Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100929 |
| Name | oriT_pI1_WCHEC1613  |
| Organism | Escherichia coli strain WCHEC050613 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP019215 (83562..83671 [+], 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_pI1_WCHEC1613
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1000 | GenBank | WP_071447698 |
| Name | NikB_pI1_WCHEC1613 |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 103868.35 Da Isoelectric Point: 7.4198
>WP_071447698.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMEGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMEGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
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: 35772..75192
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| DBA32_RS24565 (BVJ48_27055) | 33488..35779 | - | 2292 | WP_001289275 | F-type conjugative transfer protein TrbC | - |
| DBA32_RS24570 (BVJ48_27050) | 35772..36842 | - | 1071 | WP_000151583 | IncI1-type conjugal transfer protein TrbB | trbB |
| DBA32_RS24575 (BVJ48_27045) | 36861..38069 | - | 1209 | WP_071447697 | IncI1-type conjugal transfer protein TrbA | trbA |
| DBA32_RS24580 (BVJ48_27040) | 38287..39273 | - | 987 | WP_001257838 | hypothetical protein | - |
| DBA32_RS24585 (BVJ48_27035) | 39545..39697 | + | 153 | WP_001331364 | Hok/Gef family protein | - |
| DBA32_RS24590 (BVJ48_27030) | 39769..40020 | - | 252 | WP_001291964 | hypothetical protein | - |
| DBA32_RS25950 | 40519..40614 | + | 96 | WP_001303310 | DinQ-like type I toxin DqlB | - |
| DBA32_RS25465 | 40679..40855 | - | 177 | WP_001054901 | hypothetical protein | - |
| DBA32_RS24595 (BVJ48_27015) | 41187..41396 | + | 210 | WP_000062602 | HEAT repeat domain-containing protein | - |
| DBA32_RS24600 (BVJ48_27010) | 41468..42130 | - | 663 | WP_060527638 | plasmid IncI1-type surface exclusion protein ExcA | - |
| DBA32_RS24605 (BVJ48_27005) | 42201..44369 | - | 2169 | WP_000698368 | DotA/TraY family protein | traY |
| DBA32_RS24610 (BVJ48_27000) | 44466..45050 | - | 585 | WP_060527640 | IncI1-type conjugal transfer protein TraX | - |
| DBA32_RS24615 (BVJ48_26995) | 45079..46281 | - | 1203 | WP_001189156 | IncI1-type conjugal transfer protein TraW | traW |
| DBA32_RS24620 (BVJ48_26990) | 46248..46862 | - | 615 | WP_000337399 | IncI1-type conjugal transfer protein TraV | traV |
| DBA32_RS24625 (BVJ48_26985) | 46862..49906 | - | 3045 | WP_071447696 | IncI1-type conjugal transfer protein TraU | traU |
| DBA32_RS24630 (BVJ48_26980) | 49996..50796 | - | 801 | WP_060527642 | IncI1-type conjugal transfer protein TraT | traT |
| DBA32_RS24635 (BVJ48_26975) | 50780..50968 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| DBA32_RS24640 (BVJ48_26970) | 51032..51436 | - | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| DBA32_RS24645 (BVJ48_26965) | 51487..52014 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| DBA32_RS24650 (BVJ48_26960) | 52014..52718 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| DBA32_RS24655 (BVJ48_26955) | 52718..54007 | - | 1290 | WP_001271994 | conjugal transfer protein TraO | traO |
| DBA32_RS24660 (BVJ48_26950) | 54010..54993 | - | 984 | WP_021513963 | IncI1-type conjugal transfer protein TraN | traN |
| DBA32_RS24665 (BVJ48_26945) | 55004..55696 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| DBA32_RS24670 (BVJ48_26940) | 55693..56040 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| DBA32_RS24675 (BVJ48_26935) | 56058..59825 | - | 3768 | WP_021513964 | LPD7 domain-containing protein | - |
| DBA32_RS24680 (BVJ48_26930) | 59915..60466 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| DBA32_RS24685 (BVJ48_26925) | 60481..60771 | - | 291 | WP_001299214 | hypothetical protein | traK |
| DBA32_RS24690 (BVJ48_26920) | 60768..61916 | - | 1149 | WP_001024976 | plasmid transfer ATPase TraJ | virB11 |
| DBA32_RS24695 (BVJ48_26915) | 61913..62731 | - | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| DBA32_RS24700 (BVJ48_26910) | 62728..63186 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| DBA32_RS24705 (BVJ48_26905) | 63581..64165 | - | 585 | WP_000977525 | histidine phosphatase family protein | - |
| DBA32_RS24710 (BVJ48_26900) | 64225..65427 | - | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| DBA32_RS24715 (BVJ48_26895) | 65513..66337 | - | 825 | WP_015058912 | conjugal transfer protein TraE | traE |
| DBA32_RS24720 (BVJ48_26890) | 66488..67642 | - | 1155 | WP_071447700 | site-specific integrase | - |
| DBA32_RS24750 (DBA32_26240) | 69162..69410 | + | 249 | WP_001349157 | hypothetical protein | - |
| DBA32_RS24755 (BVJ48_26850) | 69407..70699 | - | 1293 | WP_039719938 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| DBA32_RS24760 (BVJ48_26845) | 70699..71355 | - | 657 | WP_001193551 | A24 family peptidase | - |
| DBA32_RS24765 (BVJ48_26840) | 71340..71900 | - | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| DBA32_RS24770 (BVJ48_26835) | 71910..72524 | - | 615 | WP_000908228 | type 4 pilus major pilin | - |
| DBA32_RS24775 (BVJ48_26830) | 72541..73626 | - | 1086 | WP_001208803 | type II secretion system F family protein | - |
| DBA32_RS24780 (BVJ48_26825) | 73639..75192 | - | 1554 | WP_000362204 | ATPase, T2SS/T4P/T4SS family | virB11 |
| DBA32_RS24785 (BVJ48_26820) | 75203..75655 | - | 453 | WP_001247333 | type IV pilus biogenesis protein PilP | - |
| DBA32_RS24790 (BVJ48_26815) | 75642..76937 | - | 1296 | WP_000752776 | type 4b pilus protein PilO2 | - |
| DBA32_RS24795 (BVJ48_26810) | 76930..78612 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| DBA32_RS24800 (BVJ48_26805) | 78626..79063 | - | 438 | WP_000539811 | type IV pilus biogenesis protein PilM | - |
| DBA32_RS24805 (BVJ48_26800) | 79063..80130 | - | 1068 | WP_021513968 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1388 | GenBank | NZ_CP019215 |
| Plasmid name | pI1_WCHEC1613 | Incompatibility group | IncI1 |
| Plasmid size | 84615 bp | Coordinate of oriT [Strand] | 83562..83671 [+] |
| Host baterium | Escherichia coli strain WCHEC050613 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |