TABLE 2.
ORFs in class 3 integrons and flanking DNA
| ORF | % G+C
|
No. of amino acids | Most similar CDSsa | GenBank accession no. | % Identity
|
||
|---|---|---|---|---|---|---|---|
| A90 | C17 | A90 | C17 | ||||
| lf1 | 60 | 60 | 288 | Hypothetical protein, Acidovorax sp. strain JS42 (AJS228) | ZP_01384761 | 83 | 83 |
| lf2 | 59 | 59 | 329 | Hypothetical protein, Acidovorax sp. strain JS42 (AJS229) | ZP_01384762 | 96 | 96 |
| lf3 | 59 | 59 | 107 | Hypothetical protein, Dechloromonas aromatica RCB | YP_284873 | 50 | 50 |
| lf4 | 62 | 62 | 171 | Hypothetical protein, Novosphingobium aromaticivorans DSM 12444 | YP_497478 | 40 | 40 |
| intI3 | 55 | 55 | 346 | IntI3 integrase, Klebsiella pneumoniae | AAO32355 | 99 | 99 |
| orfA | 49 | 49 | 208 | Hypothetical protein, Vibrio splendidus V12 | ZP_00990410 | 46 | 46 |
| orfB | 59 | 217 | Hypothetical protein, Comamonas testosteroni KF-1 | ZP_01521201 | 79 | ||
| orfC | 45 | 45 | 63 | Hypothetical protein, Burkholderia vietnamiensis G4 | ZP_00426308 | 39 | 39 |
| orfD | 48 | 48 | 65 | No significant hit | |||
| orfE | 38 | 38 | 224 | Hypothetical protein, Yersinia frederiksenii ATCC 33641 | ZP_00827899 | 45 | 45 |
| ia-1 | 52 | 52 | 207 | Putative integrase/recombinase, Acidovorax sp. strain MUL2G8 | ABE73721 | 96 | 96 |
| ia-2 | 58 | 58 | 177 | Putative transcriptional regulator in pB8 (IncP-1β) | YP_358816 | 70 | 70 |
| ia-3 | 55 | 55 | 110 | Small multidrug resistance protein in pB8 (IncP-1β) | YP_358817 | 83 | 83 |
| ia-4 | 54 | 54 | 413 | Phage P4-type tyrosine recombinase, Acidovorax sp. strain JS42 (AJS3904) | ZP_01381320 | 95 | 95 |
| rf1 | 62 | 63 | 221 | Phosphoglycolate phosphatase, Delftia acidovorans SPH-1 (5344); phosphoglycolate phosphatase, Acidovorax sp. strain JS42 (AJS3903) | ZP_01578007, ZP_01381319 | 90, 63 | 100, 65 |
| rf2 | 61 | 62 | 240 | Ubiquinone biosynthesis OMTase, Delftia acidovorans SPH-1 (5343); ubiquinone biosynthesis OMTase, Acidovorax sp. strain JS42 (AJS3902) | ZP_01578006, ZP_01381318 | 97, 75 | 100, 77 |
| rf3 | 62 | 62 | 219 | OmpA/MotB, Delftia acidovorans SPH-1 (5342); OmpA/MotB, Acidovorax sp. strain JS42 (AJS3901) | ZP_01578005, ZP_01381317 | 98, 87 | 100, 88 |
| rf4 | 64 | 65 | 888 | DNA gyrase, A subunit, Delftia acidovorans SPH-1 (5341); DNA gyrase, A subunit, Acidovorax sp. strain JS42 (AJS3900) | ZP_01578004, ZP_01381316 | 99, 91 | 100, 92 |
| rf5 | 66 | 66 | 188 | Phosphoserine aminotransferase, Delftia acidovorans SPH-1 (5340); phosphoserine aminotransferase, Acidovorax sp. strain JS42 (AJS3899) | ZP_01578003, ZP_01381315 | 97, 88 | 100, 87 |
a
Two database hits are shown for rf1 to rf5 to illustrate the conserved synteny (as indicated by consecutive locus tags in brackets) of this group of genes in related organisms and to emphasize the continuation of this series in Acidovorax sp. strain JS42 by an additional gene encoding a phage P4-type tyrosine recombinase. CDSs, coding sequences; OMTase, o-methyltransferase.