Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100972 |
| Name | oriT_pEC1515-1  |
| Organism | Escherichia coli strain EC1515 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP021845 (44719..44828 [+], 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_pEC1515-1
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1042 | GenBank | WP_011264053 |
| Name | NikB_pEC1515-1 |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 103882.34 Da Isoelectric Point: 7.4198
>WP_011264053.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 1862..36818
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| CDH89_RS26065 (CDH89_26045) | 557..1711 | + | 1155 | WP_001139955 | site-specific integrase | - |
| CDH89_RS26070 (CDH89_26050) | 1862..2686 | + | 825 | WP_023518851 | conjugal transfer protein TraE | traE |
| CDH89_RS26075 (CDH89_26055) | 2772..3974 | + | 1203 | WP_000976351 | conjugal transfer protein TraF | - |
| CDH89_RS26080 (CDH89_26060) | 4034..4618 | + | 585 | WP_000977522 | histidine phosphatase family protein | - |
| CDH89_RS26085 (CDH89_26065) | 5013..5471 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| CDH89_RS26090 (CDH89_26070) | 5468..6286 | + | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| CDH89_RS26095 (CDH89_26075) | 6283..7431 | + | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| CDH89_RS26100 (CDH89_26080) | 7428..7718 | + | 291 | WP_001299214 | hypothetical protein | traK |
| CDH89_RS26105 (CDH89_26085) | 7733..8284 | + | 552 | WP_000014584 | phospholipase D family protein | - |
| CDH89_RS26110 (CDH89_26090) | 8374..12141 | + | 3768 | WP_023518849 | LPD7 domain-containing protein | - |
| CDH89_RS26115 (CDH89_26095) | 12159..12506 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| CDH89_RS26120 (CDH89_26100) | 12503..13195 | + | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| CDH89_RS26125 (CDH89_26105) | 13206..14189 | + | 984 | WP_001191880 | IncI1-type conjugal transfer protein TraN | traN |
| CDH89_RS26130 (CDH89_26110) | 14192..15481 | + | 1290 | WP_011264042 | conjugal transfer protein TraO | traO |
| CDH89_RS26135 (CDH89_26115) | 15481..16185 | + | 705 | WP_001493811 | IncI1-type conjugal transfer protein TraP | traP |
| CDH89_RS26140 (CDH89_26120) | 16185..16712 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| CDH89_RS26145 (CDH89_26125) | 16763..17167 | + | 405 | WP_000086965 | IncI1-type conjugal transfer protein TraR | traR |
| CDH89_RS26150 (CDH89_26130) | 17231..17419 | + | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| CDH89_RS26155 (CDH89_26135) | 17403..18203 | + | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| CDH89_RS26160 (CDH89_26140) | 18293..21337 | + | 3045 | WP_023518848 | IncI1-type conjugal transfer protein TraU | traU |
| CDH89_RS26165 (CDH89_26145) | 21337..21951 | + | 615 | WP_000337399 | IncI1-type conjugal transfer protein TraV | traV |
| CDH89_RS26170 (CDH89_26150) | 21918..23120 | + | 1203 | WP_001189160 | IncI1-type conjugal transfer protein TraW | traW |
| CDH89_RS26175 (CDH89_26155) | 23149..23733 | + | 585 | WP_001746157 | IncI1-type conjugal transfer protein TraX | - |
| CDH89_RS26180 (CDH89_26160) | 23830..25998 | + | 2169 | WP_023518847 | DotA/TraY family protein | traY |
| CDH89_RS26185 (CDH89_26165) | 26069..26731 | + | 663 | WP_000644796 | plasmid IncI1-type surface exclusion protein ExcA | - |
| CDH89_RS26190 (CDH89_26170) | 26803..27012 | - | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| CDH89_RS28600 | 27404..27580 | + | 177 | WP_001054897 | hypothetical protein | - |
| CDH89_RS29160 | 27645..27740 | - | 96 | WP_000609148 | DinQ-like type I toxin DqlB | - |
| CDH89_RS26200 (CDH89_26180) | 28241..28492 | + | 252 | WP_001291964 | hypothetical protein | - |
| CDH89_RS26205 (CDH89_26185) | 28564..28716 | - | 153 | WP_001387489 | Hok/Gef family protein | - |
| CDH89_RS28385 | 29037..29411 | + | 375 | WP_249537783 | hypothetical protein | - |
| CDH89_RS26215 (CDH89_26195) | 29564..30826 | + | 1263 | WP_000608644 | IS1380-like element ISEcp1 family transposase | - |
| CDH89_RS26220 (CDH89_26200) | 31150..32295 | + | 1146 | WP_015056382 | class C beta-lactamase CMY-4 | - |
| CDH89_RS26225 (CDH89_26205) | 32389..32922 | + | 534 | WP_001221666 | lipocalin family protein | - |
| CDH89_RS26230 (CDH89_26210) | 32919..33236 | - | 318 | WP_000118520 | quaternary ammonium compound efflux SMR transporter SugE | - |
| CDH89_RS26235 (CDH89_26215) | 33432..34214 | + | 783 | WP_023063753 | protein FinQ | - |
| CDH89_RS26240 (CDH89_26220) | 34521..35729 | + | 1209 | WP_011264049 | IncI1-type conjugal transfer protein TrbA | trbA |
| CDH89_RS26245 (CDH89_26225) | 35748..36818 | + | 1071 | WP_011264050 | IncI1-type conjugal transfer protein TrbB | trbB |
| CDH89_RS26250 (CDH89_26230) | 36811..38817 | + | 2007 | Protein_40 | F-type conjugative transfer protein TrbC | - |
| CDH89_RS26255 (CDH89_26235) | 38902..39327 | + | 426 | WP_000422741 | transposase | - |
| CDH89_RS26260 (CDH89_26240) | 39324..39674 | + | 351 | WP_000624722 | IS66 family insertion sequence element accessory protein TnpB | - |
| CDH89_RS26265 (CDH89_26245) | 39705..41318 | + | 1614 | WP_000080193 | IS66-like element ISEc23 family transposase | - |
| CDH89_RS26270 (CDH89_26250) | 41349..41642 | + | 294 | Protein_44 | conjugal transfer protein TrbC | - |
Region 2: 98869..123828
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| CDH89_RS26710 (CDH89_26690) | 93931..94998 | + | 1068 | WP_001360287 | type IV pilus biogenesis lipoprotein PilL | - |
| CDH89_RS26715 (CDH89_26695) | 94998..95435 | + | 438 | WP_000539806 | type IV pilus biogenesis protein PilM | - |
| CDH89_RS26720 (CDH89_26700) | 95449..97131 | + | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| CDH89_RS26725 (CDH89_26705) | 97124..98419 | + | 1296 | WP_023518855 | type 4b pilus protein PilO2 | - |
| CDH89_RS26730 (CDH89_26710) | 98406..98858 | + | 453 | WP_001247337 | type IV pilus biogenesis protein PilP | - |
| CDH89_RS26735 (CDH89_26715) | 98869..100422 | + | 1554 | WP_023518854 | ATPase, T2SS/T4P/T4SS family | virB11 |
| CDH89_RS26740 (CDH89_26720) | 100435..101520 | + | 1086 | WP_001208802 | type II secretion system F family protein | - |
| CDH89_RS26745 (CDH89_26725) | 101537..102151 | + | 615 | WP_000908227 | type 4 pilus major pilin | - |
| CDH89_RS26750 (CDH89_26730) | 102161..102721 | + | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| CDH89_RS26755 (CDH89_26735) | 102706..103362 | + | 657 | WP_001401940 | A24 family peptidase | - |
| CDH89_RS26760 (CDH89_26740) | 103362..104652 | + | 1291 | Protein_123 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| CDH89_RS29235 | 105272..105532 | - | 261 | Protein_124 | Shufflon protein B | - |
| CDH89_RS29000 (CDH89_26760) | 105882..106183 | - | 302 | Protein_125 | shufflon protein C | - |
| CDH89_RS26785 (CDH89_26765) | 106182..107336 | + | 1155 | WP_001139955 | site-specific integrase | - |
| CDH89_RS26790 (CDH89_26770) | 107487..108311 | + | 825 | WP_023518851 | conjugal transfer protein TraE | traE |
| CDH89_RS26795 (CDH89_26775) | 108397..109599 | + | 1203 | WP_000976351 | conjugal transfer protein TraF | - |
| CDH89_RS26800 (CDH89_26780) | 109659..110243 | + | 585 | WP_000977522 | histidine phosphatase family protein | - |
| CDH89_RS26805 (CDH89_26785) | 110638..111096 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| CDH89_RS26810 (CDH89_26790) | 111093..111911 | + | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| CDH89_RS26815 (CDH89_26795) | 111908..113056 | + | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| CDH89_RS26820 (CDH89_26800) | 113053..113343 | + | 291 | WP_001299214 | hypothetical protein | traK |
| CDH89_RS26825 (CDH89_26805) | 113358..113909 | + | 552 | WP_000014584 | phospholipase D family protein | - |
| CDH89_RS26830 (CDH89_26810) | 113999..117766 | + | 3768 | WP_023518849 | LPD7 domain-containing protein | - |
| CDH89_RS26835 (CDH89_26815) | 117784..118131 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| CDH89_RS26840 (CDH89_26820) | 118128..118820 | + | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| CDH89_RS26845 (CDH89_26825) | 118831..119814 | + | 984 | WP_001191880 | IncI1-type conjugal transfer protein TraN | traN |
| CDH89_RS26850 (CDH89_26830) | 119817..121106 | + | 1290 | WP_011264042 | conjugal transfer protein TraO | traO |
| CDH89_RS26855 (CDH89_26835) | 121106..121810 | + | 705 | WP_001493811 | IncI1-type conjugal transfer protein TraP | traP |
| CDH89_RS26860 (CDH89_26840) | 121810..122337 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| CDH89_RS26865 (CDH89_26845) | 122388..122792 | + | 405 | WP_000086965 | IncI1-type conjugal transfer protein TraR | traR |
| CDH89_RS26870 (CDH89_26850) | 122856..123044 | + | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| CDH89_RS26875 (CDH89_26855) | 123028..123828 | + | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
Host bacterium
| ID | 1430 | GenBank | NZ_CP021845 |
| Plasmid name | pEC1515-1 | Incompatibility group | IncI1 |
| Plasmid size | 125099 bp | Coordinate of oriT [Strand] | 44719..44828 [+] |
| Host baterium | Escherichia coli strain EC1515 |
Cargo genes
| Drug resistance gene | blaCMY-4, aac(3)-IId, ant(3'')-Ia |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |