Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100626 |
| Name | oriT_PCN061p5  |
| Organism | Escherichia coli PCN061 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP006641 (47184..47293 [-], 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_PCN061p5
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 698 | GenBank | WP_024143648 |
| Name | NikB_PCN061p5 |
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
>WP_024143648.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
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: 52654..93163
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| PCN061_RS23800 (PCN061_p5082) | 50370..52661 | - | 2292 | WP_001289276 | F-type conjugative transfer protein TrbC | - |
| PCN061_RS23805 (PCN061_p5083) | 52654..53724 | - | 1071 | WP_000151583 | IncI1-type conjugal transfer protein TrbB | trbB |
| PCN061_RS23810 (PCN061_p5084) | 53743..54951 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| PCN061_RS23815 (PCN061_p5085) | 55243..55395 | + | 153 | WP_001331364 | Hok/Gef family protein | - |
| PCN061_RS23820 (PCN061_p5086) | 55467..55718 | - | 252 | WP_001291964 | hypothetical protein | - |
| PCN061_RS30035 | 56217..56312 | + | 96 | WP_001303310 | DinQ-like type I toxin DqlB | - |
| PCN061_RS29525 (PCN061_p5087) | 56377..56553 | - | 177 | WP_001054904 | hypothetical protein | - |
| PCN061_RS23840 (PCN061_p5089) | 56945..57154 | + | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| PCN061_RS23845 (PCN061_p5090) | 57226..57876 | - | 651 | WP_001178506 | plasmid IncI1-type surface exclusion protein ExcA | - |
| PCN061_RS23850 (PCN061_p5091) | 57950..60118 | - | 2169 | WP_021265679 | DotA/TraY family protein | traY |
| PCN061_RS23855 (PCN061_p5092) | 60215..60799 | - | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| PCN061_RS23860 (PCN061_p5093) | 60828..62030 | - | 1203 | WP_001189160 | IncI1-type conjugal transfer protein TraW | traW |
| PCN061_RS23865 (PCN061_p5094) | 61997..62611 | - | 615 | WP_000337398 | IncI1-type conjugal transfer protein TraV | traV |
| PCN061_RS23870 (PCN061_p5095) | 62611..65624 | - | 3014 | Protein_75 | IncI1-type conjugal transfer protein TraU | - |
| PCN061_RS23875 (PCN061_p5096) | 65631..67244 | - | 1614 | WP_000080200 | IS66-like element ISEc23 family transposase | - |
| PCN061_RS23880 (PCN061_p5097) | 67275..67625 | - | 351 | WP_000624722 | IS66 family insertion sequence element accessory protein TnpB | - |
| PCN061_RS23885 (PCN061_p5098) | 67622..68047 | - | 426 | WP_000422741 | transposase | - |
| PCN061_RS23890 (PCN061_p5099) | 68284..69084 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| PCN061_RS23895 (PCN061_p5100) | 69068..69256 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| PCN061_RS23900 (PCN061_p5101) | 69320..69724 | - | 405 | WP_000086958 | IncI1-type conjugal transfer protein TraR | traR |
| PCN061_RS23905 (PCN061_p5102) | 69775..70302 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| PCN061_RS23910 (PCN061_p5103) | 70302..71006 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| PCN061_RS23915 (PCN061_p5104) | 71006..72295 | - | 1290 | WP_001272003 | conjugal transfer protein TraO | traO |
| PCN061_RS23920 (PCN061_p5105) | 72298..73281 | - | 984 | WP_001191877 | IncI1-type conjugal transfer protein TraN | traN |
| PCN061_RS23925 (PCN061_p5106) | 73292..73984 | - | 693 | WP_000138550 | DotI/IcmL family type IV secretion protein | traM |
| PCN061_RS23930 (PCN061_p5107) | 73981..74328 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| PCN061_RS23935 (PCN061_p5108) | 74346..78113 | - | 3768 | WP_001141527 | LPD7 domain-containing protein | - |
| PCN061_RS23940 | 78202..78753 | - | 552 | WP_000014583 | phospholipase D family protein | - |
| PCN061_RS27170 | 78768..79058 | - | 291 | WP_001299214 | hypothetical protein | traK |
| PCN061_RS23945 (PCN061_p5110) | 79055..80203 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| PCN061_RS23950 (PCN061_p5111) | 80200..81018 | - | 819 | WP_000646098 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| PCN061_RS23955 (PCN061_p5112) | 81015..81473 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| PCN061_RS23960 (PCN061_p5114) | 81868..82452 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| PCN061_RS23965 (PCN061_p5115) | 82512..83714 | - | 1203 | WP_000976351 | conjugal transfer protein TraF | - |
| PCN061_RS23970 (PCN061_p5116) | 83799..84623 | - | 825 | WP_001238939 | conjugal transfer protein TraE | traE |
| PCN061_RS23975 (PCN061_p5117) | 84774..85928 | - | 1155 | WP_001139957 | site-specific integrase | - |
| PCN061_RS28700 | 87120..87368 | + | 249 | WP_001349157 | hypothetical protein | - |
| PCN061_RS23990 (PCN061_p5121) | 87365..88657 | - | 1293 | WP_001417545 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| PCN061_RS23995 (PCN061_p5122) | 88657..89313 | - | 657 | WP_001193553 | prepilin peptidase | - |
| PCN061_RS24000 (PCN061_p5123) | 89298..89858 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| PCN061_RS24005 (PCN061_p5124) | 89868..90482 | - | 615 | WP_000959785 | type 4 pilus major pilin | - |
| PCN061_RS24010 (PCN061_p5125) | 90500..91597 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| PCN061_RS24015 (PCN061_p5126) | 91610..93163 | - | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| PCN061_RS24020 (PCN061_p5127) | 93174..93626 | - | 453 | WP_001247334 | type IV pilus biogenesis protein PilP | - |
| PCN061_RS24025 (PCN061_p5128) | 93613..94908 | - | 1296 | WP_000752772 | type 4b pilus protein PilO2 | - |
| PCN061_RS24030 (PCN061_p5129) | 94901..96583 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| PCN061_RS24035 (PCN061_p5130) | 96597..97034 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| PCN061_RS24040 (PCN061_p5131) | 97034..98101 | - | 1068 | WP_001302629 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1086 | GenBank | NZ_CP006641 |
| Plasmid name | PCN061p5 | Incompatibility group | IncI1 |
| Plasmid size | 103644 bp | Coordinate of oriT [Strand] | 47184..47293 [-] |
| Host baterium | Escherichia coli PCN061 |
Cargo genes
| Drug resistance gene | floR |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |