA TTGAAGAAGC 60 CTGTCAAAAG CTTCTGGAAC TTGGAGTGGT TACTCCAGCC AACTATAACA CACCTGCACA 120 AATCGTCATT GCTGGAGAAG TGGTTGCAGT TGATCGAGCG GTTGAACTTT TGCAAGAAGC 180 AGGTGCCAAA CGCTTGATTC CTCTTAAGGT GTCAGGTCCC TTTCACACCG CTCTCCTTGA 240 GCCTGCTAGC CAGAAACTAG CTGAAACTCT AGCTCAGGTA AGTTTTTCAG ATTTTACTTG 300 TCCCCTAGTC GGCAATACAG AAGCTGCTGT GATGCAAAAA GAGGACATTG CTCAGCTCTT 360 GACGCGTCAG GTCAAGGAAC CCGTTCGTTT CTATGAAAGT ATTGGGGTCA TGCAAGAAGC 420 AGGCATAAGC AACTTATTCG AGATTGGACC GGGGAAAGTC TTGTCAGGTT TTGTTAAAAA 480 AATTGATCAA ACTGCTCACT TAGCTCATGT GGAAGATCAA GCGAGTTTAG TAGCACTTTT 540 AGAAAAA 547 (2) INFORMATION FOR SEQ ID NO : 6 : (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 186 amino acids (B) TYPE: amino acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (ii) MOLECULE TYPE: protein (xi) SEQUENCE DESCRIPTION: SEQ ID NO : 6 : Ala Glu Leu Gly Lys Met Val Ala Val Leu Asn Thr Pro Val Glu Val 1 5 10 15 He Glu Glu Ala Cys Gin Lys Leu Leu Glu Leu Gly Val Val Thr Pro 20 25 30 Ala Asn Tyr Asn Thr Pro Ala Gin He Val He Ala Gly Glu Val Val 35 40 45 Ala Val Asp Arg Ala Val Glu Leu Leu Gin Glu Ala Gly Ala Lys Arg 50 55 60 Leu He Pro Leu Lys Val Ser Gly Pro Phe His Thr Ala Leu Leu Glu 65 70 75 80 Pro Ala Ser Gin Lys Leu Ala Glu Thr Leu Ala Gin Val Ser Phe Ser 85 90 95 Asp Phe Thr Cys Pro Leu Val Gly Asn Thr Glu Ala Ala Val Met Gin 100 105 110 Lys Glu Asp He Ala Gin Leu Leu Thr Arg Gin Val Lys Glu Pro Val 115 120 125 Arg Phe Tyr Glu Ser He Gly Val Met Gin Glu Ala Gly He Ser Asn 130 135 140 Leu Phe Glu He Gly Pro Gly Lys Val Leu Ser Gly Phe Val Lys Lys 145 150 155 160 He Asp Gin Thr Ala His Leu Ala His Val Glu Asp Gin Ala Ser Leu 165 170 175 Val Ala Leu Leu Glu Lys 180

Claims: What is claimed is: I. An isolated polynucleotide comprising a polynucleotide having at least a 70% identity to a polynucleotide encoding a polypeptide comprising the amino acid sequence of SEQ ID NO:2. 2. An isolated polynucleotide comprising a polynucleotide having at least a 70% identity to a polynucleotide encoding the same mature polypeptide expressed by the FabD gene contained in the Streptococcus pneumoniae of the deposited strain. 3. An isolated polynucleotide comprising a polynucleotide encoding a polypeptide comprising an amino acid sequence which is at least 70% identical to the amino acid sequence of SEQ ID NO:2. 4. An isolated polynucleotide that is complementary to the polynucleotide of claim 1 5. The polynucleotide of Claim 1 wherein the polynucleotide is DNA or RNA 6. The polynucleotide of Claim 1 comprising the nucleic acid sequence set forth in SEQ ID NO: 1. 7. The polynucleotide of Claim 1 comprising nucleotide 1 to the stop codon set forth in SEQ ID NO: 1. 8. The polynucleotide of Claim 1 which encodes a polypeptide comprising the amino acid sequence of SEQ ID NO:2. 9. A vector comprising the polynucleotide of Claim 1. 10. A host cell comprising the vector of Claim 9. I I. A process for producing a polypeptide comprising: expressing from the host cell of Claim 10 a polypeptide encoded by said DNA. 12. A process for producing a FabD polypeptide or fragment comprising culturing a host of claim 10 under conditions sufficient for the production of said polypeptide or fragment. 13. A polypeptide comprising an amino acid sequence which is at least 70% identical to the amino acid sequence of SEQ ID NO:2. 14. A polypeptide comprising an amino acid sequence as set forth in SEQ ID NO:2. 15. An antibody against the polypeptide of claim 14. 16. An antagonist which inhibits the activity or expression of the polypeptide of claim 14. 17. A method for the treatment of an individual in need of FabD polypeptide comprising: administering to the individual a therapeutically effective amount of the polypeptide of claim 14. 18. A method for the treatment of an individual having need to inhibit FabD polypeptide comprising: administering to the individual a therapeutically effective amount of the antagonist of Claim 14. 19. A process for diagnosing a disease related to expression or activity of the polypeptide of claim 14 in an individual comprising: (a) determining a nucleic acid sequence encoding said polypeptide, and/or (b) analyzing for the presence or amount of said polypeptide in a sample derived from the individual. 20. A method for identifying compounds which interact with and inhibit or activate an activity of the polypeptide of claim 14 comprising: contacting a composition comprising the polypeptide with the compound to be screened under conditions to permit interaction between the compound and the polypeptide to assess the interaction of a compound, such interaction being associated with a second component capable of providing a detectable signal in response to the interaction of the polypeptide with the compound; and determining whether the compound interacts with and activates or inhibits an activity of the polypeptide by detecting the presence or absence of a signal generated from the interaction of the compound with the polypeptide. 21. A method for inducing an immunological response in a mammal which comprises inoculating the mammal with FabD polypeptide of claim 14, or a fragment or variant thereof, adequate to produce antibody and/or T cell immune response to protect said animal from disease. 22. A method of inducing immunological response in a mammal which comprises delivering a nucleic acid vector to direct expression of FabD polypeptide of claim 14, or fragment or a variant thereof, for expressing said FabD polypeptide, or a fragment or a variant thereof in vivo in order to induce an immunological response to produce antibody and/ or T cell immune response to protect said animal from disease. 23. An isolated polynucleotide comprising a polynucleotide having at least a 70% identity to a polynucleotide encoding a polypeptide comprising the amino acid sequence of SEQ ID NO:4. 24. An isolated polynucleotide comprising a polynucleotide having at least a % identity to the polynucleotide sequence of SEQ ID NO:3.

Inventors: ALLER GLENN VAN, GENTRY DANIEL ROBERT, LONSDALE JOHN TIMOTHY, PAYNE DAVID JOHN, PEARSON STEWART CAMPBELL, ALLER, GLENN, VAN, GENTRY, DANIEL, ROBERT, LONSDALE, JOHN, TIMOTHY, PAYNE, DAVID, JOHN, PEARSON, STEWART, CAMPBELL
Applicants: ALLER GLENN VAN, GENTRY DANIEL ROBERT, LONSDALE JOHN TIMOTHY, PAYNE DAVID JOHN, PEARSON STEWART CAMPBELL, SMITHKLINE BEECHAM CORP, ALLER, GLENN, VAN, GENTRY, DANIEL, ROBERT, LONSDALE, JOHN, TIMOTHY, PAYNE, DAVID, JOHN, PEARSON, STEWART, CAMPBELL, SMITHKLINE BEECHAM CORPORATION
Application year: 1997
Main classification: A61K39
IPC codes: A61K31, A61K35, A61K38, A61K39, A61K45, A61K48, A61P9, A61P11, A61P25, A61P27, A61P31, C07K14, C07K16, C12N1, C12N5, C12N9, C12N15, G01N33