Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100574 |
| Name | oriT_pESBL-117  |
| Organism | Escherichia coli |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_024976 (35718..35827 [-], 110 nt) |
| oriT length | 110 nt |
| IRs (inverted repeats) | IR1: 24..31, 35..42 (GTCGGGGC..GCCCTGAC) IR2: 49..65, 72..88 (GTAATTGTAATAGCGTC..GACGGTATTACAATTAC) |
| 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-117
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 646 | GenBank | YP_009061247 |
| Name | NikB_pESBL-117 |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 103883.32 Da Isoelectric Point: 7.3373
>YP_009061247.1 NikB (plasmid) [Escherichia coli]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 41187..79146
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS368_RS00245 (D616_p126052) | 38903..41194 | - | 2292 | WP_001289282 | F-type conjugative transfer protein TrbC | - |
| HS368_RS00250 (D616_p126053) | 41187..42257 | - | 1071 | WP_000151582 | IncI1-type conjugal transfer protein TrbB | trbB |
| HS368_RS00255 (D616_p126054) | 42276..43484 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| HS368_RS00260 (D616_p126055) | 43776..43928 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| HS368_RS00265 (D616_p126056) | 44000..44251 | - | 252 | WP_001291965 | hypothetical protein | - |
| HS368_RS00515 | 44750..44845 | + | 96 | WP_001303310 | DinQ-like type I toxin DqlB | - |
| HS368_RS00270 | 44910..45194 | - | 285 | WP_001707309 | hypothetical protein | - |
| HS368_RS00275 (D616_p126060) | 45478..45687 | + | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| HS368_RS00280 (D616_p126061) | 45759..46433 | - | 675 | WP_223866377 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HS368_RS00285 (D616_p126062) | 46483..48651 | - | 2169 | WP_000698357 | DotA/TraY family protein | traY |
| HS368_RS00290 (D616_p126063) | 48748..49332 | - | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| HS368_RS00295 (D616_p126064) | 49361..50563 | - | 1203 | WP_001189160 | IncI1-type conjugal transfer protein TraW | traW |
| HS368_RS00300 (D616_p126065) | 50530..51144 | - | 615 | WP_000337399 | IncI1-type conjugal transfer protein TraV | traV |
| HS368_RS00305 (D616_p126066) | 51144..54188 | - | 3045 | WP_001024782 | IncI1-type conjugal transfer protein TraU | traU |
| HS368_RS00310 (D616_p126067) | 54278..55078 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| HS368_RS00315 (D616_p126068) | 55062..55250 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| HS368_RS00320 (D616_p126069) | 55314..55718 | - | 405 | WP_000086959 | IncI1-type conjugal transfer protein TraR | traR |
| HS368_RS00325 (D616_p126070) | 55769..56296 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| HS368_RS00330 (D616_p126071) | 56296..57000 | - | 705 | WP_000801919 | IncI1-type conjugal transfer protein TraP | traP |
| HS368_RS00335 (D616_p126072) | 57000..58289 | - | 1290 | WP_001272000 | conjugal transfer protein TraO | traO |
| HS368_RS00340 (D616_p126073) | 58292..59275 | - | 984 | WP_001191879 | IncI1-type conjugal transfer protein TraN | traN |
| HS368_RS00345 (D616_p126074) | 59286..59978 | - | 693 | WP_000138551 | DotI/IcmL family type IV secretion protein | traM |
| HS368_RS00350 (D616_p126075) | 59975..60322 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| HS368_RS00355 (D616_p126076) | 60340..64107 | - | 3768 | WP_001141542 | LPD7 domain-containing protein | - |
| HS368_RS00360 (D616_p126077) | 64197..64748 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| HS368_RS00365 (D616_p126078) | 64763..65053 | - | 291 | WP_001372180 | hypothetical protein | traK |
| HS368_RS00370 (D616_p126079) | 65050..66198 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HS368_RS00375 (D616_p126080) | 66195..67013 | - | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HS368_RS00380 (D616_p126081) | 67010..67468 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HS368_RS00385 (D616_p126082) | 67863..68447 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| HS368_RS00390 (D616_p126083) | 68507..69709 | - | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| HS368_RS00395 (D616_p126084) | 69795..70619 | - | 825 | WP_001545755 | conjugal transfer protein TraE | traE |
| HS368_RS00400 (D616_p126085) | 70770..71924 | - | 1155 | WP_001139958 | site-specific integrase | - |
| HS368_RS00405 (D616_p126086) | 71908..72234 | + | 327 | WP_032220697 | hypothetical protein | - |
| HS368_RS00410 | 72585..72740 | + | 156 | WP_001302705 | hypothetical protein | - |
| HS368_RS00420 (D616_p126088) | 73229..74665 | - | 1437 | WP_015058206 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HS368_RS00425 (D616_p126089) | 74653..75309 | - | 657 | WP_001193549 | A24 family peptidase | - |
| HS368_RS00430 (D616_p126090) | 75294..75854 | - | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| HS368_RS00435 (D616_p126091) | 75864..76478 | - | 615 | WP_000908226 | type 4 pilus major pilin | - |
| HS368_RS00440 (D616_p126092) | 76495..77580 | - | 1086 | WP_001208802 | type II secretion system F family protein | - |
| HS368_RS00445 (D616_p126093) | 77593..79146 | - | 1554 | WP_029397064 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HS368_RS00450 (D616_p126094) | 79157..79609 | - | 453 | WP_001247337 | type IV pilus biogenesis protein PilP | - |
| HS368_RS00455 (D616_p126095) | 79596..80891 | - | 1296 | WP_000752780 | type 4b pilus protein PilO2 | - |
| HS368_RS00460 (D616_p126096) | 80884..82566 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| HS368_RS00465 (D616_p126097) | 82580..83017 | - | 438 | WP_000539806 | type IV pilus biogenesis protein PilM | - |
| HS368_RS00470 (D616_p126098) | 83017..84084 | - | 1068 | WP_001360287 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1034 | GenBank | NC_024976 |
| Plasmid name | pESBL-117 | Incompatibility group | IncI1 |
| Plasmid size | 89503 bp | Coordinate of oriT [Strand] | 35718..35827 [-] |
| Host baterium | Escherichia coli |
Cargo genes
| Drug resistance gene | blaTEM-52C |
| Virulence gene | virulence factor |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |