Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 101175 |
| Name | oriT_EcSS20|unnamed1  |
| Organism | Escherichia coli strain EcSS20 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_SDDW01000027 (12197..12285 [-], 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_EcSS20|unnamed1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1172 | GenBank | WP_052974688 |
| Name | nikB_ERL57_RS21445_EcSS20|unnamed1 |
UniProt ID | A0A0F7KZP4 |
| Length | 899 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 103875.39 Da Isoelectric Point: 7.5153
>WP_052974688.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKHTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAVKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADIRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKHTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAVKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADIRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A0F7KZP4 |
Auxiliary protein
| ID | 417 | GenBank | WP_001283947 |
| Name | WP_001283947_EcSS20|unnamed1 |
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 |
T4CP
| ID | 764 | GenBank | WP_072121498 |
| Name | trbC_ERL57_RS21450_EcSS20|unnamed1 |
UniProt ID | _ |
| Length | 763 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 763 a.a. Molecular weight: 86896.07 Da Isoelectric Point: 6.7712
>WP_072121498.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTAKTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKIDVQELIELH
PGEFFSIFRGETVPSASFFIPDNEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTAKTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKIDVQELIELH
PGEFFSIFRGETVPSASFFIPDNEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 17663..47103
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ERL57_RS21450 (ERL57_21450) | 15379..17670 | - | 2292 | WP_072121498 | F-type conjugative transfer protein TrbC | - |
| ERL57_RS21455 (ERL57_21455) | 17663..18733 | - | 1071 | WP_052974687 | IncI1-type conjugal transfer protein TrbB | trbB |
| ERL57_RS21460 (ERL57_21460) | 18752..19960 | - | 1209 | WP_052974686 | IncI1-type conjugal transfer protein TrbA | trbA |
| ERL57_RS21465 (ERL57_21465) | 20249..20404 | + | 156 | WP_000249068 | Hok/Gef family protein | - |
| ERL57_RS21470 (ERL57_21470) | 20476..20727 | - | 252 | WP_001291967 | hypothetical protein | - |
| ERL57_RS25175 | 21226..21321 | + | 96 | WP_001303310 | DinQ-like type I toxin DqlB | - |
| ERL57_RS24620 | 21386..21562 | - | 177 | WP_001054898 | hypothetical protein | - |
| ERL57_RS21475 (ERL57_21475) | 21954..22163 | + | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| ERL57_RS21480 (ERL57_21480) | 22235..22897 | - | 663 | WP_012783935 | plasmid IncI1-type surface exclusion protein ExcA | - |
| ERL57_RS21485 (ERL57_21485) | 22968..25136 | - | 2169 | WP_052974685 | DotA/TraY family protein | traY |
| ERL57_RS21490 (ERL57_21490) | 25233..25817 | - | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| ERL57_RS21495 (ERL57_21495) | 25846..27048 | - | 1203 | WP_001189160 | IncI1-type conjugal transfer protein TraW | traW |
| ERL57_RS21500 (ERL57_21500) | 27015..27629 | - | 615 | WP_000337394 | IncI1-type conjugal transfer protein TraV | traV |
| ERL57_RS21505 (ERL57_21505) | 27629..30673 | - | 3045 | WP_052974684 | IncI1-type conjugal transfer protein TraU | traU |
| ERL57_RS21510 (ERL57_21510) | 30763..31563 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| ERL57_RS21515 (ERL57_21515) | 31547..31735 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| ERL57_RS21520 (ERL57_21520) | 31799..32203 | - | 405 | WP_000086965 | IncI1-type conjugal transfer protein TraR | traR |
| ERL57_RS21525 (ERL57_21525) | 32254..32781 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| ERL57_RS21530 (ERL57_21530) | 32781..33485 | - | 705 | WP_052974683 | IncI1-type conjugal transfer protein TraP | traP |
| ERL57_RS21535 (ERL57_21535) | 33485..34774 | - | 1290 | WP_001744085 | conjugal transfer protein TraO | traO |
| ERL57_RS21540 (ERL57_21540) | 34777..35760 | - | 984 | WP_001191879 | IncI1-type conjugal transfer protein TraN | traN |
| ERL57_RS21545 (ERL57_21545) | 35771..36463 | - | 693 | WP_000138549 | DotI/IcmL family type IV secretion protein | traM |
| ERL57_RS21550 (ERL57_21550) | 36460..36807 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| ERL57_RS21555 (ERL57_21555) | 36825..40592 | - | 3768 | WP_085453269 | LPD7 domain-containing protein | - |
| ERL57_RS21560 (ERL57_21560) | 40682..41233 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| ERL57_RS21565 (ERL57_21565) | 41248..41538 | - | 291 | WP_001330823 | hypothetical protein | traK |
| ERL57_RS21570 (ERL57_21570) | 41535..42683 | - | 1149 | WP_001024975 | plasmid transfer ATPase TraJ | virB11 |
| ERL57_RS21575 (ERL57_21575) | 42680..43498 | - | 819 | WP_000646098 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| ERL57_RS21580 (ERL57_21580) | 43495..43953 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| ERL57_RS21585 (ERL57_21585) | 44348..44932 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| ERL57_RS21590 (ERL57_21590) | 44992..46194 | - | 1203 | WP_000976351 | conjugal transfer protein TraF | - |
| ERL57_RS21595 (ERL57_21595) | 46279..47103 | - | 825 | WP_001238939 | conjugal transfer protein TraE | traE |
| ERL57_RS21600 (ERL57_21600) | 47254..48408 | - | 1155 | WP_001139955 | site-specific integrase | - |
Host bacterium
| ID | 1619 | GenBank | NZ_SDDW01000027 |
| Plasmid name | EcSS20|unnamed1 | Incompatibility group | - |
| Plasmid size | 48474 bp | Coordinate of oriT [Strand] | 12197..12285 [-] |
| Host baterium | Escherichia coli strain EcSS20 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |