Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100551 |
| Name | oriT_pHUSEC2011-1  |
| Organism | Escherichia coli |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_022742 (33964..34073 [-], 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_pHUSEC2011-1
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 623 | GenBank | WP_001387486 |
| Name | NikB_pHUSEC2011-1 |
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
>WP_001387486.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
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: 39433..78926
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HUS2011_RS27695 (HUS2011_pI0061) | 37149..39440 | - | 2292 | WP_001289278 | F-type conjugative transfer protein TrbC | - |
| HUS2011_RS27700 (HUS2011_pI0062) | 39433..40503 | - | 1071 | WP_000151588 | IncI1-type conjugal transfer protein TrbB | trbB |
| HUS2011_RS27705 (HUS2011_pI0063) | 40522..41730 | - | 1209 | WP_000121263 | IncI1-type conjugal transfer protein TrbA | trbA |
| HUS2011_RS27710 (HUS2011_pI0064) | 42037..42816 | - | 780 | WP_275450201 | protein FinQ | - |
| HUS2011_RS27715 (HUS2011_pI0065) | 43443..43595 | + | 153 | WP_001387489 | Hok/Gef family protein | - |
| HUS2011_RS27720 (HUS2011_pI0066) | 43667..43918 | - | 252 | WP_001291964 | hypothetical protein | - |
| HUS2011_RS32525 | 44419..44514 | + | 96 | WP_000609148 | DinQ-like type I toxin DqlB | - |
| HUS2011_RS31775 (HUS2011_pI0068) | 44579..44755 | - | 177 | WP_001054898 | hypothetical protein | - |
| HUS2011_RS27740 (HUS2011_pI0069) | 44938..45147 | - | 210 | WP_001140543 | hemolysin expression modulator Hha | - |
| HUS2011_RS27745 (HUS2011_pI0070) | 45245..45859 | - | 615 | WP_000578648 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HUS2011_RS27750 (HUS2011_pI0071) | 45935..48103 | - | 2169 | WP_000698360 | IncI1-type conjugal transfer membrane protein TraY | traY |
| HUS2011_RS27755 (HUS2011_pI0072) | 48200..48784 | - | 585 | WP_001037983 | IncI1-type conjugal transfer protein TraX | - |
| HUS2011_RS27760 (HUS2011_pI0073) | 48813..50015 | - | 1203 | WP_001387490 | IncI1-type conjugal transfer protein TraW | traW |
| HUS2011_RS27765 (HUS2011_pI0074) | 49982..50596 | - | 615 | WP_000337395 | IncI1-type conjugal transfer protein TraV | traV |
| HUS2011_RS27770 (HUS2011_pI0075) | 50596..53640 | - | 3045 | WP_001024789 | IncI1-type conjugal transfer protein TraU | traU |
| HUS2011_RS27775 (HUS2011_pI0076) | 53730..54530 | - | 801 | WP_001164783 | IncI1-type conjugal transfer protein TraT | traT |
| HUS2011_RS27780 (HUS2011_pI0077) | 54514..54702 | - | 189 | WP_001277253 | putative conjugal transfer protein TraS | - |
| HUS2011_RS27785 (HUS2011_pI0078) | 54766..55170 | - | 405 | WP_000086965 | IncI1-type conjugal transfer protein TraR | traR |
| HUS2011_RS27790 (HUS2011_pI0079) | 55221..55748 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| HUS2011_RS27795 (HUS2011_pI0080) | 55748..56452 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HUS2011_RS27800 (HUS2011_pI0081) | 56452..57741 | - | 1290 | WP_001271994 | conjugal transfer protein TraO | traO |
| HUS2011_RS27805 (HUS2011_pI0082) | 57744..58727 | - | 984 | WP_001191879 | IncI1-type conjugal transfer protein TraN | traN |
| HUS2011_RS27810 (HUS2011_pI0083) | 58738..59430 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| HUS2011_RS27815 (HUS2011_pI0084) | 59427..59774 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| HUS2011_RS27820 (HUS2011_pI0085) | 59792..63556 | - | 3765 | WP_001141540 | LPD7 domain-containing protein | - |
| HUS2011_RS27825 (HUS2011_pI0086) | 63646..64197 | - | 552 | WP_000014586 | phospholipase D family protein | - |
| HUS2011_RS28620 (HUS2011_pI0087) | 64212..64502 | - | 291 | WP_001314267 | hypothetical protein | traK |
| HUS2011_RS27830 (HUS2011_pI0088) | 64499..65647 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HUS2011_RS27835 (HUS2011_pI0089) | 65644..66462 | - | 819 | WP_000646098 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HUS2011_RS27840 (HUS2011_pI0090) | 66459..66917 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HUS2011_RS27845 (HUS2011_pI0092) | 67312..67896 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| HUS2011_RS27850 (HUS2011_pI0093) | 67956..69158 | - | 1203 | WP_000976357 | conjugal transfer protein TraF | - |
| HUS2011_RS27855 (HUS2011_pI0094) | 69244..70068 | - | 825 | WP_001238932 | conjugal transfer protein TraE | traE |
| HUS2011_RS27860 (HUS2011_pI0095) | 70219..71373 | - | 1155 | WP_001139956 | site-specific integrase | - |
| HUS2011_RS32660 | 71958..72182 | + | 225 | Protein_78 | hypothetical protein | - |
| HUS2011_RS28630 (HUS2011_pI0098) | 72179..72427 | - | 249 | WP_001349157 | hypothetical protein | - |
| HUS2011_RS27875 (HUS2011_pI0100) | 73063..74445 | - | 1383 | WP_023383831 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HUS2011_RS27880 (HUS2011_pI0101) | 74433..75089 | - | 657 | WP_001193549 | A24 family peptidase | - |
| HUS2011_RS27885 (HUS2011_pI0102) | 75074..75634 | - | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| HUS2011_RS27890 (HUS2011_pI0103) | 75644..76258 | - | 615 | WP_000908227 | type 4 pilus major pilin | - |
| HUS2011_RS27895 (HUS2011_pI0104) | 76275..77360 | - | 1086 | WP_001208802 | type II secretion system F family protein | - |
| HUS2011_RS27900 (HUS2011_pI0105) | 77373..78926 | - | 1554 | WP_000362206 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HUS2011_RS27905 (HUS2011_pI0106) | 78937..79389 | - | 453 | WP_001247337 | type IV pilus biogenesis protein PilP | - |
| HUS2011_RS27910 (HUS2011_pI0107) | 79376..80671 | - | 1296 | WP_000752782 | type 4b pilus protein PilO2 | - |
| HUS2011_RS27915 (HUS2011_pI0108) | 80664..82346 | - | 1683 | WP_000748144 | PilN family type IVB pilus formation outer membrane protein | - |
| HUS2011_RS27920 (HUS2011_pI0109) | 82360..82797 | - | 438 | WP_000539806 | type IV pilus biogenesis protein PilM | - |
| HUS2011_RS27925 (HUS2011_pI0110) | 82797..83864 | - | 1068 | WP_001360287 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1011 | GenBank | NC_022742 |
| Plasmid name | pHUSEC2011-1 | Incompatibility group | IncI1 |
| Plasmid size | 88546 bp | Coordinate of oriT [Strand] | 33964..34073 [-] |
| Host baterium | Escherichia coli |
Cargo genes
| Drug resistance gene | blaCTX-M-15, blaTEM-1B |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |