Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100595 |
| Name | oriT_pC59-112  |
| Organism | Escherichia coli |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_025143 (76579..76688 [+], 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_pC59-112
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 667 | GenBank | YP_009068927 |
| Name | PutativerelaxaseofpC59-112 |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 104010.41 Da Isoelectric Point: 7.4265
>YP_009068927.1 hypothetical protein (plasmid) [Escherichia coli]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNNDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNNDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 30241..71219
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HTD46_RS00165 (D616_p143038) | 25303..26370 | + | 1068 | WP_001302629 | type IV pilus biogenesis lipoprotein PilL | - |
| HTD46_RS00170 (D616_p143039) | 26370..26807 | + | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| HTD46_RS00175 (D616_p143040) | 26821..28503 | + | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| HTD46_RS00180 (D616_p143041) | 28496..29791 | + | 1296 | WP_000752772 | type 4b pilus protein PilO2 | - |
| HTD46_RS00185 (D616_p143042) | 29778..30230 | + | 453 | WP_001247334 | type IV pilus biogenesis protein PilP | - |
| HTD46_RS00190 (D616_p143043) | 30241..31794 | + | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HTD46_RS00195 (D616_p143044) | 31807..32904 | + | 1098 | WP_001208805 | type II secretion system F family protein | - |
| HTD46_RS00200 (D616_p143045) | 32922..33536 | + | 615 | WP_000959785 | type 4 pilus major pilin | - |
| HTD46_RS00205 | 33546..34106 | + | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| HTD46_RS00210 (D616_p143047) | 34091..34747 | + | 657 | WP_001193553 | prepilin peptidase | - |
| HTD46_RS00215 (D616_p143048) | 34747..36081 | + | 1335 | WP_024132209 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HTD46_RS00650 | 36083..36292 | - | 210 | Protein_41 | hypothetical protein | - |
| HTD46_RS00220 (D616_p143049) | 36292..36636 | + | 345 | Protein_42 | WbuC family cupin fold metalloprotein | - |
| HTD46_RS00225 (D616_p143050) | 36683..37558 | - | 876 | WP_013188473 | extended-spectrum class A beta-lactamase CTX-M-1 | - |
| HTD46_RS00230 (D616_p143052) | 37846..39108 | - | 1263 | WP_000608644 | IS1380-like element ISEcp1 family transposase | - |
| HTD46_RS00640 | 39577..39825 | - | 249 | WP_001349157 | hypothetical protein | - |
| HTD46_RS00240 | 40168..40500 | - | 333 | WP_094190803 | shufflon protein C | - |
| HTD46_RS00245 (D616_p143054) | 40484..41638 | + | 1155 | WP_001139957 | site-specific integrase | - |
| HTD46_RS00250 (D616_p143055) | 41789..42613 | + | 825 | WP_001238939 | conjugal transfer protein TraE | traE |
| HTD46_RS00255 (D616_p143056) | 42698..43900 | + | 1203 | WP_000976351 | conjugal transfer protein TraF | - |
| HTD46_RS00260 (D616_p143057) | 43960..44544 | + | 585 | WP_000977522 | histidine phosphatase family protein | - |
| HTD46_RS00265 (D616_p143058) | 44939..45397 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HTD46_RS00270 (D616_p143059) | 45394..46212 | + | 819 | WP_000646098 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HTD46_RS00275 (D616_p143060) | 46209..47357 | + | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HTD46_RS00280 (D616_p143061) | 47354..47644 | + | 291 | WP_001299214 | hypothetical protein | traK |
| HTD46_RS00285 (D616_p143062) | 47659..48210 | + | 552 | WP_000014583 | phospholipase D family protein | - |
| HTD46_RS00290 (D616_p143063) | 48299..52066 | + | 3768 | WP_001141527 | LPD7 domain-containing protein | - |
| HTD46_RS00295 (D616_p143064) | 52084..52431 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| HTD46_RS00300 (D616_p143065) | 52428..53120 | + | 693 | WP_000138550 | DotI/IcmL family type IV secretion protein | traM |
| HTD46_RS00305 (D616_p143066) | 53131..54114 | + | 984 | WP_001191877 | IncI1-type conjugal transfer protein TraN | traN |
| HTD46_RS00310 (D616_p143067) | 54117..55406 | + | 1290 | WP_001272003 | conjugal transfer protein TraO | traO |
| HTD46_RS00315 (D616_p143068) | 55406..56110 | + | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HTD46_RS00320 (D616_p143069) | 56110..56637 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| HTD46_RS00325 (D616_p143070) | 56688..57092 | + | 405 | WP_000086958 | IncI1-type conjugal transfer protein TraR | traR |
| HTD46_RS00330 (D616_p143071) | 57156..57344 | + | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| HTD46_RS00335 (D616_p143072) | 57328..58128 | + | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| HTD46_RS00340 (D616_p143073) | 58218..61262 | + | 3045 | WP_021265678 | IncI1-type conjugal transfer protein TraU | traU |
| HTD46_RS00345 (D616_p143074) | 61262..61876 | + | 615 | WP_000337398 | IncI1-type conjugal transfer protein TraV | traV |
| HTD46_RS00350 (D616_p143075) | 61843..63045 | + | 1203 | WP_001189160 | IncI1-type conjugal transfer protein TraW | traW |
| HTD46_RS00355 (D616_p143076) | 63074..63658 | + | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| HTD46_RS00360 (D616_p143077) | 63755..65923 | + | 2169 | WP_021537350 | DotA/TraY family protein | traY |
| HTD46_RS00365 (D616_p143078) | 65973..66647 | + | 675 | WP_223866377 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HTD46_RS00370 (D616_p143079) | 66719..66928 | - | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| HTD46_RS00375 | 67212..67496 | + | 285 | WP_031942457 | hypothetical protein | - |
| HTD46_RS00660 | 67561..67656 | - | 96 | WP_001303310 | DinQ-like type I toxin DqlB | - |
| HTD46_RS00380 (D616_p143082) | 68155..68406 | + | 252 | WP_001291964 | hypothetical protein | - |
| HTD46_RS00385 (D616_p143083) | 68478..68630 | - | 153 | WP_001331364 | Hok/Gef family protein | - |
| HTD46_RS00390 (D616_p143084) | 68922..70130 | + | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| HTD46_RS00395 (D616_p143085) | 70149..71219 | + | 1071 | WP_000151583 | IncI1-type conjugal transfer protein TrbB | trbB |
| HTD46_RS00400 (D616_p143086) | 71212..73503 | + | 2292 | WP_001289276 | F-type conjugative transfer protein TrbC | - |
Host bacterium
| ID | 1055 | GenBank | NC_025143 |
| Plasmid name | pC59-112 | Incompatibility group | IncI1 |
| Plasmid size | 112330 bp | Coordinate of oriT [Strand] | 76579..76688 [+] |
| Host baterium | Escherichia coli |
Cargo genes
| Drug resistance gene | sul2, aadA5, dfrA17, blaCTX-M-1 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |