Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 103281 |
| Name | oriT_pUR-EC07  |
| Organism | Escherichia coli strain EC07 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_MH674341 (50090..50178 [-], 89 nt) |
| oriT length | 89 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 89 nt
>oriT_pUR-EC07
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 2450 | GenBank | WP_001405892 |
| Name | nikB_HTX37_RS00350_pUR-EC07 |
UniProt ID | A0A3V4WX06 |
| Length | 899 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
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
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A3V4WX06 |
Auxiliary protein
| ID | 1049 | GenBank | WP_001283947 |
| Name | WP_001283947_pUR-EC07 |
UniProt ID | A0A142CMC2 |
| Length | 110 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 110 a.a. Molecular weight: 12613.57 Da Isoelectric Point: 10.7463
>WP_001283947.1 MULTISPECIES: IncI1-type relaxosome accessory protein NikA [Enterobacteriaceae]
MSDSAVRKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG
MSDSAVRKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG
Protein domains
No domain identified.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A142CMC2 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 55555..95358
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HTX37_RS00625 | 53272..55562 | - | 2291 | Protein_68 | F-type conjugative transfer protein TrbC | - |
| HTX37_RS00365 | 55555..56625 | - | 1071 | WP_000151582 | IncI1-type conjugal transfer protein TrbB | trbB |
| HTX37_RS00370 | 56644..57852 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| HTX37_RS00375 | 58159..58938 | - | 780 | WP_275450201 | protein FinQ | - |
| HTX37_RS00380 | 59565..59717 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| HTX37_RS00385 | 59789..60040 | - | 252 | WP_001291968 | hypothetical protein | - |
| HTX37_RS00390 | 60964..61140 | - | 177 | WP_001054900 | hypothetical protein | - |
| HTX37_RS00395 | 61349..61558 | - | 210 | WP_001140545 | hemolysin expression modulator Hha | - |
| HTX37_RS00400 | 61656..62270 | - | 615 | WP_000578649 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HTX37_RS00405 | 62346..64514 | - | 2169 | WP_000698360 | IncI1-type conjugal transfer membrane protein TraY | traY |
| HTX37_RS00410 | 64611..65195 | - | 585 | WP_001579774 | IncI1-type conjugal transfer protein TraX | - |
| HTX37_RS00415 | 65224..66425 | - | 1202 | Protein_79 | IncI1-type conjugal transfer protein TraW | - |
| HTX37_RS00420 | 66392..67006 | - | 615 | WP_000337394 | IncI1-type conjugal transfer protein TraV | traV |
| HTX37_RS00425 | 67006..70048 | - | 3043 | Protein_81 | IncI1-type conjugal transfer protein TraU | - |
| HTX37_RS00430 | 70138..70938 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| HTX37_RS00435 | 70922..71110 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| HTX37_RS00440 | 71174..71578 | - | 405 | WP_001579770 | DUF6750 family protein | traR |
| HTX37_RS00445 | 71629..72156 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| HTX37_RS00450 | 72156..72860 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HTX37_RS00455 | 72860..74149 | - | 1290 | WP_001271997 | conjugal transfer protein TraO | traO |
| HTX37_RS00460 | 74152..75135 | - | 984 | WP_001579769 | IncI1-type conjugal transfer protein TraN | traN |
| HTX37_RS00465 | 75146..75838 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| HTX37_RS00470 | 75835..76182 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| HTX37_RS00475 | 76200..79967 | - | 3768 | WP_001579768 | LPD7 domain-containing protein | - |
| HTX37_RS00480 | 80057..80608 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| HTX37_RS00485 | 80623..80913 | - | 291 | WP_001372180 | hypothetical protein | traK |
| HTX37_RS00490 | 80910..82058 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HTX37_RS00495 | 82055..82873 | - | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HTX37_RS00500 | 82870..83328 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HTX37_RS00505 | 83723..84307 | - | 585 | WP_001579766 | histidine phosphatase family protein | - |
| HTX37_RS00510 | 84367..85569 | - | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| HTX37_RS00515 | 85655..86479 | - | 825 | WP_001238929 | conjugal transfer protein TraE | traE |
| HTX37_RS00520 | 86630..87784 | - | 1155 | WP_001139958 | site-specific integrase | - |
| HTX37_RS00525 | 89549..90841 | - | 1293 | WP_001417545 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HTX37_RS00530 | 90853..91508 | - | 656 | Protein_102 | prepilin peptidase | - |
| HTX37_RS00535 | 91493..92053 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| HTX37_RS00540 | 92063..92677 | - | 615 | WP_000959786 | type 4 pilus major pilin | - |
| HTX37_RS00545 | 92695..93792 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| HTX37_RS00550 | 93805..95358 | - | 1554 | WP_001579763 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HTX37_RS00555 | 95369..95821 | - | 453 | WP_001247334 | type IV pilus biogenesis protein PilP | - |
| HTX37_RS00560 | 95808..97101 | - | 1294 | Protein_108 | type 4b pilus protein PilO2 | - |
| HTX37_RS00565 | 97094..98775 | - | 1682 | Protein_109 | PilN family type IVB pilus formation outer membrane protein | - |
| HTX37_RS00570 | 98789..99226 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| HTX37_RS00575 | 99226..100293 | - | 1068 | WP_001302629 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 3724 | GenBank | NZ_MH674341 |
| Plasmid name | pUR-EC07 | Incompatibility group | IncI1 |
| Plasmid size | 105836 bp | Coordinate of oriT [Strand] | 50090..50178 [-] |
| Host baterium | Escherichia coli strain EC07 |
Cargo genes
| Drug resistance gene | erm(B), blaTEM-1B, blaCTX-M-14 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |