Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 114000 |
| Name | oriT_pSPA440915  |
| Organism | Salmonella enterica subsp. enterica strain 440915 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_MK238490 (37864..37952 [+], 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_pSPA440915
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 8994 | GenBank | WP_001387486 |
| Name | nikB_HTV01_RS00180_pSPA440915 |
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 | 5244 | GenBank | WP_001283947 |
| Name | WP_001283947_pSPA440915 |
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 | 10429 | GenBank | WP_001289278 |
| Name | trbC_HTV01_RS00175_pSPA440915 |
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: 1851..32486
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HTV01_RS00495 | 263..562 | - | 300 | WP_223873359 | pilus assembly protein PilV | - |
| HTV01_RS00010 | 546..1700 | + | 1155 | WP_001139956 | tyrosine-type recombinase/integrase | - |
| HTV01_RS00015 | 1851..2675 | + | 825 | WP_001238932 | conjugal transfer protein TraE | traE |
| HTV01_RS00020 | 2761..3963 | + | 1203 | WP_000976357 | conjugal transfer protein TraF | - |
| HTV01_RS00025 | 4023..4607 | + | 585 | WP_000977522 | histidine phosphatase family protein | - |
| HTV01_RS00030 | 5002..5460 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HTV01_RS00035 | 5457..6275 | + | 819 | WP_000646098 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HTV01_RS00040 | 6272..7420 | + | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HTV01_RS00045 | 7417..7707 | + | 291 | WP_001314267 | hypothetical protein | traK |
| HTV01_RS00050 | 7722..8273 | + | 552 | WP_000014586 | phospholipase D family protein | - |
| HTV01_RS00055 | 8363..12127 | + | 3765 | WP_001141540 | LPD7 domain-containing protein | - |
| HTV01_RS00060 | 12145..12492 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| HTV01_RS00065 | 12489..13181 | + | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| HTV01_RS00070 | 13192..14175 | + | 984 | WP_001191879 | IncI1-type conjugal transfer protein TraN | traN |
| HTV01_RS00075 | 14178..15467 | + | 1290 | WP_001271994 | conjugal transfer protein TraO | traO |
| HTV01_RS00080 | 15467..16171 | + | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HTV01_RS00085 | 16171..16698 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| HTV01_RS00090 | 16749..17153 | + | 405 | WP_000086965 | IncI1-type conjugal transfer protein TraR | traR |
| HTV01_RS00095 | 17217..17405 | + | 189 | WP_001277253 | putative conjugal transfer protein TraS | - |
| HTV01_RS00100 | 17389..18189 | + | 801 | WP_001164783 | IncI1-type conjugal transfer protein TraT | traT |
| HTV01_RS00105 | 18279..21323 | + | 3045 | WP_001024789 | IncI1-type conjugal transfer protein TraU | traU |
| HTV01_RS00110 | 21323..21937 | + | 615 | WP_000337395 | IncI1-type conjugal transfer protein TraV | traV |
| HTV01_RS00115 | 21904..23106 | + | 1203 | WP_001387490 | IncI1-type conjugal transfer protein TraW | traW |
| HTV01_RS00120 | 23135..23719 | + | 585 | WP_001037983 | IncI1-type conjugal transfer protein TraX | - |
| HTV01_RS00125 | 23816..25984 | + | 2169 | WP_000698360 | IncI1-type conjugal transfer membrane protein TraY | traY |
| HTV01_RS00130 | 26060..26674 | + | 615 | WP_000578648 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HTV01_RS00135 | 26772..26981 | + | 210 | WP_001140543 | hemolysin expression modulator Hha | - |
| HTV01_RS00140 | 27164..27340 | + | 177 | WP_001054898 | hypothetical protein | - |
| HTV01_RS00510 | 27405..27500 | - | 96 | WP_000609148 | DinQ-like type I toxin DqlB | - |
| HTV01_RS00150 | 28001..28252 | + | 252 | WP_001291964 | hypothetical protein | - |
| HTV01_RS00155 | 28324..28476 | - | 153 | WP_001387489 | Hok/Gef family protein | - |
| HTV01_RS00160 | 29103..29882 | + | 780 | WP_275450201 | protein FinQ | - |
| HTV01_RS00165 | 30189..31397 | + | 1209 | WP_000121263 | IncI1-type conjugal transfer protein TrbA | trbA |
| HTV01_RS00170 | 31416..32486 | + | 1071 | WP_000151588 | IncI1-type conjugal transfer protein TrbB | trbB |
| HTV01_RS00175 | 32479..34770 | + | 2292 | WP_001289278 | F-type conjugative transfer protein TrbC | - |
Host bacterium
| ID | 14435 | GenBank | NZ_MK238490 |
| Plasmid name | pSPA440915 | Incompatibility group | IncI1 |
| Plasmid size | 90080 bp | Coordinate of oriT [Strand] | 37864..37952 [+] |
| Host baterium | Salmonella enterica subsp. enterica strain 440915 |
Cargo genes
| Drug resistance gene | blaTEM-1B, blaCTX-M-15 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |