TABLE 3.
Coding regions of the 41-kb insert of pLINA57 from S. paucimobilis B90A
| Protein | Length (amino acids) | % Identity/% similarity | Putative function | Best hit bacterium (accession no.) |
|---|---|---|---|---|
| ORFA | 306 | 39/49 | Hypothetical protein | Novosphingobium aromaticivorans (ZP_00093610) |
| ORFB | 323 | 47/66 | TPP-dependent acetoin dehydrogenase alpha subunit | Clostridium magnum (AAA21744) |
| ORFC | 327 | 47/64 | Acetoin dehydrogenase (TPP dependent) beta subunit | Clostridium magnum (I40791) |
| ORFC1 | 79 | 45/67 | Partial dihydrolipoamide acetyltransferase | Klebsiella pneumoniae (AAC13741) |
| ORFD | 846 | 31/48 | pfam00593, TonB_boxC, TonB-dependent receptor C-terminal region | Novosphingobium aromaticivorans (ZP_00095375) |
| ORFE | 313 | 44/52 | COG1975, xanthine and CO dehydrogenases, maturation factor | Magnetospirillum magnetotacticum (ZP_00054040) |
| ORFF | 330 | 41/59 | COG0303, MoeA, molybdopterin biosynthesis enzyme | Brucella melitensis (AAL53083) |
| ORFG | 448 | 68/80 | COG1249, pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component | Novosphingobium aromaticivorans (ZP_00094170) |
| ORFH | 412 | 72/82 | COG1960, acyl-coenzyme A dehydrogenases | Novosphingobium aromaticivorans (ZP_00095926) |
| LinX1 | 250 | 99/99 | 2,5-Dichloro-2,5-cyclohexadiene-1,4-diol dehydrogenase (pfam00106, short-chain dehydrogenase) | Sphingomonas paucimobilis UT26 (BAA04939) |
| LinX2 | 250 | 65/81 | 2,5-Dichloro-2,5-cyclohexadiene-1,4-diol dehydrogenase (pfam00106, short-chain dehydrogenase) | Sphingomonas paucimobilis UT26 (BAA04939) |
| LinA1 | 154 | 92/95 | γ-Hexachlorocyclohexane dehydrochlorinase | Sphingomonas paucimobilis UT26 (BAA14369) |
| TnpA1 | 264 | 100/100 | Transposase of IS6100 (COG3316, transposase and inactivated derivatives) | Aeromonas salmonicida (CAD57187) |
| ORFJ | 98 | 80/88 | Putative glutathione S-transferase (COG0625, glutathione S-transferase) | Sphingobium chlorophenolicum (AAM96661) |
| ORFK | 205 | 86/92 | pfam02230, αβ-hydrolase_2, phospholipase/carboxylesterase | Sphingobium chlorophenolicum (AAM96663) |
| ORFL | 175 | 94/96 | Chloromaleylacetate reductase (COG1454, alcohol dehydrogenase, class IV) | Sphingobium chlorophenolicum (AAM96664) |
| TnpA2 | 264 | 100/100 | Transposase of IS6100 (COG3316, transposase and inactivated derivatives) | Aeromonas salmonicida (CAD57187) |
| LinC | 250 | 98/98 | 2,5-Dichloro-2,5-cyclohexadiene-1,4-diol dehydrogenase (pfam00106, short-chain dehydrogenase) | Sphingomonas paucimobilis UT26 (BAA04939) |
| ′ORFM | (451) | 30/49 | pfam00593, TonB-dependent receptor C-terminal region | Novosphingobium aromaticivorans (ZP_00095375) |
| TnpA3 | 264 | 100/100 | Transposase of IS6100 (COG3316, transposase and inactivated derivatives) | Aeromonas salmonicida (CAD57187) |
| ORFN | (86) | 37/59 | Outer membrane protein (COG3047, outer membrane protein W) | Pseudomonas putida KT2440 (AAN66132) |
| ORFO | 254 | 62/72 | Hypothetical regulator (COG0664, cAMP-binding protein-catabolite gene activator) | Novosphingobium aromaticivorans (ZP_00096011) |
| ORFP | 552 | 78/86 | COG3278, cbb3-type cytochrome oxidase, subunit 1 | Novosphingobium aromaticivorans (ZP_00096008) |
| ORFQ | 248 | 81/88 | pfam02433, cytochrome c oxidase, monoheme subunit | Novosphingobium aromaticivorans (ZP_00096007) |
| ORFR | 295 | 59/75 | COG2010, cytochrome c, mono- and diheme variants | Novosphingobium aromaticivorans (ZP_00096005) |
| ORFS | 476 | 69/80 | COG0348, polyferredoxin | Novosphingobium aromaticivorans (ZP_00096004) |
| ORFT | 158 | 46/62 | COG5456, predicted integral membrane protein linked to a cation pump | Novosphingobium aromaticivorans (ZP_00096003) |
| ORFU | 710 | 58/71 | COG2217, cation transport ATPase | Novosphingobium aromaticivorans (ZP_00096002) |
| ORFV | 1,200 | 70/79 | Bifunctional proline dehydrogenase/δ-1-pyrroline-5- carboxylate dehydrogenase (COG4230, δ-1- pyrroline-5-carboxylate dehydrogenase; COG0506, proline dehydrogenase | Sinorhizobium meliloti (CAC41903) |
| ORFW | 233 | 54/64 | COG2755, lysophospholipase L1 and related esterases | Novosphingobium aromaticivorans (ZP_00094852) |
| ORFX | 233 | 68/81 | COG4181, predicted ABC-type transporter involved in lysophospholipase L1 biosynthesis, ATPase component | Novosphingobium aromaticivorans (ZP_00094853) |
| ORFY | 840 | 50/64 | COG3127, predicted ABC-type transporter involved in lysophospholipase L1 biosynthesis, permease component | Novosphingobium aromaticivorans (ZP_00094854) |
| ORFZ | (590) | 43/62 | Two-component hybrid sensor and regulator | Pseudomonas fluorescens (ZP_00084332) |