Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100799 |
| Name | oriT_pECO-93a  |
| Organism | Escherichia coli strain Eco889 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP015161 (28683..28792 [+], 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_pECO-93a
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 871 | GenBank | WP_064847764 |
| Name | NikB_pECO-93a |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 103977.33 Da Isoelectric Point: 7.2858
>WP_064847764.1 IncI1-type relaxase NikB [Escherichia coli]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFHEYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAES
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFHEYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAES
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 3030..23323
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| WM90_RS26210 (WM90_26195) | 3030..3377 | + | 348 | WP_064847756 | hypothetical protein | traL |
| WM90_RS26215 (WM90_26200) | 3374..4066 | + | 693 | WP_000138550 | DotI/IcmL family type IV secretion protein | traM |
| WM90_RS26220 (WM90_26205) | 4077..5060 | + | 984 | WP_001191879 | IncI1-type conjugal transfer protein TraN | traN |
| WM90_RS26225 (WM90_26210) | 5063..6352 | + | 1290 | WP_001271991 | conjugal transfer protein TraO | traO |
| WM90_RS26230 (WM90_26215) | 6352..7056 | + | 705 | WP_042012199 | IncI1-type conjugal transfer protein TraP | traP |
| WM90_RS26235 (WM90_26220) | 7056..7583 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| WM90_RS26240 (WM90_26225) | 7634..8038 | + | 405 | WP_021547639 | IncI1-type conjugal transfer protein TraR | traR |
| WM90_RS26245 (WM90_26230) | 8102..8290 | + | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| WM90_RS26250 (WM90_26235) | 8274..9074 | + | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| WM90_RS26255 (WM90_26240) | 9164..12208 | + | 3045 | WP_064847757 | IncI1-type conjugal transfer protein TraU | traU |
| WM90_RS26260 (WM90_26245) | 12208..12822 | + | 615 | WP_064847758 | IncI1-type conjugal transfer protein TraV | traV |
| WM90_RS26265 (WM90_26250) | 12789..13991 | + | 1203 | WP_001189160 | IncI1-type conjugal transfer protein TraW | traW |
| WM90_RS26270 (WM90_26255) | 14020..14604 | + | 585 | WP_064847759 | conjugal transfer protein TraX | - |
| WM90_RS26275 (WM90_26260) | 14701..16869 | + | 2169 | WP_064847760 | DotA/TraY family protein | traY |
| WM90_RS26280 (WM90_26265) | 16934..17596 | + | 663 | WP_064847761 | plasmid IncI1-type surface exclusion protein ExcA | - |
| WM90_RS26285 (WM90_26270) | 17694..17903 | + | 210 | WP_001140543 | hemolysin expression modulator Hha | - |
| WM90_RS26295 (WM90_26280) | 18147..18809 | + | 663 | WP_042078443 | plasmid IncI1-type surface exclusion protein ExcA | - |
| WM90_RS26300 (WM90_26285) | 18881..19090 | - | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| WM90_RS30730 (WM90_26290) | 19422..19598 | + | 177 | WP_001054900 | hypothetical protein | - |
| WM90_RS31255 | 19663..19758 | - | 96 | WP_000609148 | DinQ-like type I toxin DqlB | - |
| WM90_RS26315 (WM90_26300) | 20259..20510 | + | 252 | WP_001291965 | hypothetical protein | - |
| WM90_RS26320 (WM90_26305) | 20582..20734 | - | 153 | WP_001331364 | Hok/Gef family protein | - |
| WM90_RS26325 (WM90_26310) | 21026..22234 | + | 1209 | WP_064847762 | IncI1-type conjugal transfer protein TrbA | trbA |
| WM90_RS26330 (WM90_26315) | 22253..23323 | + | 1071 | WP_064847763 | IncI1-type conjugal transfer protein TrbB | trbB |
| WM90_RS26335 (WM90_26320) | 23316..25607 | + | 2292 | WP_077883636 | F-type conjugative transfer protein TrbC | - |
Region 2: 71895..86612
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| WM90_RS26620 (WM90_26605) | 66957..68024 | + | 1068 | WP_033548827 | type IV pilus biogenesis lipoprotein PilL | - |
| WM90_RS26625 (WM90_26610) | 68024..68461 | + | 438 | WP_000539811 | type IV pilus biogenesis protein PilM | - |
| WM90_RS26630 (WM90_26615) | 68475..70157 | + | 1683 | WP_033548828 | PilN family type IVB pilus formation outer membrane protein | - |
| WM90_RS26635 (WM90_26620) | 70150..71445 | + | 1296 | WP_001545757 | type 4b pilus protein PilO2 | - |
| WM90_RS26640 (WM90_26625) | 71432..71884 | + | 453 | WP_033548829 | type IV pilus biogenesis protein PilP | - |
| WM90_RS26645 (WM90_26630) | 71895..73448 | + | 1554 | WP_001545756 | ATPase, T2SS/T4P/T4SS family | virB11 |
| WM90_RS26650 (WM90_26635) | 73461..74546 | + | 1086 | WP_064847780 | type II secretion system F family protein | - |
| WM90_RS26655 (WM90_26640) | 74563..75177 | + | 615 | WP_042012072 | type 4 pilus major pilin | - |
| WM90_RS26660 (WM90_26645) | 75187..75747 | + | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| WM90_RS26665 (WM90_26650) | 75732..76388 | + | 657 | WP_001193551 | A24 family peptidase | - |
| WM90_RS26670 (WM90_26655) | 76388..77469 | + | 1082 | Protein_91 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| WM90_RS31170 | 77569..77817 | + | 249 | WP_001349157 | hypothetical protein | - |
| WM90_RS31395 | 77814..78035 | - | 222 | Protein_93 | prepilin | - |
| WM90_RS26685 (WM90_26670) | 79451..80605 | + | 1155 | WP_001139955 | site-specific integrase | - |
| WM90_RS26690 (WM90_26675) | 80756..81580 | + | 825 | WP_001238933 | conjugal transfer protein TraE | traE |
| WM90_RS26695 (WM90_26680) | 81666..82868 | + | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| WM90_RS26700 (WM90_26685) | 82928..83512 | + | 585 | WP_000977522 | histidine phosphatase family protein | - |
| WM90_RS26705 (WM90_26690) | 83907..84365 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| WM90_RS26710 (WM90_26695) | 84362..85180 | + | 819 | WP_064847781 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| WM90_RS26715 (WM90_26700) | 85177..86325 | + | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| WM90_RS28945 | 86322..86612 | + | 291 | WP_001314267 | hypothetical protein | traK |
| WM90_RS26720 (WM90_26705) | 86627..87178 | + | 552 | WP_000014584 | phospholipase D family protein | - |
Host bacterium
| ID | 1259 | GenBank | NZ_CP015161 |
| Plasmid name | pECO-93a | Incompatibility group | IncI |
| Plasmid size | 88023 bp | Coordinate of oriT [Strand] | 28683..28792 [+] |
| Host baterium | Escherichia coli strain Eco889 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | kpnO |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |