Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100573 |
| Name | oriT_pE17.16  |
| Organism | Escherichia coli |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_024975 (47775..47884 [-], 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_pE17.16
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 645 | GenBank | YP_009061141 |
| Name | NikB_pE17.16 |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 104010.41 Da Isoelectric Point: 7.4265
>YP_009061141.1 NikB (plasmid) [Escherichia coli]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNNDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNNDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 53244..91214
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS367_RS00300 (D616_p125069) | 50960..53251 | - | 2292 | WP_001289276 | F-type conjugative transfer protein TrbC | - |
| HS367_RS00305 (D616_p125070) | 53244..54314 | - | 1071 | WP_000151583 | IncI1-type conjugal transfer protein TrbB | trbB |
| HS367_RS00310 (D616_p125071) | 54333..55541 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| HS367_RS00315 (D616_p125072) | 55833..55985 | + | 153 | WP_001331364 | Hok/Gef family protein | - |
| HS367_RS00320 (D616_p125073) | 56057..56308 | - | 252 | WP_001291964 | hypothetical protein | - |
| HS367_RS00565 | 56807..56902 | + | 96 | WP_001303310 | DinQ-like type I toxin DqlB | - |
| HS367_RS00325 | 56967..57251 | - | 285 | WP_031942457 | hypothetical protein | - |
| HS367_RS00330 (D616_p125077) | 57535..57744 | + | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| HS367_RS00335 (D616_p125078) | 57816..58490 | - | 675 | WP_223866377 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HS367_RS00340 (D616_p125079) | 58540..60708 | - | 2169 | WP_021537350 | DotA/TraY family protein | traY |
| HS367_RS00345 (D616_p125080) | 60805..61389 | - | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| HS367_RS00350 (D616_p125081) | 61418..62620 | - | 1203 | WP_001189160 | IncI1-type conjugal transfer protein TraW | traW |
| HS367_RS00355 (D616_p125082) | 62587..63201 | - | 615 | WP_000337398 | IncI1-type conjugal transfer protein TraV | traV |
| HS367_RS00360 (D616_p125083) | 63201..66245 | - | 3045 | WP_021265678 | IncI1-type conjugal transfer protein TraU | traU |
| HS367_RS00365 (D616_p125084) | 66335..67135 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| HS367_RS00370 (D616_p125085) | 67119..67307 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| HS367_RS00375 (D616_p125086) | 67371..67775 | - | 405 | WP_000086958 | IncI1-type conjugal transfer protein TraR | traR |
| HS367_RS00380 (D616_p125087) | 67826..68353 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| HS367_RS00385 (D616_p125088) | 68353..69057 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HS367_RS00390 (D616_p125089) | 69057..70346 | - | 1290 | WP_001272003 | conjugal transfer protein TraO | traO |
| HS367_RS00395 (D616_p125090) | 70349..71332 | - | 984 | WP_001191877 | IncI1-type conjugal transfer protein TraN | traN |
| HS367_RS00400 (D616_p125091) | 71343..72035 | - | 693 | WP_000138550 | DotI/IcmL family type IV secretion protein | traM |
| HS367_RS00405 (D616_p125092) | 72032..72379 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| HS367_RS00410 (D616_p125093) | 72397..76164 | - | 3768 | WP_001141527 | LPD7 domain-containing protein | - |
| HS367_RS00415 (D616_p125094) | 76253..76804 | - | 552 | WP_000014583 | phospholipase D family protein | - |
| HS367_RS00420 (D616_p125095) | 76819..77109 | - | 291 | WP_001299214 | hypothetical protein | traK |
| HS367_RS00425 (D616_p125096) | 77106..78254 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HS367_RS00430 (D616_p125097) | 78251..79069 | - | 819 | WP_000646098 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HS367_RS00435 (D616_p125098) | 79066..79524 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HS367_RS00440 (D616_p125099) | 79919..80503 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| HS367_RS00445 (D616_p125100) | 80563..81765 | - | 1203 | WP_000976351 | conjugal transfer protein TraF | - |
| HS367_RS00450 (D616_p125101) | 81850..82674 | - | 825 | WP_001238939 | conjugal transfer protein TraE | traE |
| HS367_RS00455 (D616_p125102) | 82825..83979 | - | 1155 | WP_001139957 | site-specific integrase | - |
| HS367_RS00460 (D616_p125103) | 83963..84289 | + | 327 | WP_001213803 | hypothetical protein | - |
| HS367_RS00465 (D616_p125106) | 85416..86708 | - | 1293 | WP_031942432 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HS367_RS00470 (D616_p125107) | 86708..87364 | - | 657 | WP_001193553 | prepilin peptidase | - |
| HS367_RS00475 (D616_p125108) | 87349..87909 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| HS367_RS00480 (D616_p125109) | 87919..88533 | - | 615 | WP_000959785 | type 4 pilus major pilin | - |
| HS367_RS00485 (D616_p125110) | 88551..89648 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| HS367_RS00490 (D616_p125111) | 89661..91214 | - | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HS367_RS00495 (D616_p125112) | 91225..91677 | - | 453 | WP_001247334 | type IV pilus biogenesis protein PilP | - |
| HS367_RS00500 (D616_p125113) | 91664..92959 | - | 1296 | WP_000752772 | type 4b pilus protein PilO2 | - |
| HS367_RS00505 (D616_p125114) | 92952..94634 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| HS367_RS00510 (D616_p125115) | 94648..95085 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| HS367_RS00515 (D616_p125116) | 95085..96152 | - | 1068 | WP_000742600 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1033 | GenBank | NC_024975 |
| Plasmid name | pE17.16 | Incompatibility group | IncI1 |
| Plasmid size | 101321 bp | Coordinate of oriT [Strand] | 47775..47884 [-] |
| Host baterium | Escherichia coli |
Cargo genes
| Drug resistance gene | sul1, qacE, aadA2, ant(2'')-Ia |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |