TABLE 2.
ORFs found in four pCAR3 loci, which contain the genes probably involved in carbazole conversion to anthranilate
| Locus and accession no. | Position (bp) in sequence (directiona) | Name of gene | GC content (%) | No. of amino acids | Probable function | Homologous protein
|
|||
|---|---|---|---|---|---|---|---|---|---|
| Identity (%)b | Protein or ORF name | Source | Accession no. | ||||||
| Locus A | |||||||||
| AB095953 | 3162-3785 (n) | ORF8 | 57.2 | 207 | Conserved hypothetical protein similar to SMa10599 (truncated) | 27 | SalaDRAFT_3075 | Sphingopyxis alaskensis RB2256 | ZP_00577426 |
| AB095953 | 3862-4188 (n) | ORF7 | 52.6 | 108 | Putative RNA-binding protein (truncated) | 68 | Atlg32790 | Arabidopsis thaliana | NP_174556 |
| AB095953 | 4409-5089 (c) | carRI (ORF6) | 60.8 | 226 | Transcriptional regulator of car operon | 51 | CarRII | Sphingomonas sp. strain KA1 | |
| 36 | CarR | Janthinobacterium sp. strain J3 | BAC56739 | ||||||
| AB095953 | 5192-6328 (n) | carAaI (ORF1) | 57.1 | 378 | Terminal oxygenase component of CARDO | 75 | CarAaII | Sphingomonas sp. strain KA1 | |
| 59 | CarAa | P. resinovorans CA10 | BAC41545 | ||||||
| AB095953 | 6328-6609 (n) | carBaI (ORF2) | 55.3 | 93 | Subunit of meta-cleavage enzyme | 66 | CarBaII | Sphingomonas sp. strain KA1 | |
| 36 | CarBa | P. resinovorans CA10 | BAC41546 | ||||||
| AB095953 | 6602-7405 (n) | carBbI (ORF3) | 59.5 | 267 | Subunit of meta-cleavage enzyme | 72 | CarBbII | Sphingomonas sp. strain KA1 | |
| AB095953 | 7448-8272 (n) | carCI (ORF4) | 59.6 | 274 | meta-Cleavage compound hydrolase | 67 | CarCII | Sphingomonas sp. strain KA1 | |
| 57 | CarC | P. resinovorans CA10 | BAC41548 | ||||||
| AB095953 | 8313-8642 (n) | carAcI (ORF5) | 62.7 | 109 | Ferredoxin component of CARDO | 56 | CarAcII | Sphingomonas sp. strain KA1 | |
| 42 | CamB | Pseudomonas putida | P00259 | ||||||
| AB095953 | 8684-10999 (n) | ORF11 | 58.1 | 771 | Outer membrane receptor | 44 | Saro02002648 | Novosphingobium aromaticivorans DSM12444 | ZP_00302784 |
| Locus B | |||||||||
| AB220949 | 344-1495 (n) | carAaII (ORFB1) | 67.4 | 383 | Terminal oxygenase component of CARDO | 75 | CarAaI | Sphingomonas sp. strain KA1 | BAC56759 |
| 55 | CarAa | P. resinovorans CA10 | BAC41545 | ||||||
| AB220949 | 1492-1773 (n) | carBaII (ORFB2) | 68.5 | 93 | Subunit of meta-cleavage enzyme | 66 | CarBaI | Sphingomonas sp. strain KA1 | BAC56760 |
| 32 | CarBa | P. resinovorans CA10 | BAC41546 | ||||||
| AB220949 | 1766-2575 (n) | carBbII (ORFB3) | 69.8 | 269 | Subunit of meta-cleavage enzyme | 72 | CarBbI | Sphingomonas sp. strain KA1 | BAC56761 |
| 44 | CarBb | P. resinovorans CA10 | BAC41547 | ||||||
| AB220949 | 2626-3444 (n) | carCII (ORFB4) | 67.5 | 272 | meta-Cleavage compound hydrolase | 67 | CarCI | Sphingomonas sp. strain KA1 | BAC56762 |
| 59 | CarC | P. resinovorans CA10 | BAC41548 | ||||||
| AB220949 | 3499-3828 (n) | carAcII (ORFB5) | 70.6 | 109 | Ferredoxin component of CARDO | 56 | CarAcI | Sphingomonas sp. strain KA1 | BAC56763 |
| 45 | CamB | P. putida | P00259 | ||||||
| AB220949 | 3968-4630 (c) | carRII (ORFB6) | 71.3 | 220 | Transcriptional regulator of car operon | 51 | CarRI | Sphingomonas sp. strain KA1 | BAC56758 |
| 37 | CarR | Janthiobacterium sp. strain J3 | BAC56739 | ||||||
| AB220949 | 4771-5340 (c) | tnpR (ORFB7) | 59.4 | 189 | Resolvase | 95 | TnpR | Flavobacterium sp. strain ATCC 27551(pPDL2) | CAD13184 |
| AB220949 | 5481-6383 (n) | tnpA (ORFB8) | 61.8 | 300 | Transposase (truncated) | 58 | TnpA | Flavobacterium sp. strain ATCC 27551(pPDL2) | CAD13183 |
| Locus C | |||||||||
| AB220950 | 1-534 (n) | ORFC1 | 58.0 | 177 | Resolvase/integrase (truncated) | 76 | mlr9024 | Mesorhizobium loti MAFF303099(pMLa) | NP_085611 |
| AB220950 | 1038-1355 (n) | fdxI (ORFC2) | 56.8 | 105 | Putidaredoxin-type [2Fe-2S] ferredoxin | 66 | ELI2682 | Erythrobacter litoralis HTCC2594 | ZP_00377441 |
| 40 | CarAcI | Sphingomonas sp. strain KA1 | BAC56763 | ||||||
| 38 | CarAcII | Sphingomonas sp. strain KA1 | |||||||
| 32 | CamB | P. putida | P00259 | ||||||
| AB220950 | 1432-2655 (n) | fdrI (ORFC3) | 60.8 | 407 | Ferredoxin reductase component of CARDO | 64 | Saro02000237 | N. aromaticivorans DSM12444 | ZP_00304456 |
|
|
|
|
|
|
59
|
FdrII
|
Sphingomonas sp. strain KA1
|
|
|
| 59 | RedA2 | S. wittichii RW1 | CAA05635 | ||||||
| 38 | CamA | P. putida | P16640 | ||||||
| AB220950 | 2831-3607 (c) | ORFC4 | 62.1 | 258 | Transcriptional regulator (IcIR family) | 28 | Chlo02004436 | Chloroflexus aurantiacus | ZP_00356137 |
| Locus D | |||||||||
| AB220951 | 1-1368 (n) | ORFD1 | 63.9 | 455 | Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, β subunit | 80 | Saro02001437 | N. aromaticivorans DSM12444 | ZP_00303572 |
| AB220951 | 1504-2766 (n) | fdrII (ORFD2) | 62.4 | 420 | Ferredoxin reductase component of CARDO | 76 | RedA2 | S. wittichii RW1 | CAA05635 |
| 59 | FdrI | Sphingomonas sp. strain KA1 | |||||||
| 41 | CamA | P. putida | P16640 | ||||||
| AB220951 | 2923-3729 (n) | ORFD3 | 58.0 | 268 | Transglycosylase | 49 | ORF925 | N. aromaticivorans F199(pNL1) | AAD03969 |
| AB220951 | 3696-3971 (c) | ORFD4 | 60.5 | 91 | Hypothetical protein | 62 | ORF921 | N. aromaticivorans F199(pNL1) | AAD03968 |
a
n, normal; c, complementary.
b
Percentage of amino acids that are identical when sequences are aligned with sequences listed in the DDBJ/EMBL/GenBank databases by using the CLUSTAL W multiple sequence alignment program (version 1.83) (15).