Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100906 |
| Name | oriT_pEC224_2  |
| Organism | Escherichia coli strain Ecol_224 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP018946 (9523..9632 [+], 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_pEC224_2
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 977 | GenBank | WP_012783930 |
| Name | Relaxase_pEC224_2 |
UniProt ID | C7SA36 |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 104070.55 Da Isoelectric Point: 7.3623
>WP_012783930.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSHMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLAERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWLPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALVDKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSHMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLAERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWLPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALVDKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | C7SA36 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 51570..84558
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| BE957_RS01005 (BE957_01005) | 46632..47699 | + | 1068 | WP_032321486 | type IV pilus biogenesis lipoprotein PilL | - |
| BE957_RS01010 (BE957_01010) | 47699..48136 | + | 438 | WP_000539811 | type IV pilus biogenesis protein PilM | - |
| BE957_RS01015 (BE957_01015) | 48150..49832 | + | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| BE957_RS01020 (BE957_01020) | 49825..51120 | + | 1296 | WP_078207113 | type 4b pilus protein PilO2 | - |
| BE957_RS01025 (BE957_01025) | 51107..51559 | + | 453 | WP_001247337 | type IV pilus biogenesis protein PilP | - |
| BE957_RS01030 (BE957_01030) | 51570..53123 | + | 1554 | WP_063118132 | ATPase, T2SS/T4P/T4SS family | virB11 |
| BE957_RS01035 (BE957_01035) | 53136..54221 | + | 1086 | WP_001208802 | type II secretion system F family protein | - |
| BE957_RS01040 (BE957_01040) | 54238..54852 | + | 615 | WP_000908226 | type 4 pilus major pilin | - |
| BE957_RS01045 (BE957_01045) | 54862..55422 | + | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| BE957_RS01050 (BE957_01050) | 55407..56063 | + | 657 | WP_001193549 | A24 family peptidase | - |
| BE957_RS01055 (BE957_01055) | 56063..57355 | + | 1293 | WP_001619585 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| BE957_RS01080 | 58768..59121 | - | 354 | WP_078207114 | shufflon protein D' | - |
| BE957_RS01085 (BE957_01095) | 59120..60274 | + | 1155 | WP_001139955 | site-specific integrase | - |
| BE957_RS01090 (BE957_01100) | 60425..61249 | + | 825 | WP_023518851 | conjugal transfer protein TraE | traE |
| BE957_RS01095 (BE957_01105) | 61335..62537 | + | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| BE957_RS01100 (BE957_01110) | 62597..63181 | + | 585 | WP_000977522 | histidine phosphatase family protein | - |
| BE957_RS01105 (BE957_01115) | 63576..64034 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| BE957_RS01110 (BE957_01120) | 64031..64849 | + | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| BE957_RS01115 (BE957_01125) | 64846..65994 | + | 1149 | WP_078207115 | plasmid transfer ATPase TraJ | virB11 |
| BE957_RS01120 (BE957_01130) | 65991..66281 | + | 291 | WP_001314267 | hypothetical protein | traK |
| BE957_RS01125 (BE957_01135) | 66296..66847 | + | 552 | WP_000014586 | phospholipase D family protein | - |
| BE957_RS01130 (BE957_01140) | 66937..70701 | + | 3765 | WP_078207116 | LPD7 domain-containing protein | - |
| BE957_RS01135 (BE957_01145) | 70719..71066 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| BE957_RS01140 (BE957_01150) | 71063..71755 | + | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| BE957_RS01145 (BE957_01155) | 71766..72749 | + | 984 | WP_001191880 | IncI1-type conjugal transfer protein TraN | traN |
| BE957_RS01150 (BE957_01160) | 72752..74041 | + | 1290 | WP_001271994 | conjugal transfer protein TraO | traO |
| BE957_RS01155 (BE957_01165) | 74041..74745 | + | 705 | WP_001493811 | IncI1-type conjugal transfer protein TraP | traP |
| BE957_RS01160 (BE957_01170) | 74745..75272 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| BE957_RS01165 (BE957_01175) | 75323..75727 | + | 405 | WP_078207117 | IncI1-type conjugal transfer protein TraR | traR |
| BE957_RS01170 (BE957_01180) | 75791..75979 | + | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| BE957_RS01175 (BE957_01185) | 75963..76763 | + | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| BE957_RS01180 (BE957_01190) | 76853..79897 | + | 3045 | WP_078207118 | IncI1-type conjugal transfer protein TraU | traU |
| BE957_RS01185 (BE957_01195) | 79897..80511 | + | 615 | WP_078207119 | IncI1-type conjugal transfer protein TraV | traV |
| BE957_RS01190 (BE957_01200) | 80478..81680 | + | 1203 | WP_001189156 | IncI1-type conjugal transfer protein TraW | traW |
| BE957_RS01195 (BE957_01205) | 81709..82293 | + | 585 | WP_001476649 | IncI1-type conjugal transfer protein TraX | - |
| BE957_RS01200 (BE957_01210) | 82390..84558 | + | 2169 | WP_000698357 | DotA/TraY family protein | traY |
| BE957_RS01205 (BE957_01215) | 84632..85282 | + | 651 | WP_021520375 | plasmid IncI1-type surface exclusion protein ExcA | - |
| BE957_RS01210 (BE957_01220) | 85354..85563 | - | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| BE957_RS28240 (BE957_01230) | 85955..86131 | + | 177 | WP_001054897 | hypothetical protein | - |
| BE957_RS28885 | 86196..86291 | - | 96 | WP_000609148 | DinQ-like type I toxin DqlB | - |
| BE957_RS01220 (BE957_01240) | 86792..87043 | + | 252 | WP_001291964 | hypothetical protein | - |
Host bacterium
| ID | 1365 | GenBank | NZ_CP018946 |
| Plasmid name | pEC224_2 | Incompatibility group | IncI1 |
| Plasmid size | 87114 bp | Coordinate of oriT [Strand] | 9523..9632 [+] |
| Host baterium | Escherichia coli strain Ecol_224 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |