Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100555 |
| Name | oriT_p9134dAT  |
| Organism | Salmonella enterica subsp. enterica serovar Typhimurium |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_023276 (37293..37402 [-], 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_p9134dAT
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 627 | GenBank | YP_008995045 |
| Name | Relaxase_p9134dAT |
UniProt ID | V9SIC6 |
| Length | 871 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 871 a.a. Molecular weight: 100811.81 Da Isoelectric Point: 7.2753
>YP_008995045.1 relaxase (plasmid) [Salmonella enterica subsp. enterica serovar Typhimurium]
MTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVDVMKDGCEWVNFYGVTCFHNCTSLETAAA
DMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVRHTLKSLGLADHQYVSAVHTDTDNLHVHV
AVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCWVHAPGNRIVRKTAVERDRQNAWTRGKKQ
TFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGKFLVMDGWDRNREGVQLDSFGPSWCAEKL
MKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETESLQQYACRHLGERLPEMAREGRLENCQA
IHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLTLDNVNQLDGGWQPVPTDIFRQVTPTERF
RGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGYSISHCSPQIEEMITQGEFTWQRCHELFA
QQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEPQAGPFVSAPADLFDRVQPESRYNPELAV
SDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRKPDLRYGERCREIHQACRLRKSHIRAQYD
DPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYPPSYRQWVEIQAAQGDRAAVSQLRGWDYR
DRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGSVRFRDRRTGEFVCTDYGDRVVFRNHHDR
NALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAWHNVTGRTGHEDYRITRPDVDHHREGSER
YYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVDVMKDGCEWVNFYGVTCFHNCTSLETAAA
DMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVRHTLKSLGLADHQYVSAVHTDTDNLHVHV
AVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCWVHAPGNRIVRKTAVERDRQNAWTRGKKQ
TFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGKFLVMDGWDRNREGVQLDSFGPSWCAEKL
MKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETESLQQYACRHLGERLPEMAREGRLENCQA
IHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLTLDNVNQLDGGWQPVPTDIFRQVTPTERF
RGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGYSISHCSPQIEEMITQGEFTWQRCHELFA
QQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEPQAGPFVSAPADLFDRVQPESRYNPELAV
SDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRKPDLRYGERCREIHQACRLRKSHIRAQYD
DPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYPPSYRQWVEIQAAQGDRAAVSQLRGWDYR
DRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGSVRFRDRRTGEFVCTDYGDRVVFRNHHDR
NALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAWHNVTGRTGHEDYRITRPDVDHHREGSER
YYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | V9SIC6 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 42762..85270
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HTC37_RS00265 (p9134dAT_0225) | 40478..42769 | - | 2292 | WP_001289275 | F-type conjugative transfer protein TrbC | - |
| HTC37_RS00270 (p9134dAT_0230) | 42762..43832 | - | 1071 | WP_000151576 | IncI1-type conjugal transfer protein TrbB | trbB |
| HTC37_RS00275 (p9134dAT_0235) | 43851..45059 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| HTC37_RS00280 | 45351..45503 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| HTC37_RS00285 | 45575..45826 | - | 252 | WP_001291965 | hypothetical protein | - |
| HTC37_RS00645 | 46324..46419 | + | 96 | WP_001303310 | DinQ-like type I toxin DqlB | - |
| HTC37_RS00290 | 46484..46621 | - | 138 | WP_047088497 | hypothetical protein | - |
| HTC37_RS00295 (p9134dAT_0240) | 46666..47892 | - | 1227 | WP_024186316 | RNA-guided endonuclease TnpB family protein | - |
| HTC37_RS00300 | 47951..48355 | + | 405 | WP_001175009 | IS200/IS605 family transposase | - |
| HTC37_RS00305 | 48687..48896 | - | 210 | WP_032178830 | hemolysin expression modulator Hha | - |
| HTC37_RS00310 (p9134dAT_0245) | 48994..49656 | - | 663 | WP_000644794 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HTC37_RS00315 (p9134dAT_0250) | 49727..51895 | - | 2169 | WP_000698368 | DotA/TraY family protein | traY |
| HTC37_RS00320 (p9134dAT_0255) | 51992..52576 | - | 585 | WP_001037985 | IncI1-type conjugal transfer protein TraX | - |
| HTC37_RS00325 (p9134dAT_0260) | 52605..53807 | - | 1203 | WP_001189156 | IncI1-type conjugal transfer protein TraW | traW |
| HTC37_RS00330 (p9134dAT_0265) | 53774..54388 | - | 615 | WP_000337400 | IncI1-type conjugal transfer protein TraV | traV |
| HTC37_RS00335 (p9134dAT_0270) | 54388..57432 | - | 3045 | WP_001024780 | IncI1-type conjugal transfer protein TraU | traU |
| HTC37_RS00340 (p9134dAT_0275) | 57522..58322 | - | 801 | WP_024126043 | IncI1-type conjugal transfer protein TraT | traT |
| HTC37_RS00345 | 58306..58494 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| HTC37_RS00350 (p9134dAT_0280) | 58558..58962 | - | 405 | WP_000086958 | IncI1-type conjugal transfer protein TraR | traR |
| HTC37_RS00355 (p9134dAT_0285) | 59013..59540 | - | 528 | WP_024126044 | conjugal transfer protein TraQ | traQ |
| HTC37_RS00360 (p9134dAT_0290) | 59540..60244 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HTC37_RS00365 (p9134dAT_0295) | 60244..61533 | - | 1290 | WP_001272003 | conjugal transfer protein TraO | traO |
| HTC37_RS00370 (p9134dAT_0300) | 61536..62519 | - | 984 | WP_001191877 | IncI1-type conjugal transfer protein TraN | traN |
| HTC37_RS00375 (p9134dAT_0305) | 62530..63222 | - | 693 | WP_000138550 | DotI/IcmL family type IV secretion protein | traM |
| HTC37_RS00380 (p9134dAT_0310) | 63219..63566 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| HTC37_RS00385 | 63584..67350 | - | 3767 | Protein_76 | LPD7 domain-containing protein | - |
| HTC37_RS00390 | 67440..67700 | - | 261 | Protein_77 | phospholipase D-like domain-containing protein | - |
| HTC37_RS00395 (p9134dAT_0325) | 67731..69344 | - | 1614 | WP_001741922 | IS66-like element ISEc23 family transposase | - |
| HTC37_RS00400 (p9134dAT_0330) | 69375..69725 | - | 351 | WP_000624722 | IS66 family insertion sequence element accessory protein TnpB | - |
| HTC37_RS00405 (p9134dAT_0335) | 69722..70147 | - | 426 | WP_000422741 | transposase | - |
| HTC37_RS00410 | 70235..70531 | - | 297 | Protein_81 | phospholipase D-like domain-containing protein | - |
| HTC37_RS00415 | 70546..70836 | - | 291 | WP_001299214 | hypothetical protein | traK |
| HTC37_RS00420 (p9134dAT_0345) | 70833..71981 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HTC37_RS00425 (p9134dAT_0350) | 71978..72796 | - | 819 | WP_000646098 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HTC37_RS00430 (p9134dAT_0355) | 72793..73251 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HTC37_RS00435 (p9134dAT_0360) | 73646..74230 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| HTC37_RS00440 (p9134dAT_0365) | 74290..75492 | - | 1203 | WP_000976351 | conjugal transfer protein TraF | - |
| HTC37_RS00445 (p9134dAT_0370) | 75577..76401 | - | 825 | WP_001238939 | conjugal transfer protein TraE | traE |
| HTC37_RS00450 (p9134dAT_0375) | 76552..77706 | - | 1155 | WP_001139957 | site-specific integrase | - |
| HTC37_RS00455 (p9134dAT_0380) | 77705..78016 | + | 312 | WP_000958120 | hypothetical protein | - |
| HTC37_RS00460 | 78367..78522 | + | 156 | WP_001302705 | hypothetical protein | - |
| HTC37_RS00650 | 79122..79343 | + | 222 | Protein_92 | prepilin | - |
| HTC37_RS00470 (p9134dAT_0390) | 79340..80764 | - | 1425 | WP_001389385 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HTC37_RS00475 (p9134dAT_0395) | 80764..81420 | - | 657 | WP_001193553 | prepilin peptidase | - |
| HTC37_RS00480 (p9134dAT_0400) | 81405..81965 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| HTC37_RS00485 (p9134dAT_0405) | 81975..82589 | - | 615 | WP_000959785 | type 4 pilus major pilin | - |
| HTC37_RS00490 (p9134dAT_0410) | 82607..83704 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| HTC37_RS00495 (p9134dAT_0415) | 83717..85270 | - | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HTC37_RS00500 (p9134dAT_0420) | 85281..85733 | - | 453 | WP_001247336 | type IV pilus biogenesis protein PilP | - |
| HTC37_RS00505 (p9134dAT_0425) | 85720..87015 | - | 1296 | WP_000752774 | type 4b pilus protein PilO2 | - |
| HTC37_RS00510 (p9134dAT_0430) | 87008..88690 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| HTC37_RS00515 (p9134dAT_0435) | 88704..89141 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| HTC37_RS00520 (p9134dAT_0440) | 89141..90208 | - | 1068 | WP_000742600 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1015 | GenBank | NC_023276 |
| Plasmid name | p9134dAT | Incompatibility group | IncI1 |
| Plasmid size | 109512 bp | Coordinate of oriT [Strand] | 37293..37402 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Typhimurium |
Cargo genes
| Drug resistance gene | catA1, aph(6)-Id, aph(3'')-Ib |
| Virulence gene | Salmonella plasmid virulence |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |