Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100669 |
| Name | oriT_pC9-A  |
| Organism | Escherichia coli strain C9 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP010130 (69659..69768 [+], 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_pC9-A
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 741 | GenBank | WP_001405892 |
| Name | NikB_pC9-A |
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
>WP_001405892.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
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: 24290..64299
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| RG31_RS24435 (RG31_22665) | 19352..20419 | + | 1068 | WP_001302629 | type IV pilus biogenesis lipoprotein PilL | - |
| RG31_RS24440 (RG31_22670) | 20419..20856 | + | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| RG31_RS24445 (RG31_22675) | 20870..22552 | + | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| RG31_RS24450 (RG31_22680) | 22545..23840 | + | 1296 | WP_000752772 | type 4b pilus protein PilO2 | - |
| RG31_RS24455 (RG31_22685) | 23827..24279 | + | 453 | WP_001247334 | type IV pilus biogenesis protein PilP | - |
| RG31_RS24460 (RG31_22690) | 24290..25843 | + | 1554 | WP_001579763 | ATPase, T2SS/T4P/T4SS family | virB11 |
| RG31_RS24465 (RG31_22695) | 25856..26953 | + | 1098 | WP_001208805 | type II secretion system F family protein | - |
| RG31_RS24470 (RG31_22700) | 26971..27585 | + | 615 | WP_000959786 | type 4 pilus major pilin | - |
| RG31_RS24475 (RG31_22705) | 27595..28155 | + | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| RG31_RS24480 (RG31_22710) | 28140..28796 | + | 657 | WP_001193553 | prepilin peptidase | - |
| RG31_RS24485 (RG31_22715) | 28796..30166 | + | 1371 | WP_001393542 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| RG31_RS27095 | 30196..30417 | + | 222 | Protein_36 | prepilin | - |
| RG31_RS26925 | 30414..30815 | - | 402 | WP_073511201 | prepilin, shufflon protein A | - |
| RG31_RS24500 (RG31_22720) | 30814..31968 | + | 1155 | WP_001139958 | site-specific integrase | - |
| RG31_RS24505 (RG31_22725) | 32119..32943 | + | 825 | WP_001238929 | conjugal transfer protein TraE | traE |
| RG31_RS24510 (RG31_22730) | 33029..34231 | + | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| RG31_RS24515 (RG31_22735) | 34291..34875 | + | 585 | WP_001579766 | histidine phosphatase family protein | - |
| RG31_RS24520 (RG31_22740) | 35270..35728 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| RG31_RS24525 (RG31_22745) | 35725..36543 | + | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| RG31_RS24530 (RG31_22750) | 36540..37688 | + | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| RG31_RS24535 | 37685..37975 | + | 291 | WP_001372180 | hypothetical protein | traK |
| RG31_RS24540 (RG31_22755) | 37990..38541 | + | 552 | WP_000014584 | phospholipase D family protein | - |
| RG31_RS24545 (RG31_22760) | 38631..42398 | + | 3768 | WP_001579768 | LPD7 domain-containing protein | - |
| RG31_RS24550 (RG31_22765) | 42416..42763 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| RG31_RS24555 (RG31_22770) | 42760..43452 | + | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| RG31_RS24560 (RG31_22775) | 43463..44446 | + | 984 | WP_001579769 | IncI1-type conjugal transfer protein TraN | traN |
| RG31_RS24565 (RG31_22780) | 44449..45738 | + | 1290 | WP_001271997 | conjugal transfer protein TraO | traO |
| RG31_RS24570 (RG31_22785) | 45738..46442 | + | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| RG31_RS24575 (RG31_22790) | 46442..46969 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| RG31_RS24580 (RG31_22795) | 47020..47424 | + | 405 | WP_001579770 | DUF6750 family protein | traR |
| RG31_RS24585 (RG31_22800) | 47488..47676 | + | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| RG31_RS24590 (RG31_22805) | 47660..48460 | + | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| RG31_RS24595 (RG31_22810) | 48550..51594 | + | 3045 | WP_064203881 | IncI1-type conjugal transfer protein TraU | traU |
| RG31_RS24600 (RG31_22815) | 51594..52208 | + | 615 | WP_000337399 | IncI1-type conjugal transfer protein TraV | traV |
| RG31_RS24605 (RG31_22820) | 52175..53377 | + | 1203 | WP_001385654 | IncI1-type conjugal transfer protein TraW | traW |
| RG31_RS24610 (RG31_22825) | 53406..53990 | + | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| RG31_RS24615 (RG31_22830) | 54087..56255 | + | 2169 | WP_000698355 | IncI1-type conjugal transfer membrane protein TraY | traY |
| RG31_RS24620 (RG31_22835) | 56331..56945 | + | 615 | WP_000578649 | plasmid IncI1-type surface exclusion protein ExcA | - |
| RG31_RS24625 (RG31_22840) | 57043..57252 | + | 210 | WP_001140545 | hemolysin expression modulator Hha | - |
| RG31_RS26605 (RG31_22850) | 57461..57637 | + | 177 | WP_001054900 | hypothetical protein | - |
| RG31_RS25960 (RG31_22855) | 57656..58825 | - | 1170 | Protein_65 | IS3-like element ISEc52 family transposase | - |
| RG31_RS24665 (RG31_22865) | 59814..60065 | + | 252 | WP_001291968 | hypothetical protein | - |
| RG31_RS24670 (RG31_22870) | 60137..60289 | - | 153 | WP_001303307 | Hok/Gef family protein | - |
| RG31_RS24675 (RG31_22875) | 60916..61695 | + | 780 | WP_275450201 | protein FinQ | - |
| RG31_RS24680 (RG31_22880) | 62002..63210 | + | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| RG31_RS24685 (RG31_22885) | 63229..64299 | + | 1071 | WP_000151582 | IncI1-type conjugal transfer protein TrbB | trbB |
| RG31_RS24690 (RG31_22890) | 64292..66583 | + | 2292 | WP_001289276 | F-type conjugative transfer protein TrbC | - |
Host bacterium
| ID | 1129 | GenBank | NZ_CP010130 |
| Plasmid name | pC9-A | Incompatibility group | IncI1 |
| Plasmid size | 93062 bp | Coordinate of oriT [Strand] | 69659..69768 [+] |
| Host baterium | Escherichia coli strain C9 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |