Novel purified polypeptides from bacteria

A crystallized, recombinant polypeptide comprising:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 112 or SEQ ID NO:
• 114;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 112 or SEQ ID NO:
• 114;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 111 or SEQ ID NO:
• 113 and has at least one biological activity of histidyl-tRNA synthetase from Haemophilus influenzae;
• wherein the polypeptide of (a), (b) or (c) is in crystal form.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 5 or SEQ ID NO:
• 7;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 5 or SEQ ID NO:
• 7;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 4 or SEQ ID NO:
• 6 and has at least one biological activity of (5-methylaminomethyl-2-thiouridylate)-methyltransferase from Staphylococcus aureus;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 14 or SEQ ID NO:
• 16;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 14 or SEQ ID NO:
• 16;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 13 or SEQ ID NO:
• 15 and has at least one biological activity of putative O-sialoglycoprotein endopeptidase from Staphylococcus aureus;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide comprising:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 23 or SEQ ID NO:
• 25;
• (b) an amino acid sequence having at least about 90% identity with the amino acid sequence set forth in SEQ ID NO:
• 23 or SEQ ID NO:
• 25;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 22 or SEQ ID NO:
• 24 and has at least one biological activity of glycine tRNA synthetase, alpha subunit from Streptococcus pneumoniae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 32 or SEQ ID NO:
• 34;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 32 or SEQ ID NO:
• 34;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 31 or SEQ ID NO:
• 33 and has at least one biological activity of orf, hypothetical protein from Streptococcus pneumoniae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 41 or SEQ ID NO:
• 43;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 41 or SEQ ID NO:
• 43;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 40 or SEQ ID NO:
• 42 and has at least one biological activity of translation elongation factor G from Enterococcus faecalis;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 50 or SEQ ID NO:
• 52;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 50 or SEQ ID NO:
• 52;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 49 or SEQ ID NO:
• 51 and has at least one biological activity of putative 0-sialoglycoprotein endopeptidase from Pseudomonas aeruginosa;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 59 or SEQ ID NO:
• 61;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 59 or SEQ ID NO:
• 61;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 58 or SEQ ID NO:
• 60 and has at least one biological activity of methionine aminopeptidase from Pseudomonas aeruginosa;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 147 or SEQ ID NO:
• 69;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 147 or SEQ ID NO:
• 69;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 67 or SEQ ID NO:
• 68 and has at least one biological activity of GTP-binding protein chain elongation factor EF-G from Streptococcus pneumoniae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 76 or SEQ ID NO:
• 78;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 76 or SEQ ID NO:
• 78;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ]ID NO:
• 75 or SEQ ID NO:
• 77 and has at least one biological activity of phenylalanine tRNA synthetase, alpha-subunit from Enterococcus faecalis;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 85 or SEQ ID NO:
• 87;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 85 or SEQ ID NO:
• 87;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 84 or SEQ ID NO:
• 86 and has at least one biological activity of peptide chain release factor RF-2 from Escherichia coli;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 94 or SEQ ID NO:
• 96;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 94 or SEQ ID NO:
• 96;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 93 or SEQ ID NO:
• 95 and has at least one biological activity of tRNA methyltransferase;
• tRNA (guanine-7-)-methyltransferase from Escherichia coli;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 103 or SEQ ID NO:
• 105;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 103 or SEQ ID NO:
• 105;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 102 or SEQ ID NO:
• 104 and has at least one biological activity of methionine aminopeptidase, type I from Enterococcus faecalis;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 121 or SEQ ID NO:
• 123;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 121 or SEQ ID NO:
• 123;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 120 or SEQ ID NO:
• 122 and has at least one biological activity of methionine aminopeptidase, type I from Haemophilus influenzae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 130 or SEQ ID NO:
• 132;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 130 or SEQ ID NO:
• 132;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 129 or SEQ ID NO:
• 131 and has at least one biological activity of methionine aminopeptidase, type I from Staphylococcus aureus;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 139 or SEQ ID NO:
• 141;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 139 or SEQ ID NO:
• 141;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 138 or SEQ ID NO:
• 140 and has at least one biological activity of methionine aminopeptidase, type I from Streptococcus pneumoniae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 149 or SEQ ID NO:
• 151;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 149 or SEQ ID NO:
• 151;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 148 or SEQ ID NO:
• 150 and has at least one biological activity of ribulose-phosphate 3-epimerase from S. aureus;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 158 or SEQ ID NO:
• 160;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 158 or SEQ ID NO:
• 160;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 157 or SEQ ID NO:
• 159 and has at least one biological activity of ribulose-phosphate 3-epimerase from E. coli;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide comprising:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 167 or SEQ ID NO:
• 169;
• (b) an amino acid sequence having at least about 90% identity with the amino acid sequence set forth in SEQ ID NO:
• 167 or SEQ ID NO:
• 169;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 166 or SEQ ID NO:
• 168 and has at least one biological activity of acetyl-CoA carboxylase transferase beta subunit from S. aureus;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 176 or SEQ ID NO:
• 178;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 176 or SEQ ID NO:
• 178;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 175 or SEQ ID NO:
• 177 and has at least one biological activity of DNA gyrase subunit B from S. pneumoniae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 185 or SEQ ID NO:
• 187;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 185 or SEQ ID NO:
• 187;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 184 or SEQ ID NO:
• 186 and has at least one biological activity of biotin carboxylase from S. aureus;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 194 or SEQ ID NO:
• 196;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 194 or SEQ ID NO:
• 196;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to -the complementary strand of a polynucleotide having SEQ ID NO:
• 193 or SEQ ID NO:
• 195 and has at least one biological activity of biotin carboxylase from P. aeruginosa;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 203 or SEQ ID NO:
• 205;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 203 or SEQ ID NO:
• 205;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 202 or SEQ ID NO:
• 204 and has at least one biological activity of ribulose-phosphate 3-epimerase from P. aeruginosa;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 212 or SEQ ID NO:
• 214;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 212 or SEQ ID NO:
• 214;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 211 or SEQ ID NO:
• 213 and has at least one biological activity of riboflavin kinase/FAD synthase from S. pneumoniae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 221 or SEQ ID NO:
• 223;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 221 or SEQ ID NO:
• 223;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 220 or SEQ ID NO:
• 222 and has at least one biological activity of phosphopantetheine adenylyltransferase from S. pneumoniae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 230 or SEQ ID NO:
• 232;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 230 or SEQ ID NO:
• 232;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 229 or SEQ ID NO:
• 231 and has at least one biological activity of inorganic pyrophosphatase from H. influenzae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 239 or SEQ ID NO:
• 241;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 239 or SEQ ID NO:
• 241;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 238 or SEQ ID NO:
• 240 and has at least one biological activity of phosphoglucosamine mutase from P. aeruginosa;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 248 or SEQ ID NO:
• 250;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 248 or SEQ ID NO:
• 250;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 247 or SEQ ID NO:
• 249 and has at least one biological activity of UDP-N-acetylglucosamine 1-carboxyvinyl transferase 1 from P. aeruginosa;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 257 or SEQ ID NO:
• 259;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 257 or SEQ ID NO:
• 259;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 256 or SEQ ID NO:
• 258 and has at least one biological activity of UDP-N-acetylglucosamine 1-carboxyvinyltransferase 1 from S. aureus;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide comprising:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 266 or SEQ i) NO:
• 268;
• (b) an amino acid sequence having at least about 90% identity with the amino acid sequence set forth in SEQ ID NO:
• 266 or SEQ ID NO:
• 268;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 265 or SEQ ID NO:
• 267 and has at least one biological activity of CTP:CMP-3-deoxy-D-manno-octulosonate transferase from E. coli;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 275 or SEQ ID NO:
• 277;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 275 or SEQ ID NO:
• 277;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 274 or SEQ ID NO:
• 276 and has at least one biological activity of UDP-N-acetylmuramoylalanyl-D-glutamate-2,6-diaminopimelate ligase from P. aeruginosa;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 284 or SEQ ID NO:
• 286;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 284 or SEQ ID NO:
• 286;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 283 or SEQ ID NO:
• 285 and has at least one biological activity of D-alanine:D-alanine-adding enzyme from S. aureus;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 293 or SEQ ID NO:
• 295;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 293 or SEQ ID NO:
• 295;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 292 or SEQ ID NO:
• 294 and has at least one biological activity of D-alanine:D-alanine-adding enzyme from P. aeruginosa;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 302 or SEQ ID NO:
• 304;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 302 or SEQ ID NO:
• 304;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 301 or SEQ ID NO:
• 303 and has at least one biological activity of D-alanine-D-alanine ligase from E. faecalis;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 311 or SEQ ID NO:
• 313;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 311 or SEQ ID NO:
• 313;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 310 or SEQ ID NO:
• 312 and has at least one biological activity of UDP-N-acetylpyruvoylglucosamine reductase from P. aeruginosa;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 320 or SEQ ID NO:
• 322;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 320 or SEQ ID NO:
• 322;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 319 or SEQ ID NO:
• 321 and has at least one biological activity of UDP-N-acetylglucosamine 1-carboxyvinyltransferase 1 from S. pneumoniae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 329 or SEQ ID NO:
• 331;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 329 or SEQ ID NO:
• 331;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 328 or SEQ ID NO:
• 330 and has at least one biological activity of UDP-N-acetylglucosamine pyrophosphorylase from E. faecalis;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 338 or SEQ ID NO:
• 340;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 338 or SEQ ID NO:
• 340;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 337 or SEQ ID NO:
• 339 and has at least one biological activity of UDP-N-acetylmuramoylalanine-D-glutamate ligase from E. faecalis;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 347 or SEQ ID NO:
• 349;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 347 or SEQ ID NO:
• 349;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 346 or SEQ ID NO:
• 348 and has at least one biological activity of UDP-N-acetyl-muramate:alanine ligase from E. coli;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 356 or SEQ ID NO:
• 358;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 356 or SEQ ID NO:
• 358;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 355 or SEQ ID NO:
• 357 and has at least one biological activity of aspartate semialdehyde dehydrogenase from H. influenzae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 365 or SEQ ID NO:
• 367;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 365 or SEQ ID NO:
• 367;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 364 or SEQ ID NO:
• 366 and has at least one biological activity of CTP:CMP-3-deoxy-D-manno-octulosonate transferase from H. influenzae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 374 or SEQ ID NO:
• 376;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 374 or SEQ ID NO:
• 376;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 373 or SEQ ID NO:
• 375 and has at least one biological activity of UDP-N-acetylenolpyruvoylglucosamine reductase from H. influenzae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 383 or SEQ ID NO:
• 385;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 383 or SEQ ID NO:
• 385;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 382 or SEQ ID NO:
• 384 and has at least one biological activity of UDP-N-acetylglucosamine pyrophosphorylase from H. influenzae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 392 or SEQ ID NO:
• 394 or;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 392 or SEQ ID NO:
• 394;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 391 or SEQ ID NO:
• 393 and has at least one biological activity of UDP-N-acetylmuramoylalanyl-D-glutamate from H. influenzae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 401 or SEQ ID NO:
• 403;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 401 or SEQ ID NO:
• 403;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 400 or SEQ ID NO:
• 402 and has at least one biological activity of UDP-N-acetylmuramoylalanine-D-glutamate ligase from H. influenzae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 410 or SEQ ID NO:
• 412;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 410 or SEQ ID NO:
• 412;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 409 or SEQ ID NO:
• 411 and has at least one biological activity of UDP-N-acetylglucosamine pyrophosphorylase from S. aureus;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 419 or SEQ ID NO:
• 421;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 419 or SEQ ID NO:
• 421;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 418 or SEQ ID NO:
• 420 and has at least one biological activity of deoxyuridine 5′triphosphate nucleotidohydrolase from S. pneumoniae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 428 or SEQ ID NO:
• 430;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 428 or SEQ ID NO:
• 430;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 427 or SEQ ID NO:
• 429 and has at least one biological activity of guanylate kinase from S. aureus;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide comprising:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 437 or SEQ ID NO:
• 439;
• (b) an amino acid sequence having at least about 90% identity with the amino acid sequence set forth in SEQ ID NO:
• 437 or SEQ ID NO:
• 439;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 436 or SEQ ID NO:
• 438 and has at least one biological activity of adenine phosphoribosyltransferase from P. aeruginosa;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 446 or SEQ ID NO:
• 448;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 446 or SEQ ID NO:
• 448;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 445 or SEQ ID NO:
• 447 and has at least one biological activity of phosphoribosylpyrophosphate synthetase from P. aeruginosa;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 455 or SEQ ID NO:
• 457;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 455 or SEQ ID NO:
• 457;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 454 or SEQ ID NO:
• 456 and has at least one biological activity of guanylate kinase from P. aeruginosa;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 464 or SEQ ID NO:
• 466;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 464 or SEQ ID NO:
• 466;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 463 or SEQ ID NO:
• 465 and has at least one biological activity of thymidylate synthase from E. faecalis;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 473 or SEQ ID NO:
• 475;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 473 or SEQ ID NO:
• 475;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 472 or SEQ ID NO:
• 474 and has at least one biological activity of uridylate kinase from E. faecalis;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 482 or SEQ ID NO:
• 484;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 482 or SEQ ID NO:
• 484;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 481 or SEQ ID NO:
• 483 and has at least one biological activity of guanylate kinase from E. coli;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 491 or SEQ ID NO:
• 493;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 491 or SEQ ID NO:
• 493;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 490 or SEQ ID NO:
• 492 and has at least one biological activity of adenine phosphoribosyltransferase from E. faecalis;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 500 or SEQ ID NO:
• 502;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 500 or SEQ ID NO:
• 502;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 499 or SEQ ID NO:
• 501 and has at least one biological activity of guanylate kinase from E. faecalis;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 509 or SEQ ID NO:
• 511;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 509 or SEQ ID NO:
• 511;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ. ID NO:
• 508 or SEQ ID NO:
• 510 and has at least one biological activity of ribose-phosphate pyrophosphokinase from E. faecalis;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 518 or SEQ ID NO:
• 520;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 518 or SEQ ID NO:
• 520;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 517 or SEQ ID NO:
• 519 and has at least one biological activity of thymidylate synthase from H. influenzae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 527 or SEQ ID NO:
• 529;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 527 or SEQ ID NO:
• 529;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 526 or SEQ ID NO:
• 528 and has at least one biological activity of adenine phosphoribosyltransferase from H. influenzae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 536 or SEQ ID NO:
• 538;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 536 or SEQ ID NO:
• 538;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 535 or SEQ ID NO:
• 537 and has at least one biological activity of guanylate kinase from H. influenzae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 545 or SEQ ID NO:
• 547;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 545 or SEQ ID NO:
• 547;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 544 or SEQ ID NO:
• 546 and has at least one biological activity of thymidylate synthase from P. aeruginosa;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 554 or SEQ ID NO:
• 556;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 554 or SEQ ID NO:
• 556;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 553 or SEQ ID NO:
• 555 and has at least one biological activity of thymidylate synthase from S. pneumoniae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.

A composition comprising an isolated, recombinant polypeptide, wherein the polypeptide comprises:

• (a) an amino acid sequence set forth in SEQ ID NO:
• 563 or SEQ ID NO:
• 565 or;
• (b) an amino acid sequence having at least about 95% identity with the amino acid sequence set forth in SEQ ID NO:
• 563 or SEQ ID NO:
• 565;
• or (c) an amino acid sequence encoded by a polynucleotide that hybridizes under stringent conditions to the complementary strand of a polynucleotide having SEQ ID NO:
• 562 or SEQ ID NO:
• 564 and has at least one biological activity of cytidine/deoxycytidylate deaminase family protein from S. pneumoniae;
• and wherein the polypeptide of (a), (b) or (c) is at least about 90% pure in a sample of the composition.