TABLE 3.
BLAST matches of the ATCC 17616 gene productsa
| Region and gene | Transcrip- tional direction | Product (no. of aa)b | Protein name and/or predicted function | Matching speciesc | Accession no. | No. (%) of amino acids with identity to those of matching species/total no. examined | No. (%) of amino acids with similarity to those of matching species/total no. examined |
|---|---|---|---|---|---|---|---|
| his | |||||||
| murAd | + | 65 | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | R. solanacearum | AL646072 | 48/62 (77) | 55/62 (88) |
| hisG | + | 217 | ATP phosphoribosyl transferase | Neisseria meningitidis | AE002508 | 140/205 (68) | 163/205 (79) |
| hisD | + | 438 | Histidinol dehydrogenase | R. solanacearum | AL646072 | 344/437 (78) | 374/437 (84) |
| hisC | + | 364 | Histidinol-phosphate aminotransferase | R. solanacearum | AL646072 | 219/359 (61) | 259/359 (72) |
| hisB | + | 195 | Imidazoleglycerol-phosphate dehydratase | R. solanacearum | AL646072 | 173/194 (89) | 183/194 (94) |
| orf1 | + | 206 | Probable transmembrane protein | R. solanacearum | AL646072 | 131/206 (63) | 160/206 (77) |
| hisH | + | 213 | Glutamine amidotransferase | R. solanacearum | AL646072 | 155/216 (71) | 172/216 (78) |
| hisA | + | 251 | Phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase | R. solanacearum | AL646072 | 198/244 (81) | 217/244 (88) |
| hisF | + | 257 | Imidazole glycerol phosphate synthase | R. solanacearum | AL646072 | 226/255 (88) | 239/255 (93) |
| hisI | + | 138 | Phosphoribosyl-AMP cyclohydrolase | R. solanacearum | AL646072 | 95/127 (74) | 112/127 (87) |
| hisE | + | 121 | Phosphoribosyl-ATP pyrophosphatase | R. solanacearum | AL646072 | 71/106 (66) | 84/106 (78) |
| orf2 | + | 130 | Probable transmembrane protein | R. solanacearum | AL646072 | 52/105 (49) | 59/105 (55) |
| trpEGDC | |||||||
| rped | + | 196 | Ribulose-phosphate 3-epimerase | R. solanacearum | AL646072 | 145/202 (71) | 162/202 (79) |
| gph | + | 256 | Phosphoglycolate phosphatase | R. solanacearum | AL646072 | 115/226 (50) | 138/226 (60) |
| trpE | + | 493 | Anthranilate synthase component I | R. solanacearum | AL646072 | 355/466 (76) | 395/466 (84) |
| trpG | + | 195 | Anthranilate synthase component II | R. solanacearum | AL646072 | 146/187 (78) | 167/187 (89) |
| trpD | + | 343 | Anthranilate phosphoribosyltransferase | R. solanacearum | AL646072 | 282/345 (81) | 311/345 (89) |
| trpC | + | 261 | Indole-3-glycerol phosphate synthase | P. aeruginosae | AE004500 | 160/260 (61) | 186/260 (71) |
| orf3 | + | 208 | Conserved hypothetical protein | R. solanacearum | AL646072 | 76/188 (40) | 92/188 (48) |
| ung | + | 301 | Uracil-DNA glycosylase | R. solanacearum | AL646072 | 148/234 (63) | 169/234 (71) |
| leuCDB-trpFBA | |||||||
| orf4d | + | 106 | Probable lipoprotein transmembrane | R. solanacearum | AL646083 | 51/93 (54) | 64/93 (67) |
| leuC | + | 477 | 3-Isopropylmalate dehydratase (large subunit) | R. solanacearum | AL646067 | 390/469 (83) | 420/469 (89) |
| leuD | + | 216 | 3-Isopropylmalate dehydratase (small subunit) | R. solanacearum | AL646067 | 185/216 (85) | 200/216 (91) |
| leuB | + | 355 | 3-Isopropylmalate dehydrogenase oxidoreductase | R. solanacearum | AL646067 | 303/354 (85) | 321/354 (90) |
| asd | + | 373 | Aspartate-semialdehyde dehydrogenase | P. aeruginosae | AE004736 | 272/371 (73) | 309/371 (82) |
| orf5 | + | 753 | Probable transmembrane protein | R. solanacearum | AL646067 | 28/71 (39) | 40/71 (55) |
| truA | + | 270 | tRNA pseudouridine synthase | R. solanacearum | AL646067 | 172/259 (66) | 202/259 (77) |
| trpF | + | 235 | N-(5′-phosphoribosyl) anthranilate isomerase | R. solanacearum | AL646067 | 127/207 (61) | 149/207 (71) |
| trpB | + | 417 | Tryptophan synthase (beta chain) | R. solanacearum | AL646067 | 347/400 (86) | 375/400 (93) |
| orf6 | + | 283 | Probable DNA-methyltransferase | R. solanacearum | AL646067 | 176/243 (72) | 206/243 (84) |
| trpA | + | 271 | Tryptophan synthase (alpha chain) | R. solanacearum | AL646067 | 171/264 (64) | 201/264 (75) |
| accDd | + | 87 | Acetyl-CoA carboxylase (beta subunit) | R. solanacearum | AL646067 | 73/87 (83) | 82/87 (93) |
| argH | |||||||
| orf7d | − | 206 | Putative biotin synthesis protein | E. coli | AP002550 | 109/202 (53) | 136/202 (66) |
| orf8 | + | 269 | Hypothetical protein | Mesorhizobium loti | AP002997 | 85/261 (32) | 125/261 (47) |
| argH | + | 469 | Argininosuccinate lyase | R. solanacearum | AL646069 | 380/458 (82) | 408/458 (88) |
| cbbYd | + | 164 | CbbY family protein | V. cholerae | AE004353 | 65/166 (39) | 91/166 (54) |
| argG | |||||||
| orf9d | + | 68 | Hypothetical protein | Xanthomonas axonopodis | AE011766 | 31/59 (52) | 37/59 (62) |
| orf10 | + | 323 | Probable transmembrane protein | R. solanacearum | AL646476 | 174/320 (54) | 218/320 (67) |
| orfG | + | 445 | Argininosuccinate synthase | N. meningitidise | AE002561 | 348/438 (79) | 383/438 (86) |
| orf11 | + | 126 | Hypothetical protein | Nf | |||
| orf12 | + | 336 | Hypothetical protein | Nf | |||
| orf13 | + | 102 | Hypothetical protein | Nf | |||
| lysA | |||||||
| lysR | − | 315 | Positive regulator for lys genes | Yersinia pestisg | AE013919 | 147/304 (48) | 203/304 (66) |
| lysA | + | 412 | Diaminopimelate decarboxylase | Salmonella enterica serovar Typhimurium | AE008838 | 268/407 (65) | 319/407 (77) |
| orf14 | − | 61 | Hypothetical protein | Agrobacterium tumefaciens | AE007963 | 25/44 (56) | 33/44 (74) |
a
Standard analysis with the default parameters was carried out using the DDBJ/EMBL/GenBank databases available on March 5, 2003.
b
Deduced length of amino acid residues.
c
Matches to other Burkholderia strains are not listed because the print and online articles describing their genome sequences have not yet been published.
d
The gene has not been fully sequenced.
e
The product also showed high homology to the corresponding product of R. solanacearum. TrpC: identity, 66% (167/266); similarity, 71% (191/266). Asd: identity, 69% (261/373); similarity, 81% (307/373). ArgG: identity, 78% (347/443): similarity, 87% (387/443).
f
N, significant homology was not detected in the databases.
g
Homology to the R. solanacearum counterpart was not high (see text).