Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100325 |
| Name | oriT_pAM04528  |
| Organism | Salmonella enterica |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_012693 (51244..51794 [+], 551 nt) |
| oriT length | 551 nt |
| IRs (inverted repeats) | IR1: 62..70, 71..79 (AACCCTTTC..GACAGGGTT) IR2: 143..150, 154..161 (TGGCCTGC..GGAGGCCA) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | predicted by the oriTfinder |
oriT sequence
Download Length: 551 nt
>oriT_pAM04528
TGTAAAGAGGCTGTGAAAGAATAAGAGCATCAAGATTCCAGATAGATAGAGGGAAATTTGACAAATTCCAAAGATGGGTTAGCCTAGTGACAGAACTAGATTCCAGTATTGGAATAATCAGCTTTAAATTCCAGATAGATAGTTATGTGGATAGGAATTGGATAGGAATTGGGAGGGTATTGAGG
TGTAAAGAGGCTGTGAAAGAATAAGAGCATCAAGATTCCAGATAGATAGAGGGAAATTTGACAAATTCCAAAGATGGGTTAGCCTAGTGACAGAACTAGATTCCAGTATTGGAATAATCAGCTTTAAATTCCAGATAGATAGTTATGTGGATAGGAATTGGATAGGAATTGGGAGGGTATTGAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 396 | GenBank | YP_002894603 |
| Name | TraI_pAM04528 |
UniProt ID | C4NVE0 |
| Length | 990 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 990 a.a. Molecular weight: 109356.90 Da Isoelectric Point: 4.9395
>YP_002894603.1 TraI (plasmid) [Salmonella enterica]
MLKALNKLFGGRSGVIETAPSVRVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEVDDDQEEDVSALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGSTESSKPD
AGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPFDA
FSASAETASTDATNSEIPDVAMPGKQEKQPKQDFVPQEQNSLQGDDFPMFGSSDEPPSWAIEPLPMLTDA
PEQTTPAPAMPPTDKPNLHEKDAKTLLVEMLAGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILY
PDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDA
FELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKPSPEQKAKGKDSQPQQKEKKVDVTSPVEEPQRQ
PVQEKQNVARLPKREVQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSGVT
PQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKKRQ
GKLYLEVNET
MLKALNKLFGGRSGVIETAPSVRVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEVDDDQEEDVSALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGSTESSKPD
AGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPFDA
FSASAETASTDATNSEIPDVAMPGKQEKQPKQDFVPQEQNSLQGDDFPMFGSSDEPPSWAIEPLPMLTDA
PEQTTPAPAMPPTDKPNLHEKDAKTLLVEMLAGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILY
PDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDA
FELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKPSPEQKAKGKDSQPQQKEKKVDVTSPVEEPQRQ
PVQEKQNVARLPKREVQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSGVT
PQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKKRQ
GKLYLEVNET
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | C4NVE0 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 49378..60809
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS672_RS00350 (pAM04528_0065) | 45409..45642 | - | 234 | WP_001191890 | hypothetical protein | - |
| HS672_RS00355 (pAM04528_0066) | 45624..46241 | - | 618 | WP_001249395 | hypothetical protein | - |
| HS672_RS00360 (pAM04528_0067) | 46409..49381 | + | 2973 | WP_001326173 | MobH family relaxase | - |
| HS672_RS00365 (pAM04528_0068) | 49378..51243 | + | 1866 | WP_000178857 | conjugative transfer system coupling protein TraD | virb4 |
| HS672_RS00370 (pAM04528_0069) | 51254..51838 | + | 585 | WP_000332868 | hypothetical protein | - |
| HS672_RS00375 (pAM04528_0070) | 51795..52424 | + | 630 | WP_000743449 | DUF4400 domain-containing protein | tfc7 |
| HS672_RS00380 (pAM04528_0071) | 52434..52880 | + | 447 | WP_000122507 | hypothetical protein | - |
| HS672_RS00385 (pAM04528_0072) | 52890..53267 | + | 378 | WP_000869297 | hypothetical protein | - |
| HS672_RS00390 (pAM04528_0073) | 53267..53929 | + | 663 | WP_001231464 | hypothetical protein | - |
| HS672_RS00395 | 54110..54253 | + | 144 | WP_001275801 | hypothetical protein | - |
| HS672_RS00400 (pAM04528_0074) | 54265..54630 | + | 366 | WP_001052530 | hypothetical protein | - |
| HS672_RS00405 (pAM04528_0075) | 54775..55056 | + | 282 | WP_000805625 | type IV conjugative transfer system protein TraL | traL |
| HS672_RS00410 (pAM04528_0076) | 55053..55679 | + | 627 | WP_001049717 | TraE/TraK family type IV conjugative transfer system protein | traE |
| HS672_RS00415 (pAM04528_0077) | 55663..56580 | + | 918 | WP_000794249 | type-F conjugative transfer system secretin TraK | traK |
| HS672_RS00420 (pAM04528_0078) | 56580..57893 | + | 1314 | WP_024131605 | TraB/VirB10 family protein | traB |
| HS672_RS00425 (pAM04528_0079) | 57890..58468 | + | 579 | WP_000793435 | type IV conjugative transfer system lipoprotein TraV | traV |
| HS672_RS00430 (pAM04528_0080) | 58472..58864 | + | 393 | WP_000479535 | TraA family conjugative transfer protein | - |
| HS672_RS00435 (pAM04528_0081) | 59149..60108 | + | 960 | Protein_87 | IS1380-like element ISEcp1 family transposase | - |
| HS672_RS00440 (pAM04528_0082) | 60102..60809 | - | 708 | WP_000637385 | conjugal transfer protein TraC | virb4 |
| HS672_RS00445 (pAM04528_0083) | 60806..61513 | - | 708 | WP_001259346 | DsbC family protein | - |
Region 2: 49378..60698
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS672_RS00350 (pAM04528_0065) | 45409..45642 | - | 234 | WP_001191890 | hypothetical protein | - |
| HS672_RS00355 (pAM04528_0066) | 45624..46241 | - | 618 | WP_001249395 | hypothetical protein | - |
| HS672_RS00360 (pAM04528_0067) | 46409..49381 | + | 2973 | WP_001326173 | MobH family relaxase | - |
| HS672_RS00365 (pAM04528_0068) | 49378..51243 | + | 1866 | WP_000178857 | conjugative transfer system coupling protein TraD | virb4 |
| HS672_RS00370 (pAM04528_0069) | 51254..51838 | + | 585 | WP_000332868 | hypothetical protein | - |
| HS672_RS00375 (pAM04528_0070) | 51795..52424 | + | 630 | WP_000743449 | DUF4400 domain-containing protein | tfc7 |
| HS672_RS00380 (pAM04528_0071) | 52434..52880 | + | 447 | WP_000122507 | hypothetical protein | - |
| HS672_RS00385 (pAM04528_0072) | 52890..53267 | + | 378 | WP_000869297 | hypothetical protein | - |
| HS672_RS00390 (pAM04528_0073) | 53267..53929 | + | 663 | WP_001231464 | hypothetical protein | - |
| HS672_RS00395 | 54110..54253 | + | 144 | WP_001275801 | hypothetical protein | - |
| HS672_RS00400 (pAM04528_0074) | 54265..54630 | + | 366 | WP_001052530 | hypothetical protein | - |
| HS672_RS00405 (pAM04528_0075) | 54775..55056 | + | 282 | WP_000805625 | type IV conjugative transfer system protein TraL | traL |
| HS672_RS00410 (pAM04528_0076) | 55053..55679 | + | 627 | WP_001049717 | TraE/TraK family type IV conjugative transfer system protein | traE |
| HS672_RS00415 (pAM04528_0077) | 55663..56580 | + | 918 | WP_000794249 | type-F conjugative transfer system secretin TraK | traK |
| HS672_RS00420 (pAM04528_0078) | 56580..57893 | + | 1314 | WP_024131605 | TraB/VirB10 family protein | traB |
| HS672_RS00425 (pAM04528_0079) | 57890..58468 | + | 579 | WP_000793435 | type IV conjugative transfer system lipoprotein TraV | traV |
| HS672_RS00430 (pAM04528_0080) | 58472..58864 | + | 393 | WP_000479535 | TraA family conjugative transfer protein | - |
| HS672_RS00435 (pAM04528_0081) | 59149..60108 | + | 960 | Protein_87 | IS1380-like element ISEcp1 family transposase | - |
| HS672_RS00440 (pAM04528_0082) | 60102..60809 | - | 708 | WP_000637385 | conjugal transfer protein TraC | - |
| HS672_RS00445 (pAM04528_0083) | 60806..61513 | - | 708 | WP_001259346 | DsbC family protein | - |
Host bacterium
| ID | 786 | GenBank | NC_012693 |
| Plasmid name | pAM04528 | Incompatibility group | IncA/C2 |
| Plasmid size | 158213 bp | Coordinate of oriT [Strand] | 51244..51794 [+] |
| Host baterium | Salmonella enterica |
Cargo genes
| Drug resistance gene | floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2, blaCMY-2 |
| Virulence gene | - |
| Metal resistance gene | merE, merD, merB, merA, merP, merT, merR |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |