Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 113766 |
| Name | oriT_p7111-69  |
| Organism | Shigella sonnei strain 7111.69 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP049176 (30639..30727 [+], 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_p7111-69
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 8812 | GenBank | WP_011264053 |
| Name | nikB_G6O62_RS24730_p7111-69 |
UniProt ID | A0A767TAZ8 |
| Length | 899 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
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
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A767TAZ8 |
Auxiliary protein
| ID | 5199 | GenBank | WP_063119516 |
| Name | WP_063119516_p7111-69 |
UniProt ID | _ |
| Length | 110 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 110 a.a. Molecular weight: 12585.55 Da Isoelectric Point: 10.6897
>WP_063119516.1 MULTISPECIES: IncI1-type relaxosome accessory protein NikA [Enterobacteriaceae]
MSDSAVKKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG
MSDSAVKKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG
Protein domains
No domain identified.
Protein structure
No available structure.
T4CP
| ID | 10218 | GenBank | WP_011264051 |
| Name | trbC_G6O62_RS24725_p7111-69 |
UniProt ID | _ |
| Length | 763 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 763 a.a. Molecular weight: 86954.10 Da Isoelectric Point: 6.7713
>WP_011264051.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 1..25261
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| G6O62_RS24595 | 1..291 | + | 291 | WP_001314267 | hypothetical protein | traK |
| G6O62_RS24600 (G6O62_24515) | 306..857 | + | 552 | WP_000014586 | phospholipase D family protein | - |
| G6O62_RS24605 (G6O62_24520) | 947..4711 | + | 3765 | WP_001141540 | LPD7 domain-containing protein | - |
| G6O62_RS24610 (G6O62_24525) | 4729..5076 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| G6O62_RS24615 (G6O62_24530) | 5073..5765 | + | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| G6O62_RS24620 (G6O62_24535) | 5776..6759 | + | 984 | WP_001191879 | IncI1-type conjugal transfer protein TraN | traN |
| G6O62_RS24625 (G6O62_24540) | 6762..8051 | + | 1290 | WP_001271994 | conjugal transfer protein TraO | traO |
| G6O62_RS24630 (G6O62_24545) | 8051..8755 | + | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| G6O62_RS24635 (G6O62_24550) | 8755..9282 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| G6O62_RS24640 (G6O62_24555) | 9333..9737 | + | 405 | WP_000086965 | IncI1-type conjugal transfer protein TraR | traR |
| G6O62_RS24645 (G6O62_24560) | 9801..9989 | + | 189 | WP_001277253 | putative conjugal transfer protein TraS | - |
| G6O62_RS24650 (G6O62_24565) | 9973..10773 | + | 801 | WP_107372244 | IncI1-type conjugal transfer protein TraT | traT |
| G6O62_RS24655 (G6O62_24570) | 10863..13907 | + | 3045 | WP_107372243 | IncI1-type conjugal transfer protein TraU | traU |
| G6O62_RS24660 (G6O62_24575) | 13907..14521 | + | 615 | WP_000337395 | IncI1-type conjugal transfer protein TraV | traV |
| G6O62_RS24665 (G6O62_24580) | 14488..15690 | + | 1203 | WP_107372242 | IncI1-type conjugal transfer protein TraW | traW |
| G6O62_RS24670 (G6O62_24585) | 15719..16303 | + | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| G6O62_RS24675 (G6O62_24590) | 16400..18568 | + | 2169 | WP_001774191 | DotA/TraY family protein | traY |
| G6O62_RS24680 (G6O62_24595) | 18642..19292 | + | 651 | WP_001178506 | plasmid IncI1-type surface exclusion protein ExcA | - |
| G6O62_RS24685 (G6O62_24600) | 19364..19573 | - | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| G6O62_RS24690 | 19939..20115 | + | 177 | WP_001054898 | hypothetical protein | - |
| G6O62_RS25185 | 20180..20275 | - | 96 | WP_000609148 | DinQ-like type I toxin DqlB | - |
| G6O62_RS24700 (G6O62_24610) | 20776..21027 | + | 252 | WP_001291964 | hypothetical protein | - |
| G6O62_RS24705 (G6O62_24615) | 21099..21251 | - | 153 | WP_001387489 | Hok/Gef family protein | - |
| G6O62_RS24710 (G6O62_24620) | 21878..22657 | + | 780 | WP_275450201 | protein FinQ | - |
| G6O62_RS24715 (G6O62_24625) | 22964..24172 | + | 1209 | WP_107372241 | IncI1-type conjugal transfer protein TrbA | trbA |
| G6O62_RS24720 (G6O62_24630) | 24191..25261 | + | 1071 | WP_000151590 | IncI1-type conjugal transfer protein TrbB | trbB |
| G6O62_RS24725 (G6O62_24635) | 25254..27545 | + | 2292 | WP_011264051 | F-type conjugative transfer protein TrbC | - |
Host bacterium
| ID | 14201 | GenBank | NZ_CP049176 |
| Plasmid name | p7111-69 | Incompatibility group | IncI1 |
| Plasmid size | 86143 bp | Coordinate of oriT [Strand] | 30639..30727 [+] |
| Host baterium | Shigella sonnei strain 7111.69 |
Cargo genes
| Drug resistance gene | blaCTX-M-3 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |