Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100554 |
| Name | oriT_p9134  |
| Organism | Salmonella enterica subsp. enterica serovar Typhimurium |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_023275 (61583..61692 [-], 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_p9134
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 626 | GenBank | YP_008994938 |
| Name | Relaxase_p9134 |
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_008994938.1 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: 67052..109560
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HTC87_RS00380 (p9134_0315) | 64768..67059 | - | 2292 | WP_001289275 | F-type conjugative transfer protein TrbC | - |
| HTC87_RS00385 (p9134_0320) | 67052..68122 | - | 1071 | WP_000151576 | IncI1-type conjugal transfer protein TrbB | trbB |
| HTC87_RS00390 (p9134_0325) | 68141..69349 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| HTC87_RS00395 | 69641..69793 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| HTC87_RS00400 | 69865..70116 | - | 252 | WP_001291965 | hypothetical protein | - |
| HTC87_RS00755 | 70614..70709 | + | 96 | WP_001303310 | DinQ-like type I toxin DqlB | - |
| HTC87_RS00405 | 70774..70911 | - | 138 | WP_047088497 | hypothetical protein | - |
| HTC87_RS00410 (p9134_0330) | 70956..72182 | - | 1227 | WP_024186316 | RNA-guided endonuclease TnpB family protein | - |
| HTC87_RS00415 | 72241..72645 | + | 405 | WP_001175009 | IS200/IS605 family transposase | - |
| HTC87_RS00420 | 72977..73186 | - | 210 | WP_032178830 | hemolysin expression modulator Hha | - |
| HTC87_RS00425 (p9134_0335) | 73284..73946 | - | 663 | WP_000644794 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HTC87_RS00430 (p9134_0340) | 74017..76185 | - | 2169 | WP_000698368 | DotA/TraY family protein | traY |
| HTC87_RS00435 (p9134_0345) | 76282..76866 | - | 585 | WP_001037985 | IncI1-type conjugal transfer protein TraX | - |
| HTC87_RS00440 (p9134_0350) | 76895..78097 | - | 1203 | WP_001189156 | IncI1-type conjugal transfer protein TraW | traW |
| HTC87_RS00445 (p9134_0355) | 78064..78678 | - | 615 | WP_000337400 | IncI1-type conjugal transfer protein TraV | traV |
| HTC87_RS00450 (p9134_0360) | 78678..81722 | - | 3045 | WP_001024780 | IncI1-type conjugal transfer protein TraU | traU |
| HTC87_RS00455 (p9134_0365) | 81812..82612 | - | 801 | WP_024126043 | IncI1-type conjugal transfer protein TraT | traT |
| HTC87_RS00460 | 82596..82784 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| HTC87_RS00465 (p9134_0370) | 82848..83252 | - | 405 | WP_000086958 | IncI1-type conjugal transfer protein TraR | traR |
| HTC87_RS00470 (p9134_0375) | 83303..83830 | - | 528 | WP_024126044 | conjugal transfer protein TraQ | traQ |
| HTC87_RS00475 (p9134_0380) | 83830..84534 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HTC87_RS00480 (p9134_0385) | 84534..85823 | - | 1290 | WP_001272003 | conjugal transfer protein TraO | traO |
| HTC87_RS00485 (p9134_0390) | 85826..86809 | - | 984 | WP_001191877 | IncI1-type conjugal transfer protein TraN | traN |
| HTC87_RS00490 (p9134_0395) | 86820..87512 | - | 693 | WP_000138550 | DotI/IcmL family type IV secretion protein | traM |
| HTC87_RS00495 (p9134_0400) | 87509..87856 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| HTC87_RS00500 | 87874..91640 | - | 3767 | Protein_99 | LPD7 domain-containing protein | - |
| HTC87_RS00505 | 91730..91990 | - | 261 | Protein_100 | phospholipase D-like domain-containing protein | - |
| HTC87_RS00510 (p9134_0415) | 92021..93634 | - | 1614 | WP_001741922 | IS66-like element ISEc23 family transposase | - |
| HTC87_RS00515 (p9134_0420) | 93665..94015 | - | 351 | WP_000624722 | IS66 family insertion sequence element accessory protein TnpB | - |
| HTC87_RS00520 (p9134_0425) | 94012..94437 | - | 426 | WP_000422741 | transposase | - |
| HTC87_RS00525 | 94525..94821 | - | 297 | Protein_104 | phospholipase D-like domain-containing protein | - |
| HTC87_RS00745 | 94836..95126 | - | 291 | WP_001299214 | hypothetical protein | traK |
| HTC87_RS00530 (p9134_0435) | 95123..96271 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HTC87_RS00535 (p9134_0440) | 96268..97086 | - | 819 | WP_000646098 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HTC87_RS00540 (p9134_0445) | 97083..97541 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HTC87_RS00545 (p9134_0450) | 97936..98520 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| HTC87_RS00550 (p9134_0455) | 98580..99782 | - | 1203 | WP_000976351 | conjugal transfer protein TraF | - |
| HTC87_RS00555 (p9134_0460) | 99867..100691 | - | 825 | WP_001238939 | conjugal transfer protein TraE | traE |
| HTC87_RS00560 (p9134_0465) | 100842..101996 | - | 1155 | WP_001139957 | site-specific integrase | - |
| HTC87_RS00565 (p9134_0470) | 101995..102306 | + | 312 | WP_000958120 | hypothetical protein | - |
| HTC87_RS00760 | 103412..103633 | + | 222 | Protein_114 | prepilin | - |
| HTC87_RS00575 (p9134_0480) | 103630..105054 | - | 1425 | WP_001389385 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HTC87_RS00580 (p9134_0485) | 105054..105710 | - | 657 | WP_001193553 | prepilin peptidase | - |
| HTC87_RS00585 (p9134_0490) | 105695..106255 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| HTC87_RS00590 (p9134_0495) | 106265..106879 | - | 615 | WP_000959785 | type 4 pilus major pilin | - |
| HTC87_RS00595 (p9134_0500) | 106897..107994 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| HTC87_RS00600 (p9134_0505) | 108007..109560 | - | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HTC87_RS00605 (p9134_0510) | 109571..110023 | - | 453 | WP_001247336 | type IV pilus biogenesis protein PilP | - |
| HTC87_RS00610 (p9134_0515) | 110010..111305 | - | 1296 | WP_000752774 | type 4b pilus protein PilO2 | - |
| HTC87_RS00615 (p9134_0520) | 111298..112980 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| HTC87_RS00620 (p9134_0525) | 112994..113431 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| HTC87_RS00625 (p9134_0530) | 113431..114498 | - | 1068 | WP_000742600 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1014 | GenBank | NC_023275 |
| Plasmid name | p9134 | Incompatibility group | IncI1 |
| Plasmid size | 133802 bp | Coordinate of oriT [Strand] | 61583..61692 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Typhimurium |
Cargo genes
| Drug resistance gene | catA1, aph(6)-Id, aph(3'')-Ib, aac(3)-IVa, aph(4)-Ia, tet(A), blaTEM-1C |
| Virulence gene | Salmonella plasmid virulence |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |