Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100575 |
| Name | oriT_pESBL-12  |
| Organism | Escherichia coli |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_024977 (41348..41457 [-], 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-12
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 647 | GenBank | YP_009061355 |
| Name | NikB_pESBL-12 |
UniProt ID | A0A075UES7 |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 104017.50 Da Isoelectric Point: 7.2816
>YP_009061355.1 NikB (plasmid) [Escherichia coli]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSHMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLAERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWLPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESCYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALVDKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSHMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLAERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWLPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESCYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALVDKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A075UES7 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 46817..86319
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS341_RS00275 (D616_p127055) | 44533..46824 | - | 2292 | WP_012783931 | F-type conjugative transfer protein TrbC | - |
| HS341_RS00280 (D616_p127056) | 46817..47887 | - | 1071 | WP_031942445 | IncI1-type conjugal transfer protein TrbB | trbB |
| HS341_RS00285 (D616_p127057) | 47906..49114 | - | 1209 | WP_001703845 | IncI1-type conjugal transfer protein TrbA | trbA |
| HS341_RS00290 (D616_p127058) | 49420..50199 | - | 780 | WP_275542888 | protein FinQ | - |
| HS341_RS00295 (D616_p127059) | 50826..50978 | + | 153 | WP_001331364 | Hok/Gef family protein | - |
| HS341_RS00300 (D616_p127060) | 51050..51301 | - | 252 | WP_001291964 | hypothetical protein | - |
| HS341_RS00565 | 51802..51897 | + | 96 | WP_000609148 | DinQ-like type I toxin DqlB | - |
| HS341_RS00310 (D616_p127062) | 51962..52138 | - | 177 | WP_001054898 | hypothetical protein | - |
| HS341_RS00315 (D616_p127063) | 52321..52530 | - | 210 | WP_001140543 | hemolysin expression modulator Hha | - |
| HS341_RS00320 (D616_p127064) | 52628..53242 | - | 615 | WP_000578648 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HS341_RS00325 (D616_p127065) | 53318..55486 | - | 2169 | WP_031942447 | IncI1-type conjugal transfer membrane protein TraY | traY |
| HS341_RS00330 (D616_p127066) | 55583..56167 | - | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| HS341_RS00335 (D616_p127067) | 56196..57398 | - | 1203 | WP_031942448 | IncI1-type conjugal transfer protein TraW | traW |
| HS341_RS00340 (D616_p127068) | 57365..57979 | - | 615 | WP_031942449 | IncI1-type conjugal transfer protein TraV | traV |
| HS341_RS00345 (D616_p127069) | 57979..61023 | - | 3045 | WP_001024789 | IncI1-type conjugal transfer protein TraU | traU |
| HS341_RS00350 (D616_p127070) | 61113..61913 | - | 801 | WP_001164783 | IncI1-type conjugal transfer protein TraT | traT |
| HS341_RS00355 (D616_p127071) | 61897..62085 | - | 189 | WP_001277253 | putative conjugal transfer protein TraS | - |
| HS341_RS00360 (D616_p127072) | 62149..62553 | - | 405 | WP_000086965 | IncI1-type conjugal transfer protein TraR | traR |
| HS341_RS00365 (D616_p127073) | 62604..63131 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| HS341_RS00370 (D616_p127074) | 63131..63835 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HS341_RS00375 (D616_p127075) | 63835..65124 | - | 1290 | WP_001271994 | conjugal transfer protein TraO | traO |
| HS341_RS00380 (D616_p127076) | 65127..66110 | - | 984 | WP_001191879 | IncI1-type conjugal transfer protein TraN | traN |
| HS341_RS00385 (D616_p127077) | 66121..66813 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| HS341_RS00390 (D616_p127078) | 66810..67157 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| HS341_RS00395 (D616_p127079) | 67175..70939 | - | 3765 | WP_001141540 | LPD7 domain-containing protein | - |
| HS341_RS00400 (D616_p127080) | 71029..71580 | - | 552 | WP_000014586 | phospholipase D family protein | - |
| HS341_RS00405 (D616_p127081) | 71595..71885 | - | 291 | WP_001314267 | hypothetical protein | traK |
| HS341_RS00410 (D616_p127082) | 71882..73030 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HS341_RS00415 (D616_p127083) | 73027..73845 | - | 819 | WP_031942450 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HS341_RS00420 (D616_p127084) | 73842..74300 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HS341_RS00425 (D616_p127085) | 74695..75279 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| HS341_RS00430 (D616_p127086) | 75339..76541 | - | 1203 | WP_000976351 | conjugal transfer protein TraF | - |
| HS341_RS00435 (D616_p127087) | 76626..77450 | - | 825 | WP_001238939 | conjugal transfer protein TraE | traE |
| HS341_RS00440 (D616_p127088) | 77601..78755 | - | 1155 | WP_001139957 | site-specific integrase | - |
| HS341_RS00560 | 79251..79640 | + | 390 | WP_223873413 | shufflon protein D' | - |
| HS341_RS00450 | 79745..79900 | + | 156 | WP_001302705 | hypothetical protein | - |
| HS341_RS00460 (D616_p127090) | 80389..81813 | - | 1425 | WP_001389385 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HS341_RS00465 (D616_p127091) | 81813..82469 | - | 657 | WP_001193553 | prepilin peptidase | - |
| HS341_RS00470 (D616_p127092) | 82454..83014 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| HS341_RS00475 (D616_p127093) | 83024..83638 | - | 615 | WP_000959785 | type 4 pilus major pilin | - |
| HS341_RS00480 (D616_p127094) | 83656..84753 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| HS341_RS00485 (D616_p127095) | 84766..86319 | - | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HS341_RS00490 (D616_p127096) | 86330..86782 | - | 453 | WP_001247336 | type IV pilus biogenesis protein PilP | - |
| HS341_RS00495 (D616_p127097) | 86769..88064 | - | 1296 | WP_021560540 | type 4b pilus protein PilO2 | - |
| HS341_RS00500 (D616_p127098) | 88057..89739 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| HS341_RS00505 (D616_p127099) | 89753..90190 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| HS341_RS00510 (D616_p127100) | 90190..91257 | - | 1068 | WP_031942452 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1035 | GenBank | NC_024977 |
| Plasmid name | pESBL-12 | Incompatibility group | IncI1 |
| Plasmid size | 96463 bp | Coordinate of oriT [Strand] | 41348..41457 [-] |
| Host baterium | Escherichia coli |
Cargo genes
| Drug resistance gene | blaCTX-M-15, aac(3)-IId, blaTEM-1B |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |