Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100364 |
| Name | oriT_pEC_Bactec  |
| Organism | Escherichia coli |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_014383 (17418..17527 [+], 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_pEC_Bactec
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 435 | GenBank | YP_003829059 |
| Name | Relaxase_pEC_Bactec |
UniProt ID | D9Z503 |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 103861.32 Da Isoelectric Point: 7.4288
>YP_003829059.1 relaxase (plasmid) [Escherichia coli]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRNRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNRGGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRNRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNRGGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | D9Z503 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 62831..92942
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS782_RS00330 (pECBactecp43) | 57893..58960 | + | 1068 | WP_001360287 | type IV pilus biogenesis lipoprotein PilL | - |
| HS782_RS00335 (pECBactecp44) | 58960..59397 | + | 438 | WP_000539806 | type IV pilus biogenesis protein PilM | - |
| HS782_RS00340 (pECBactecp45) | 59411..61093 | + | 1683 | WP_000748144 | PilN family type IVB pilus formation outer membrane protein | - |
| HS782_RS00345 (pECBactecp46) | 61086..62381 | + | 1296 | WP_000752782 | type 4b pilus protein PilO2 | - |
| HS782_RS00350 (pECBactecp47) | 62368..62820 | + | 453 | WP_001247337 | type IV pilus biogenesis protein PilP | - |
| HS782_RS00355 (pECBactecp48) | 62831..64384 | + | 1554 | WP_000362206 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HS782_RS00360 (pECBactecp49) | 64397..65482 | + | 1086 | WP_001208802 | type II secretion system F family protein | - |
| HS782_RS00365 (pECBactecp50) | 65499..66113 | + | 615 | WP_000908227 | type 4 pilus major pilin | - |
| HS782_RS00370 (pECBactecp51) | 66123..66683 | + | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| HS782_RS00375 (pECBactecp52) | 66668..67324 | + | 657 | WP_001193549 | A24 family peptidase | - |
| HS782_RS00380 (pECBactecp53) | 67324..68616 | + | 1293 | WP_001390622 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HS782_RS00385 | 68613..68861 | - | 249 | WP_001349157 | hypothetical protein | - |
| HS782_RS00390 | 69237..69392 | - | 156 | WP_001302705 | hypothetical protein | - |
| HS782_RS00395 | 69520..69777 | + | 258 | WP_001302706 | hypothetical protein | - |
| HS782_RS00400 | 70072..70398 | - | 327 | WP_001213803 | hypothetical protein | - |
| HS782_RS00405 (pECBactecp54) | 70382..71536 | + | 1155 | WP_001139956 | site-specific integrase | - |
| HS782_RS00410 (pECBactecp55) | 71687..72511 | + | 825 | WP_001238932 | conjugal transfer protein TraE | traE |
| HS782_RS00415 (pECBactecp56) | 72597..73799 | + | 1203 | WP_000976357 | conjugal transfer protein TraF | - |
| HS782_RS00420 (pECBactecp57) | 73859..74443 | + | 585 | WP_000977522 | histidine phosphatase family protein | - |
| HS782_RS00425 (pECBactecp58) | 74838..75296 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HS782_RS00430 (pECBactecp59) | 75293..76111 | + | 819 | WP_000646098 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HS782_RS00435 (pECBactecp60) | 76108..77256 | + | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HS782_RS00440 (pECBactecp62) | 77253..77543 | + | 291 | WP_001314267 | hypothetical protein | traK |
| HS782_RS00445 | 77558..78109 | + | 552 | WP_000014586 | phospholipase D family protein | - |
| HS782_RS00450 (pECBactecp63) | 78199..81963 | + | 3765 | WP_001141540 | LPD7 domain-containing protein | - |
| HS782_RS00455 (pECBactecp64) | 81981..82328 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| HS782_RS00460 (pECBactecp65) | 82325..83017 | + | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| HS782_RS00465 (pECBactecp66) | 83028..84011 | + | 984 | WP_001191879 | IncI1-type conjugal transfer protein TraN | traN |
| HS782_RS00470 (pECBactecp67) | 84014..85303 | + | 1290 | WP_001271994 | conjugal transfer protein TraO | traO |
| HS782_RS00475 (pECBactecp68) | 85303..86007 | + | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HS782_RS00480 (pECBactecp69) | 86007..86534 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| HS782_RS00485 (pECBactecp70) | 86585..86989 | + | 405 | WP_000086965 | IncI1-type conjugal transfer protein TraR | traR |
| HS782_RS00490 | 87053..87241 | + | 189 | WP_001277253 | putative conjugal transfer protein TraS | - |
| HS782_RS00495 | 87225..88025 | + | 801 | WP_001164783 | IncI1-type conjugal transfer protein TraT | traT |
| HS782_RS00500 | 88115..91159 | + | 3045 | WP_001024789 | IncI1-type conjugal transfer protein TraU | traU |
| HS782_RS00505 (pECBactecp71) | 91159..91773 | + | 615 | WP_000337395 | IncI1-type conjugal transfer protein TraV | traV |
| HS782_RS00510 (pECBactecp72) | 91740..92942 | + | 1203 | WP_001387490 | IncI1-type conjugal transfer protein TraW | traW |
Host bacterium
| ID | 825 | GenBank | NC_014383 |
| Plasmid name | pEC_Bactec | Incompatibility group | IncI1 |
| Plasmid size | 92970 bp | Coordinate of oriT [Strand] | 17418..17527 [+] |
| Host baterium | Escherichia coli |
Cargo genes
| Drug resistance gene | blaTEM-1B, blaCTX-M-15 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |