Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100409 |
| Name | oriT_pUMNK88_91  |
| Organism | Escherichia coli UMNK88 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_017642 (34156..34265 [-], 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_pUMNK88_91
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 480 | GenBank | WP_001474686 |
| Name | NikB_pUMNK88_91 |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 103834.33 Da Isoelectric Point: 7.3473
>WP_001474686.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFLQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFLQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 39625..80801
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| UMNK88_RS27235 (UMNK88_pIncI142) | 37341..39632 | - | 2292 | WP_001289269 | F-type conjugative transfer protein TrbC | - |
| UMNK88_RS27240 (UMNK88_pIncI143) | 39625..40695 | - | 1071 | WP_000151576 | IncI1-type conjugal transfer protein TrbB | trbB |
| UMNK88_RS27245 (UMNK88_pIncI144) | 40714..41922 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| UMNK88_RS27250 | 42214..42366 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| UMNK88_RS27255 | 42438..42689 | - | 252 | WP_001291965 | hypothetical protein | - |
| UMNK88_RS27260 (UMNK88_pIncI146) | 43422..44072 | + | 651 | WP_000993956 | IS66-like element accessory protein TnpA | - |
| UMNK88_RS27265 (UMNK88_pIncI147) | 44072..44419 | + | 348 | WP_000624600 | IS66 family insertion sequence element accessory protein TnpB | - |
| UMNK88_RS27270 (UMNK88_pIncI148) | 44439..46010 | + | 1572 | WP_000381458 | IS66-like element IS679 family transposase | - |
| UMNK88_RS34515 | 46326..46502 | - | 177 | WP_001054900 | hypothetical protein | - |
| UMNK88_RS27285 | 46894..47103 | + | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| UMNK88_RS27290 (UMNK88_pIncI150) | 47175..47837 | - | 663 | WP_000644794 | plasmid IncI1-type surface exclusion protein ExcA | - |
| UMNK88_RS27295 (UMNK88_pIncI151) | 47908..50076 | - | 2169 | WP_000698368 | DotA/TraY family protein | traY |
| UMNK88_RS27300 (UMNK88_pIncI152) | 50173..50757 | - | 585 | WP_001037985 | IncI1-type conjugal transfer protein TraX | - |
| UMNK88_RS27305 (UMNK88_pIncI153) | 50786..51988 | - | 1203 | WP_001189156 | IncI1-type conjugal transfer protein TraW | traW |
| UMNK88_RS27310 (UMNK88_pIncI154) | 51955..52569 | - | 615 | WP_000337400 | IncI1-type conjugal transfer protein TraV | traV |
| UMNK88_RS27315 (UMNK88_pIncI155) | 52569..55613 | - | 3045 | WP_001024780 | IncI1-type conjugal transfer protein TraU | traU |
| UMNK88_RS27320 (UMNK88_pIncI156) | 55703..56503 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| UMNK88_RS27325 | 56487..56675 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| UMNK88_RS27330 (UMNK88_pIncI157) | 56739..57143 | - | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| UMNK88_RS27335 (UMNK88_pIncI158) | 57194..57721 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| UMNK88_RS27340 (UMNK88_pIncI159) | 57721..58425 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| UMNK88_RS27345 (UMNK88_pIncI160) | 58425..59714 | - | 1290 | WP_001271998 | conjugal transfer protein TraO | traO |
| UMNK88_RS27350 (UMNK88_pIncI161) | 59717..60700 | - | 984 | WP_001191878 | IncI1-type conjugal transfer protein TraN | traN |
| UMNK88_RS27355 (UMNK88_pIncI162) | 60711..61403 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| UMNK88_RS27360 (UMNK88_pIncI163) | 61400..61747 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| UMNK88_RS27365 (UMNK88_pIncI164) | 61765..65532 | - | 3768 | WP_001141534 | LPD7 domain-containing protein | - |
| UMNK88_RS27370 | 65622..66173 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| UMNK88_RS31785 | 66188..66478 | - | 291 | WP_001299214 | hypothetical protein | traK |
| UMNK88_RS27375 (UMNK88_pIncI167) | 66475..67623 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| UMNK88_RS27380 (UMNK88_pIncI168) | 67620..68438 | - | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| UMNK88_RS27385 | 68435..68800 | - | 366 | Protein_77 | IncI1-type conjugal transfer lipoprotein TraH | - |
| UMNK88_RS27400 (UMNK88_pIncI171) | 70601..71185 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| UMNK88_RS27405 (UMNK88_pIncI172) | 71245..72447 | - | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| UMNK88_RS27410 (UMNK88_pIncI173) | 72533..73357 | - | 825 | WP_001238931 | conjugal transfer protein TraE | traE |
| UMNK88_RS27415 (UMNK88_pIncI174) | 73508..74662 | - | 1155 | WP_001139955 | site-specific integrase | - |
| UMNK88_RS27425 (UMNK88_pIncI175) | 74974..76308 | - | 1335 | WP_024250730 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| UMNK88_RS27430 (UMNK88_pIncI176) | 76308..76964 | - | 657 | WP_001193549 | A24 family peptidase | - |
| UMNK88_RS27435 (UMNK88_pIncI177) | 76949..77509 | - | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| UMNK88_RS27440 (UMNK88_pIncI178) | 77519..78133 | - | 615 | WP_000908226 | type 4 pilus major pilin | - |
| UMNK88_RS27445 (UMNK88_pIncI179) | 78150..79235 | - | 1086 | WP_001208802 | type II secretion system F family protein | - |
| UMNK88_RS27450 (UMNK88_pIncI180) | 79248..80801 | - | 1554 | WP_000362206 | ATPase, T2SS/T4P/T4SS family | virB11 |
| UMNK88_RS27455 (UMNK88_pIncI181) | 80812..81264 | - | 453 | WP_001247337 | type IV pilus biogenesis protein PilP | - |
| UMNK88_RS27460 (UMNK88_pIncI182) | 81251..82546 | - | 1296 | WP_000752780 | type 4b pilus protein PilO2 | - |
| UMNK88_RS27465 (UMNK88_pIncI183) | 82539..84221 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| UMNK88_RS27470 (UMNK88_pIncI184) | 84235..84672 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| UMNK88_RS27475 (UMNK88_pIncI185) | 84672..85739 | - | 1068 | WP_001360287 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 870 | GenBank | NC_017642 |
| Plasmid name | pUMNK88_91 | Incompatibility group | IncI1 |
| Plasmid size | 90868 bp | Coordinate of oriT [Strand] | 34156..34265 [-] |
| Host baterium | Escherichia coli UMNK88 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |