Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100576 |
| Name | oriT_pESBL-283  |
| Organism | Escherichia coli |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_024978 (55130..55239 [-], 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_pESBL-283
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 648 | GenBank | YP_009061483 |
| Name | NikB_pESBL-283 |
UniProt ID | A0A075UR71 |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 104022.47 Da Isoelectric Point: 7.4265
>YP_009061483.1 NikB (plasmid) [Escherichia coli]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYAIRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYAIRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A075UR71 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 60599..100065
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS294_RS00365 (D616_p128077) | 58315..60606 | - | 2292 | WP_001289276 | F-type conjugative transfer protein TrbC | - |
| HS294_RS00370 (D616_p128078) | 60599..61669 | - | 1071 | WP_000151582 | IncI1-type conjugal transfer protein TrbB | trbB |
| HS294_RS00375 (D616_p128079) | 61688..62896 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| HS294_RS00380 (D616_p128080) | 63203..63982 | - | 780 | WP_275450201 | protein FinQ | - |
| HS294_RS00385 (D616_p128081) | 64609..64761 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| HS294_RS00390 (D616_p128082) | 64833..65084 | - | 252 | WP_001291965 | hypothetical protein | - |
| HS294_RS00395 | 66007..66291 | - | 285 | WP_014640317 | hypothetical protein | - |
| HS294_RS00400 (D616_p128083) | 66392..66601 | - | 210 | Protein_78 | hemolysin expression modulator Hha | - |
| HS294_RS00405 (D616_p128084) | 66699..67313 | - | 615 | WP_000578649 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HS294_RS00410 (D616_p128085) | 67389..69557 | - | 2169 | WP_000698360 | IncI1-type conjugal transfer membrane protein TraY | traY |
| HS294_RS00415 (D616_p128086) | 69654..70238 | - | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| HS294_RS00420 (D616_p128087) | 70267..71469 | - | 1203 | WP_001189159 | IncI1-type conjugal transfer protein TraW | traW |
| HS294_RS00425 (D616_p128088) | 71436..72050 | - | 615 | WP_000337394 | IncI1-type conjugal transfer protein TraV | traV |
| HS294_RS00430 (D616_p128089) | 72050..75094 | - | 3045 | WP_001024752 | IncI1-type conjugal transfer protein TraU | traU |
| HS294_RS00435 (D616_p128090) | 75184..75984 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| HS294_RS00440 (D616_p128091) | 75968..76156 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| HS294_RS00445 (D616_p128092) | 76220..76624 | - | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| HS294_RS00450 (D616_p128093) | 76675..77202 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| HS294_RS00455 (D616_p128094) | 77202..77906 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HS294_RS00460 (D616_p128095) | 77906..79195 | - | 1290 | WP_001271997 | conjugal transfer protein TraO | traO |
| HS294_RS00465 (D616_p128096) | 79198..80181 | - | 984 | WP_001191878 | IncI1-type conjugal transfer protein TraN | traN |
| HS294_RS00470 (D616_p128097) | 80192..80884 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| HS294_RS00475 (D616_p128098) | 80881..81228 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| HS294_RS00480 (D616_p128099) | 81246..85013 | - | 3768 | WP_001141539 | LPD7 domain-containing protein | - |
| HS294_RS00485 (D616_p128100) | 85103..85654 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| HS294_RS00490 (D616_p128101) | 85669..85959 | - | 291 | WP_001299214 | hypothetical protein | traK |
| HS294_RS00495 (D616_p128102) | 85956..87104 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HS294_RS00500 (D616_p128103) | 87101..87919 | - | 819 | WP_025492003 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HS294_RS00505 (D616_p128104) | 87916..88374 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HS294_RS00510 (D616_p128105) | 88769..89353 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| HS294_RS00515 (D616_p128106) | 89413..90615 | - | 1203 | WP_031942455 | conjugal transfer protein TraF | - |
| HS294_RS00520 (D616_p128107) | 90701..91525 | - | 825 | WP_001238927 | conjugal transfer protein TraE | traE |
| HS294_RS00525 (D616_p128108) | 91676..92830 | - | 1155 | WP_001139958 | site-specific integrase | - |
| HS294_RS00530 (D616_p128109) | 92814..93140 | + | 327 | WP_001213803 | hypothetical protein | - |
| HS294_RS00535 (D616_p128112) | 94267..95559 | - | 1293 | WP_024198499 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HS294_RS00540 (D616_p128113) | 95559..96215 | - | 657 | WP_001389386 | prepilin peptidase | - |
| HS294_RS00545 (D616_p128114) | 96200..96760 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| HS294_RS00550 (D616_p128115) | 96770..97384 | - | 615 | WP_000959786 | type 4 pilus major pilin | - |
| HS294_RS00555 (D616_p128116) | 97402..98499 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| HS294_RS00560 (D616_p128117) | 98512..100065 | - | 1554 | WP_025492055 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HS294_RS00565 (D616_p128118) | 100076..100528 | - | 453 | WP_001247334 | type IV pilus biogenesis protein PilP | - |
| HS294_RS00570 (D616_p128119) | 100515..101810 | - | 1296 | WP_000752772 | type 4b pilus protein PilO2 | - |
| HS294_RS00575 (D616_p128120) | 101803..103485 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| HS294_RS00580 (D616_p128121) | 103499..103936 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| HS294_RS00585 (D616_p128122) | 103936..105003 | - | 1068 | WP_001302629 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1036 | GenBank | NC_024978 |
| Plasmid name | pESBL-283 | Incompatibility group | IncI1 |
| Plasmid size | 110137 bp | Coordinate of oriT [Strand] | 55130..55239 [-] |
| Host baterium | Escherichia coli |
Cargo genes
| Drug resistance gene | sul2, blaCTX-M-1, sul1, qacE, ant(3'')-Ia, dfrA1 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |