Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 102657 |
| Name | oriT_11-3088_1|punknown1  |
| Organism | Escherichia coli strain 11-3088_1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_MBOB01000044 (27879..27967 [+], 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_11-3088_1|punknown1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1968 | GenBank | WP_001387486 |
| Name | nikB_BA735_RS16605_11-3088_1|punknown1 |
UniProt ID | D9Z503 |
| Length | 899 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 103861.32 Da Isoelectric Point: 7.4288
>WP_001387486.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRNRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNRGGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRNRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNRGGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | D9Z503 |
Auxiliary protein
| ID | 793 | GenBank | WP_001283947 |
| Name | WP_001283947_11-3088_1|punknown1 |
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 | 1606 | GenBank | WP_001289278 |
| Name | trbC_BA735_RS16600_11-3088_1|punknown1 |
UniProt ID | _ |
| Length | 763 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 763 a.a. Molecular weight: 86924.02 Da Isoelectric Point: 6.7713
>WP_001289278.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILTAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILTAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 2160..22501
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| BA735_RS16485 (BA735_21575) | 76..2142 | + | 2067 | Protein_0 | LPD7 domain-containing protein | - |
| BA735_RS16490 (BA735_21580) | 2160..2507 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| BA735_RS16495 (BA735_21585) | 2504..3196 | + | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| BA735_RS16500 (BA735_21590) | 3207..4190 | + | 984 | WP_001191879 | IncI1-type conjugal transfer protein TraN | traN |
| BA735_RS16505 (BA735_21595) | 4193..5482 | + | 1290 | WP_001271994 | conjugal transfer protein TraO | traO |
| BA735_RS16510 (BA735_21600) | 5482..6186 | + | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| BA735_RS16515 (BA735_21605) | 6186..6713 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| BA735_RS16520 (BA735_21610) | 6764..7168 | + | 405 | WP_000086965 | IncI1-type conjugal transfer protein TraR | traR |
| BA735_RS16525 (BA735_21615) | 7232..7420 | + | 189 | WP_001277253 | putative conjugal transfer protein TraS | - |
| BA735_RS16530 (BA735_21620) | 7404..8204 | + | 801 | WP_001164783 | IncI1-type conjugal transfer protein TraT | traT |
| BA735_RS16535 (BA735_21625) | 8294..11338 | + | 3045 | WP_001024789 | IncI1-type conjugal transfer protein TraU | traU |
| BA735_RS16540 (BA735_21630) | 11338..11952 | + | 615 | WP_000337395 | IncI1-type conjugal transfer protein TraV | traV |
| BA735_RS16545 (BA735_21635) | 11919..13121 | + | 1203 | WP_001387490 | IncI1-type conjugal transfer protein TraW | traW |
| BA735_RS16550 (BA735_21640) | 13150..13734 | + | 585 | WP_001037983 | IncI1-type conjugal transfer protein TraX | - |
| BA735_RS16555 (BA735_21645) | 13831..15999 | + | 2169 | WP_000698360 | IncI1-type conjugal transfer membrane protein TraY | traY |
| BA735_RS16560 (BA735_21650) | 16075..16689 | + | 615 | WP_000578648 | plasmid IncI1-type surface exclusion protein ExcA | - |
| BA735_RS16565 (BA735_21655) | 16787..16996 | + | 210 | WP_001140543 | hemolysin expression modulator Hha | - |
| BA735_RS28850 (BA735_21665) | 17179..17355 | + | 177 | WP_001054898 | hypothetical protein | - |
| BA735_RS29650 | 17420..17515 | - | 96 | WP_000609148 | DinQ-like type I toxin DqlB | - |
| BA735_RS16575 (BA735_21675) | 18016..18267 | + | 252 | WP_001291964 | hypothetical protein | - |
| BA735_RS16580 (BA735_21680) | 18339..18491 | - | 153 | WP_001387489 | Hok/Gef family protein | - |
| BA735_RS16585 (BA735_21685) | 19118..19897 | + | 780 | WP_275450201 | protein FinQ | - |
| BA735_RS16590 (BA735_21690) | 20204..21412 | + | 1209 | WP_000121263 | IncI1-type conjugal transfer protein TrbA | trbA |
| BA735_RS16595 (BA735_21695) | 21431..22501 | + | 1071 | WP_000151588 | IncI1-type conjugal transfer protein TrbB | trbB |
| BA735_RS16600 (BA735_21700) | 22494..24785 | + | 2292 | WP_001289278 | F-type conjugative transfer protein TrbC | - |
Host bacterium
| ID | 3101 | GenBank | NZ_MBOB01000044 |
| Plasmid name | 11-3088_1|punknown1 | Incompatibility group | - |
| Plasmid size | 48569 bp | Coordinate of oriT [Strand] | 27879..27967 [+] |
| Host baterium | Escherichia coli strain 11-3088_1 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |