Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 104316 |
| Name | oriT_pIncI1-CTX-M-14  |
| Organism | Salmonella enterica subsp. enterica serovar Enteritidis strain 1.11-3A7 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_MN125610 (80990..81078 [+], 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_pIncI1-CTX-M-14
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 3161 | GenBank | WP_006855641 |
| Name | nikB_H5D16_RS00450_pIncI1-CTX-M-14 |
UniProt ID | A0A620WL05 |
| Length | 899 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 104006.42 Da Isoelectric Point: 7.3526
>WP_006855641.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A620WL05 |
Auxiliary protein
| ID | 1383 | GenBank | WP_001283947 |
| Name | WP_001283947_pIncI1-CTX-M-14 |
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 | 3076 | GenBank | WP_001289275 |
| Name | trbC_H5D16_RS00445_pIncI1-CTX-M-14 |
UniProt ID | _ |
| Length | 763 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 763 a.a. Molecular weight: 86957.15 Da Isoelectric Point: 6.7713
>WP_001289275.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 32047..75612
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| H5D16_RS00190 | 27109..28176 | + | 1068 | WP_012783947 | type IV pilus biogenesis lipoprotein PilL | - |
| H5D16_RS00195 | 28176..28613 | + | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| H5D16_RS00200 | 28627..30309 | + | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| H5D16_RS00205 | 30302..31597 | + | 1296 | WP_001388364 | type 4b pilus protein PilO2 | - |
| H5D16_RS00210 | 31584..32036 | + | 453 | WP_001247870 | type IV pilus biogenesis protein PilP | - |
| H5D16_RS00215 | 32047..33600 | + | 1554 | WP_001492932 | ATPase, T2SS/T4P/T4SS family | virB11 |
| H5D16_RS00220 | 33613..34710 | + | 1098 | WP_001492931 | type II secretion system F family protein | - |
| H5D16_RS00225 | 34728..35342 | + | 615 | WP_001542527 | type 4 pilus major pilin | - |
| H5D16_RS00230 | 35352..35912 | + | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| H5D16_RS00235 | 35897..36553 | + | 657 | WP_001193553 | prepilin peptidase | - |
| H5D16_RS00240 | 36553..37881 | + | 1329 | WP_001496394 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| H5D16_RS00245 | 38262..38510 | + | 249 | WP_001349157 | hypothetical protein | - |
| H5D16_RS00565 | 38507..38728 | - | 222 | Protein_50 | prepilin | - |
| H5D16_RS00255 | 38814..38969 | + | 156 | WP_001302705 | hypothetical protein | - |
| H5D16_RS00260 | 39231..40493 | + | 1263 | WP_000608644 | IS1380-like element ISEcp1 family transposase | - |
| H5D16_RS00265 | 40743..41618 | + | 876 | WP_001617865 | extended-spectrum class A beta-lactamase CTX-M-14 | - |
| H5D16_RS00535 | 41698..42105 | + | 408 | Protein_54 | IS5-like element IS903B family transposase | - |
| H5D16_RS00270 | 42154..43176 | + | 1023 | Protein_55 | maltoporin LamB | - |
| H5D16_RS00540 | 43397..43765 | - | 369 | WP_015059923 | hypothetical protein | - |
| H5D16_RS00285 | 43749..44903 | + | 1155 | WP_001139955 | site-specific integrase | - |
| H5D16_RS00290 | 45054..45878 | + | 825 | WP_001690630 | conjugal transfer protein TraE | traE |
| H5D16_RS00295 | 45964..47166 | + | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| H5D16_RS00300 | 47226..47810 | + | 585 | WP_112889166 | histidine phosphatase family protein | - |
| H5D16_RS00305 | 48205..48663 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| H5D16_RS00310 | 48660..49478 | + | 819 | WP_112889167 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| H5D16_RS00315 | 49475..50623 | + | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| H5D16_RS00320 | 50620..50910 | + | 291 | WP_001299214 | hypothetical protein | traK |
| H5D16_RS00325 | 50925..51476 | + | 552 | WP_000014584 | phospholipase D family protein | - |
| H5D16_RS00330 | 51566..55333 | + | 3768 | WP_058649948 | LPD7 domain-containing protein | - |
| H5D16_RS00335 | 55351..55698 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| H5D16_RS00340 | 55695..56387 | + | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| H5D16_RS00345 | 56398..57381 | + | 984 | WP_021513963 | IncI1-type conjugal transfer protein TraN | traN |
| H5D16_RS00350 | 57384..58673 | + | 1290 | WP_001271994 | conjugal transfer protein TraO | traO |
| H5D16_RS00355 | 58673..59377 | + | 705 | WP_023155244 | IncI1-type conjugal transfer protein TraP | traP |
| H5D16_RS00360 | 59377..59904 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| H5D16_RS00365 | 59955..60359 | + | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| H5D16_RS00370 | 60423..60611 | + | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| H5D16_RS00375 | 60595..61395 | + | 801 | WP_001164792 | IncI1-type conjugal transfer protein TraT | traT |
| H5D16_RS00380 | 61485..64529 | + | 3045 | WP_106108247 | IncI1-type conjugal transfer protein TraU | traU |
| H5D16_RS00385 | 64529..65143 | + | 615 | WP_000337399 | IncI1-type conjugal transfer protein TraV | traV |
| H5D16_RS00390 | 65110..66312 | + | 1203 | WP_001189156 | IncI1-type conjugal transfer protein TraW | traW |
| H5D16_RS00395 | 66341..66925 | + | 585 | WP_001037996 | IncI1-type conjugal transfer protein TraX | - |
| H5D16_RS00400 | 67022..69190 | + | 2169 | WP_077250315 | DotA/TraY family protein | traY |
| H5D16_RS00405 | 69255..69917 | + | 663 | WP_000644792 | plasmid IncI1-type surface exclusion protein ExcA | - |
| H5D16_RS00410 | 69989..70198 | - | 210 | WP_000062602 | HEAT repeat domain-containing protein | - |
| H5D16_RS00415 | 70422..70706 | + | 285 | WP_014640317 | hypothetical protein | - |
| H5D16_RS00550 | 70771..70866 | - | 96 | WP_001303310 | DinQ-like type I toxin DqlB | - |
| H5D16_RS00420 | 71365..71589 | + | 225 | WP_234284503 | hypothetical protein | - |
| H5D16_RS00425 | 71686..71838 | - | 153 | WP_001331364 | Hok/Gef family protein | - |
| H5D16_RS00430 | 72111..73097 | + | 987 | WP_001257838 | hypothetical protein | - |
| H5D16_RS00435 | 73315..74523 | + | 1209 | WP_001383960 | IncI1-type conjugal transfer protein TrbA | trbA |
| H5D16_RS00440 | 74542..75612 | + | 1071 | WP_000151583 | IncI1-type conjugal transfer protein TrbB | trbB |
| H5D16_RS00445 | 75605..77896 | + | 2292 | WP_001289275 | F-type conjugative transfer protein TrbC | - |
Host bacterium
| ID | 4755 | GenBank | NZ_MN125610 |
| Plasmid name | pIncI1-CTX-M-14 | Incompatibility group | IncI1 |
| Plasmid size | 92122 bp | Coordinate of oriT [Strand] | 80990..81078 [+] |
| Host baterium | Salmonella enterica subsp. enterica serovar Enteritidis strain 1.11-3A7 |
Cargo genes
| Drug resistance gene | blaCTX-M-14 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |