Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 106603 |
| Name | oriT_p514780  |
| Organism | Salmonella enterica strain CRIN514780 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP119987 (233444..233532 [+], 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_p514780
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 4383 | GenBank | WP_006855641 |
| Name | nikB_P2V97_RS24050_p514780 |
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 | 1950 | GenBank | WP_001283947 |
| Name | WP_001283947_p514780 |
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 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 189184..228066
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| P2V97_RS23820 (P2V97_23820) | 184246..185313 | + | 1068 | WP_001360287 | type IV pilus biogenesis lipoprotein PilL | - |
| P2V97_RS23825 (P2V97_23825) | 185313..185750 | + | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| P2V97_RS23830 (P2V97_23830) | 185764..187446 | + | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| P2V97_RS23835 (P2V97_23835) | 187439..188734 | + | 1296 | WP_058649964 | type 4b pilus protein PilO2 | - |
| P2V97_RS23840 (P2V97_23840) | 188721..189173 | + | 453 | WP_058649963 | type IV pilus biogenesis protein PilP | - |
| P2V97_RS23845 (P2V97_23845) | 189184..190737 | + | 1554 | WP_000362204 | ATPase, T2SS/T4P/T4SS family | virB11 |
| P2V97_RS23850 (P2V97_23850) | 190750..191835 | + | 1086 | WP_001208803 | type II secretion system F family protein | - |
| P2V97_RS23855 (P2V97_23855) | 191852..192466 | + | 615 | WP_000908228 | type 4 pilus major pilin | - |
| P2V97_RS23860 (P2V97_23860) | 192476..193036 | + | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| P2V97_RS23865 (P2V97_23865) | 193021..193677 | + | 657 | WP_001193551 | A24 family peptidase | - |
| P2V97_RS23870 (P2V97_23870) | 193677..194969 | + | 1293 | WP_039719938 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| P2V97_RS23875 (P2V97_23875) | 194966..195214 | - | 249 | WP_001349157 | hypothetical protein | - |
| P2V97_RS23880 (P2V97_23880) | 195897..197051 | + | 1155 | WP_001139955 | site-specific integrase | - |
| P2V97_RS23885 (P2V97_23885) | 197202..198026 | + | 825 | WP_058649947 | conjugal transfer protein TraE | traE |
| P2V97_RS23890 (P2V97_23890) | 198112..199314 | + | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| P2V97_RS23895 (P2V97_23895) | 199374..199958 | + | 585 | WP_000977520 | histidine phosphatase family protein | - |
| P2V97_RS23900 (P2V97_23900) | 200353..200811 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| P2V97_RS23905 (P2V97_23905) | 200808..201626 | + | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| P2V97_RS23910 (P2V97_23910) | 201623..202771 | + | 1149 | WP_001024976 | plasmid transfer ATPase TraJ | virB11 |
| P2V97_RS23915 (P2V97_23915) | 202768..203058 | + | 291 | WP_001299214 | hypothetical protein | traK |
| P2V97_RS23920 (P2V97_23920) | 203073..203624 | + | 552 | WP_000014584 | phospholipase D family protein | - |
| P2V97_RS23925 (P2V97_23925) | 203714..207481 | + | 3768 | WP_058649948 | LPD7 domain-containing protein | - |
| P2V97_RS23930 (P2V97_23930) | 207499..207846 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| P2V97_RS23935 (P2V97_23935) | 207843..208535 | + | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| P2V97_RS23940 (P2V97_23940) | 208546..209529 | + | 984 | WP_021513963 | IncI1-type conjugal transfer protein TraN | traN |
| P2V97_RS23945 (P2V97_23945) | 209532..210821 | + | 1290 | WP_001271994 | conjugal transfer protein TraO | traO |
| P2V97_RS23950 (P2V97_23950) | 210821..211525 | + | 705 | WP_023155244 | IncI1-type conjugal transfer protein TraP | traP |
| P2V97_RS23955 (P2V97_23955) | 211525..212052 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| P2V97_RS23960 (P2V97_23960) | 212103..212507 | + | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| P2V97_RS23965 (P2V97_23965) | 212571..212759 | + | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| P2V97_RS23970 (P2V97_23970) | 212743..213543 | + | 801 | WP_001164792 | IncI1-type conjugal transfer protein TraT | traT |
| P2V97_RS23975 (P2V97_23975) | 213633..216677 | + | 3045 | WP_001024776 | IncI1-type conjugal transfer protein TraU | traU |
| P2V97_RS23980 (P2V97_23980) | 216677..217291 | + | 615 | WP_000337399 | IncI1-type conjugal transfer protein TraV | traV |
| P2V97_RS23985 (P2V97_23985) | 217258..218460 | + | 1203 | WP_001189156 | IncI1-type conjugal transfer protein TraW | traW |
| P2V97_RS23990 (P2V97_23990) | 218489..219073 | + | 585 | WP_001037996 | IncI1-type conjugal transfer protein TraX | - |
| P2V97_RS23995 (P2V97_23995) | 219170..221338 | + | 2169 | WP_058649949 | DotA/TraY family protein | traY |
| P2V97_RS24000 (P2V97_24000) | 221409..222071 | + | 663 | WP_000644796 | plasmid IncI1-type surface exclusion protein ExcA | - |
| P2V97_RS24005 (P2V97_24005) | 222143..222352 | - | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| P2V97_RS24010 (P2V97_24010) | 222744..222920 | + | 177 | WP_001054897 | hypothetical protein | - |
| P2V97_RS24015 (P2V97_24015) | 222985..223080 | - | 96 | WP_000609148 | DinQ-like type I toxin DqlB | - |
| P2V97_RS24020 (P2V97_24020) | 223581..223832 | + | 252 | WP_001291964 | hypothetical protein | - |
| P2V97_RS24025 (P2V97_24025) | 223904..224056 | - | 153 | WP_001387489 | Hok/Gef family protein | - |
| P2V97_RS24030 (P2V97_24030) | 224683..225462 | + | 780 | WP_275450201 | protein FinQ | - |
| P2V97_RS24035 (P2V97_24035) | 225769..226977 | + | 1209 | WP_001383960 | IncI1-type conjugal transfer protein TrbA | trbA |
| P2V97_RS24040 (P2V97_24040) | 226996..228066 | + | 1071 | WP_000151583 | IncI1-type conjugal transfer protein TrbB | trbB |
| P2V97_RS24045 (P2V97_24045) | 228059..230350 | + | 2292 | Protein_216 | F-type conjugative transfer protein TrbC | - |
Host bacterium
| ID | 7040 | GenBank | NZ_CP119987 |
| Plasmid name | p514780 | Incompatibility group | IncFIB |
| Plasmid size | 312164 bp | Coordinate of oriT [Strand] | 233444..233532 [+] |
| Host baterium | Salmonella enterica strain CRIN514780 |
Cargo genes
| Drug resistance gene | ant(3'')-Ia, qacE, sul1, tet(A), blaCTX-M-65, floR, aph(4)-Ia, aac(3)-IVa, aph(3')-Ia |
| Virulence gene | faeC, faeE, faeF, faeH, faeI, fyuA, ybtE, ybtT, ybtU, irp1, irp2, ybtA, ybtP, ybtQ, ybtX, ybtS |
| Metal resistance gene | merE, merD, merA, merP, merT, merR, arsH, arsA |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |