TABLE 3.
Summary of computer-based nucleotide sequence analyses of open reading frames in the conjugal transfer regions in pDTG1/pCg1 plasmids
| ORFa | Geneb | aaf length | Mol mass (kDa) | pI | BLAST resultc | Degree of relatedness (aa pDTG1/aa match, % aa identity)c | Motif found in GenBank |
|---|---|---|---|---|---|---|---|
| orf1 | hyp | 261 | 28.8 | 6.22 | Hyp of pWW0 | 261/263, 77 | |
| Mpr (Zinc metalloproteinase) of IncN plasmid R64 | 261/263, 41 | ||||||
| orf2 | hyp | 128 | 13.8 | 6.67 | Hyp of pWW0 | 128/130, 67 | |
| orf3 | hyp | 239 | 26.5 | 5.33 | Hyp of pWW0 | 239/239, 73 | |
| orf4 | traD | 151 | 16.7 | 8.90 | TraD of pWW0 | 151/151, 60 | |
| orf5 | traA | 72 | 7.9 | 4.48 | TraA of pWW0 | 72/127, 56 | |
| orf6 | traB | 518 | 58.3 | 6.97 | TraB of pWW0 | 518/516, 86 | |
| TrwB of pXAC64 | 518/524, 65 | ||||||
| orf7 | traC | 981 | 109.0 | 9.46 | TraC of pWW0 | 981/978, 80 | Viral helicase I |
| TrwC of pXAC64 | 981/991, 63 | ||||||
| orf8 | hyp | 193 | 21.9 | 10.03 | Hyp (ORF7) of pWW0 | 193/244, 40 | |
| orf9 | nuc | 212 | 22.9 | 9.09 | Putative nuclease (ORF188) of pWW0 | 212/210, 60 | |
| orf10 | hyp | 160 | 17.7 | 6.51 | Putative nuclease (ORF188) of pWW0 | 160/210, 23 | |
| Hyp (XACb0057) of pXAC64 | 160/395, 23 | ||||||
| orf11 | nuc | 201 | 21.6 | 8.39 | Putative nuclease (ORF189) of pWW0 | 201/185, 73 | |
| Endonuclease of IncN | 201/177, 48 | ||||||
| Plasmid R64 | |||||||
| orf12 | hyp | 109 | 11.7 | 8.47 | Hyp of pXAC64 | 109/111, 68 | |
| orf13 | mpfJ | 311 | 33.6 | 7.21 | MpfJ of pWW0 | 311/315, 65 | Transglycosylase (SLT domaind) |
| VirB1 of pXAC64 | 311/292, 35 | ||||||
| orf14 | mpfI | 342 | 38.3 | 6.13 | Mpf of pWW0 | 342/343, 81 | GSPIIe (bacterial type II secretion) |
| VirB11 of pXAC64 | 342/340, 44 | ||||||
| orf15 | mpfH | 427 | 45.5 | 5.54 | MpfH of pWW0 | 427/421, 65 | |
| VirB10 of p XAC64 | 427/406, 40 | ||||||
| orf16 | mpfG | 263 | 29.1 | 9.04 | MpfG of pWW0 | 263/261, 87 | |
| VirB9 of pXAC64 | 263/260, 52 | ||||||
| orf17 | mpfF | 221 | 25.4 | 8.90 | MpfF of pWW0 | 221/226, 66 | |
| VirB8 of pXAC64 | 221/224, 36 | ||||||
| orf18 | mpfE | 287 | 31.1 | 5.30 | MpfE of pWW0 | 287/287, 73 | |
| VirB6 of pXAC64 | 287/288, 43 | ||||||
| orf19 | hyp | 134 | 14.2 | 8.28 | Hyp of pWW0 | 134/130, 67 | |
| orf20 | hyp | 70 | 7.9 | 9.60 | Hyp of pWW0 | 70/70, 73 | |
| orf21 | mpfD | 229 | 24.9 | 5.46 | MpfD of pWW0 | 229/229, 84 | |
| VirB5 of pXAC64 | 229/220, 55 | ||||||
| orf22 | mpfC | 894 | 101.7 | 5.79 | MpfC of pWW0 | 894/894, 75 | |
| TrbE of pM3 | 894/339, 70 | ||||||
| VirB4 of pXAC64 | 894/877, 56 | ||||||
| orf23 | mpfB | 97 | 10.8 | 9.84 | MpfB of pWW0 | 97/98, 77 | |
| TrbD of pM3 | 97/98, 77 | ||||||
| VirB3 of pXAC64 | 97/99, 47 | ||||||
| orf24 | mpfA | 153 | 16.8 | 10.01 | TrbC of pM3 | 153/153, 73 | |
| MpfA of pWW0 | 153/153, 71 | ||||||
| VirB2 of pXAC64 | 153/125, 27 | ||||||
| orf25 | hyp | 90 | 10.0 | 6.55 | Hyp of pWW0 | 90/115, 81 | |
| Hyp of pXAC64 | 90/118, 43 |
a
See Fig. 2 for position of open reading frames (ORFs) in the conjugal transfer regions.
b
hyp, hypothetical.
c
1:1 Clustal alignment between the two proteins over the entire sequences.
d
Soluble lytic domain.
e
General secretory pathway II.
f
aa, amino acid.