Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100541 |
| Name | oriT_pS1400_89  |
| Organism | Salmonella enterica subsp. enterica serovar Enteritidis |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_022267 (34518..34627 [-], 110 nt) |
| oriT length | 110 nt |
| IRs (inverted repeats) | IR1: 24..31, 35..42 (GTCGGGGC..GCCCTGAC) IR2: 49..65, 72..88 (GCAATTGTAATAGCGTC..GACGGTATTACAATTGC) |
| Location of nic site | 96..97 |
| Conserved sequence flanking the nic site |
CATCCTG|T |
| Note | predicted by the oriTfinder |
oriT sequence
Download Length: 110 nt
>oriT_pS1400_89
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 612 | GenBank | YP_008520320 |
| Name | Relaxase_pS1400_89 |
UniProt ID | T1PXX8 |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 104021.43 Da Isoelectric Point: 7.3426
>YP_008520320.1 putative relaxase (plasmid) [Salmonella enterica subsp. enterica serovar Enteritidis]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLPLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLPLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | T1PXX8 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 39987..79942
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS918_RS00245 (pS1400_89_0297) | 37703..39994 | - | 2292 | WP_001289276 | F-type conjugative transfer protein TrbC | - |
| HS918_RS00250 (pS1400_89_0302) | 39987..41057 | - | 1071 | WP_021013257 | IncI1-type conjugal transfer protein TrbB | trbB |
| HS918_RS00255 (pS1400_89_0307) | 41076..42284 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| HS918_RS00260 (pS1400_89_0317) | 42576..42728 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| HS918_RS00265 (pS1400_89_0076) | 42800..43051 | - | 252 | WP_001291965 | hypothetical protein | - |
| HS918_RS00530 (pS1400_89_0079) | 43550..43645 | + | 96 | WP_001303310 | DinQ-like type I toxin DqlB | - |
| HS918_RS00270 | 43814..43993 | - | 180 | WP_172684471 | hypothetical protein | - |
| HS918_RS00275 (pS1400_89_0081) | 44094..44303 | - | 210 | WP_001140543 | hemolysin expression modulator Hha | - |
| HS918_RS00280 (pS1400_89_0322) | 44401..45063 | - | 663 | WP_021013261 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HS918_RS00285 (pS1400_89_0327) | 45134..47302 | - | 2169 | WP_000698368 | DotA/TraY family protein | traY |
| HS918_RS00290 (pS1400_89_0332) | 47399..47983 | - | 585 | WP_021013262 | IncI1-type conjugal transfer protein TraX | - |
| HS918_RS00295 (pS1400_89_0337) | 48012..49214 | - | 1203 | WP_021013263 | IncI1-type conjugal transfer protein TraW | traW |
| HS918_RS00300 (pS1400_89_0342) | 49181..49795 | - | 615 | WP_021013264 | IncI1-type conjugal transfer protein TraV | traV |
| HS918_RS00305 (pS1400_89_0347) | 49795..52839 | - | 3045 | WP_021013265 | IncI1-type conjugal transfer protein TraU | traU |
| HS918_RS00310 (pS1400_89_0352) | 52929..53729 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| HS918_RS00315 (pS1400_89_0357) | 53713..53901 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| HS918_RS00320 (pS1400_89_0362) | 53965..54369 | - | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| HS918_RS00325 (pS1400_89_0367) | 54420..54947 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| HS918_RS00330 (pS1400_89_0372) | 54947..55651 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HS918_RS00335 (pS1400_89_0377) | 55651..56940 | - | 1290 | WP_021013266 | conjugal transfer protein TraO | traO |
| HS918_RS00340 (pS1400_89_0382) | 56943..57926 | - | 984 | WP_001191879 | IncI1-type conjugal transfer protein TraN | traN |
| HS918_RS00345 (pS1400_89_0542) | 58062..58466 | - | 405 | WP_001175010 | IS200/IS605 family transposase | - |
| HS918_RS00350 (pS1400_89_0547) | 58525..59751 | + | 1227 | WP_172684473 | RNA-guided endonuclease TnpB family protein | - |
| HS918_RS00355 (pS1400_89_0387) | 59734..60447 | - | 714 | WP_021013267 | DotI/IcmL family type IV secretion protein | traM |
| HS918_RS00360 (pS1400_89_0392) | 60444..60791 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| HS918_RS00365 (pS1400_89_0397) | 60809..64576 | - | 3768 | WP_172684474 | LPD7 domain-containing protein | - |
| HS918_RS00370 (pS1400_89_0402) | 64666..65217 | - | 552 | WP_021013269 | phospholipase D family protein | - |
| HS918_RS00375 (pS1400_89_0407) | 65232..65522 | - | 291 | WP_001299214 | hypothetical protein | traK |
| HS918_RS00380 (pS1400_89_0412) | 65519..66667 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HS918_RS00385 (pS1400_89_0417) | 66664..67482 | - | 819 | WP_001611721 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HS918_RS00390 (pS1400_89_0422) | 67479..67937 | - | 459 | WP_021013270 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HS918_RS00395 (pS1400_89_0427) | 68332..68916 | - | 585 | WP_021013271 | histidine phosphatase family protein | - |
| HS918_RS00400 (pS1400_89_0432) | 68976..70178 | - | 1203 | WP_000976351 | conjugal transfer protein TraF | - |
| HS918_RS00405 (pS1400_89_0437) | 70263..71087 | - | 825 | WP_001238939 | conjugal transfer protein TraE | traE |
| HS918_RS00410 (pS1400_89_0442) | 71238..72392 | - | 1155 | WP_001139957 | site-specific integrase | - |
| HS918_RS00415 | 72391..72708 | + | 318 | WP_001558195 | hypothetical protein | - |
| HS918_RS00420 | 72705..72860 | - | 156 | WP_001302705 | hypothetical protein | - |
| HS918_RS00425 | 72965..73222 | - | 258 | WP_001302706 | hypothetical protein | - |
| HS918_RS00535 | 73805..74029 | + | 225 | Protein_86 | hypothetical protein | - |
| HS918_RS00435 (pS1400_89_0447) | 74026..75462 | - | 1437 | WP_021013272 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HS918_RS00440 | 75450..76105 | - | 656 | Protein_88 | prepilin peptidase | - |
| HS918_RS00445 (pS1400_89_0457) | 76090..76650 | - | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| HS918_RS00450 (pS1400_89_0462) | 76660..77274 | - | 615 | WP_021013275 | type 4 pilus major pilin | - |
| HS918_RS00455 (pS1400_89_0467) | 77291..78376 | - | 1086 | WP_001208802 | type II secretion system F family protein | - |
| HS918_RS00460 (pS1400_89_0472) | 78389..79942 | - | 1554 | WP_001697923 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HS918_RS00465 (pS1400_89_0477) | 79953..80405 | - | 453 | WP_001247333 | type IV pilus biogenesis protein PilP | - |
| HS918_RS00470 (pS1400_89_0482) | 80392..81687 | - | 1296 | WP_021013276 | type 4b pilus protein PilO2 | - |
| HS918_RS00475 (pS1400_89_0487) | 81680..83362 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| HS918_RS00480 (pS1400_89_0492) | 83376..83813 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| HS918_RS00485 (pS1400_89_0497) | 83813..84880 | - | 1068 | WP_001360287 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1001 | GenBank | NC_022267 |
| Plasmid name | pS1400_89 | Incompatibility group | IncI1 |
| Plasmid size | 89566 bp | Coordinate of oriT [Strand] | 34518..34627 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Enteritidis |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | kpnO |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |