Table 3.

Genes and gene products

GeneLocation (bp)Gene productDeduced mol wt (amino acid residues)Related proteins, accession no., % identity/amino acid residues
tnpR999–349Transposon resolvase24,495 (216)Resolvases for a transposon from Enterobacter cloacaeY09025 , 75%; Tn1721 and Tn4653, P06692 , 75%, Tn501, K01725 , 73%; Tn21, M10791 , 73%
tnpX2379–111444,552 (421)
pcmF5384–4410Dehydrogenase34,077 (324)Putative aldo-keto reductases from: Streptomyces clavuligerus,AAD30468 , 43%; Deinococcus radiodurans, AE002058 , 42%
pcmB6334–53812-Hydroxy-4-carboxymuconic semialdehyde dehydrogenase34,665 (317)2-Hydroxy-4-carboxymuconate semialdehyde dehydrogenase (LigC) from Sphingomonas paucimobilis SYK-6, BAA97119 , 71%
pcmA7661–6360Protocatechuate 4,5-dioxygenase48,131 (433)Putative protocatechuate-4,5-dioxygenase from Sphingomonas sp. strain LB126: α subunit (FldV), CAB87562 , 61% in 90 residues; β subunit (FldU), CAB 87561, 63% in 276 residues; protocatechuate 4,5-dioxygenase from S. paucimobilis SYK-6: α subunit (LigA), P22635, 62% in 117 residues; β subunit (LigB), P22636, 55% in 283 residues
pcmC8601–76632-Pyrone-4,6-dicarboxylate hydrolase35,362 (312)Putative 2-pyrone-4,6-dicarboxylate hydrolase (FldB) from Sphingomonas sp. strain LB126, CAB87568, 57% in 284 residues; 2-pyrone-4,6-dicarboxylate hydrolase (LigI) from S. paucimobilis SYK-6, BAA33799, 52% in 286 residues
pcmE9293–86014-Oxalocitramalate aldolase24,442 (230)Putative acyl transferase (FldZ) fromSphingomonas sp. strain LB126, CAB875 66, 59%; putative transferase from Streptomyces coelicolor A3(2), CAA16197, 32% in 132 residues; putatived-arabino-3-hexulose-6-phosphate formaldehyde lyase fromArchaeoglobus fulgidus, AAB90381, 36% in 113 residues
pcmD10333–93054-Oxalomesaconate hydratase38,096 (342)4-Oxalmesaconate hydratase (LigJ) fromS. paucimobilis SYK-6, BAA97116, 63%; putative hydratase (FldW) from Sphingomonas sp. strain LB126, CAB87563, 62%
pcmR10479–11384pcm operon regulator33,365 (301)Putative LysR family regulator fromS. coelicolor A3(2), CAB76357, 38% in 281 residues; salicylate degradation regulator (SalR) from Acinetobactersp. strain ADP1, AAF04311, 27% in 285 residues
ptrD13233–13895Transporter, substrate-binding protein23,574 (220)Sulfate ester binding protein (AtsR) fromPseudomonas putida S-313, AAD31785, 21% in 220 residues; putative sulfate ester binding protein (AtsR) from P. aeruginosa PAO, CAA88422, 21% in 173 residues
ptrA13892–14719Transporter, ATPase30,375 (275)Transporter ATPases: putative fromMethanococcus jannaschii Q57855, 49% in 250 residues; putative from Synechocystis sp. strain PC6803, P73265, 46% in 222 residues; chromate resistance (ChrD) from Ralstonia eutropha CH3 4, AAD21772, 44% in 229 residues; taurine transport (TauB) from Escherichia coli, Q47538, 44% in 208 residues; sulfate ester transporter (AtsC) from P. putida S-313, AAD31787, 42% in 251 residues
ptrB14716–15516Transporter, permease 129,049 (266)Transporter permeases: PtrC (below), 29% in 240 residues; putative from D. radiodurans, AAF10090, 27% in 238 residues; putative from Thermatoga maritima, AAD35570, 25% in 236 residues; sulfate ester transporter (AtsB) fromP. putida, AAD31786, 23% in 248 residues
ptrC15513–16307Transporter, permease 227,800 (264)Transporter permeases: PtrB (above), 29% in 240 residues; sulfonate transporter (SrpM) from Synechococcussp. strain PCC942, AAD53164, 30% in 233 residues; sulfonate transporter (SsuC) from P. putida S-313, AAC31906, 29% in 239 residues; sulfate ester transporter (AtsB) from P. putida, AAD31786, 27% in 248 residues
pehA16382–17038Putative phthalate ester hydrolase23,898 (218)N-Carbamoylsarcosine amidohydrolase from Arthrobacter sp., P32400, 34% in 213 residues
norA17260–17880Antibiotic resistance transporter, fragmentHypothetical membrane transporter fromS. coelicolor A3(2), CAB46807, 27% in 219 residues; quinolone resistance efflux transporter (NorA) fromStaphylococcus aureus, AB019536 , 22% in 134 residues
phtB18347–192103,4-Dihydroxy-3,4-dihydrophthalate dehydrogenase31,839 (287)Putative oxidoreductase from S. coelicolor A3(2), CAA22355 , 44% in 264 residues; morphine 6-dehydrogenase from P. putida M10, Q02198 , 42% in 276 residues; 2,5-diketo-d-gluconate reductase fromZymomonas mobilis ZM4, AAD42404 , 42% in 276 residues
phtAa19376–20797Phthalate dioxygenase, large subunit53,416 (473)Dioxygenases, large subunits: aromatic dioxygenase (NidA) from Rhodococcus sp. strain 124,AF121905 , 45% in 427 residues; naphthalene dioxygenase (NarAa) fromRhodococcus sp. strain NCIMB12038, AF082663 , 43% in 457 residues
phtAb20801–21400Phthalate dioxygenase, small subunit22,611 (199)Dioxygenases, small subunits: naphthalene dioxygenase (RnoA4) from Rhodococcus sp. strain CIR2, AB024936 , 44% in 155 residues; aromatic dioxygenase (NidB) fromRhodococcus sp. strain I24, AF121905 , 44% in 155 residues
phtAc21752–21946Phthalate dioxygenase, ferredoxin6,768 (64)3Fe-4S ferredoxins: SubB, fromStreptomyces griseolus, P18325 , 42%; fromThermococcus litoralis, P29604 , 42%; phenanthrene dioxygenase subunit (PhdC) from Nocardioides sp. strain KP7,BAA94713 , 34%
phtAd21968–23179Phthalate dioxygenase, ferredoxin reductase42,920 (403)Hypothetical ferredoxin reductase from Mycobacterium tuberculosis H37Rv,CAB06451 , 36% in 394 residues; rhodocoxin reductase fromRhodococcus erythropolis, P43494 , 36% in 387 residues; phenanthrene dioxygenase ferredoxin reductase subunit fromNocardioides sp. strain KP7, BAA84715 , 34% in 391 residues
phtC23179–239253,4-Dihydroxyphthalate decarboxylase26,011 (248)Fuculose-1-phosphate aldolases: fromMethanobacterium thermoautotrophicum, AAB85883 , 30% in 187 residues; S. coelicolor A3(2), AL132644 , 30% in 208 residues
phtR23982–24773phtoperon regulator28,691 (263)Hypothetical regulator from E. coli K-12 MG1655, P77300 , 30% in 241 residues; repressor of the aceBAK operon (IclR) from E. coli K-12, AAA50561 , 28% in 249 residues