Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 106600 |
| Name | oriT_p525628  |
| Organism | Salmonella enterica strain CRIN525628 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP119981 (233451..233539 [+], 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_p525628
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 4381 | GenBank | WP_006855641 |
| Name | nikB_P2V98_RS24045_p525628 |
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 | 1948 | GenBank | WP_001283947 |
| Name | WP_001283947_p525628 |
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..228073
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| P2V98_RS23820 (P2V98_23820) | 184246..185313 | + | 1068 | WP_001360287 | type IV pilus biogenesis lipoprotein PilL | - |
| P2V98_RS23825 (P2V98_23825) | 185313..185750 | + | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| P2V98_RS23830 (P2V98_23830) | 185764..187446 | + | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| P2V98_RS23835 (P2V98_23835) | 187439..188734 | + | 1296 | WP_058649964 | type 4b pilus protein PilO2 | - |
| P2V98_RS23840 (P2V98_23840) | 188721..189173 | + | 453 | WP_058649963 | type IV pilus biogenesis protein PilP | - |
| P2V98_RS23845 (P2V98_23845) | 189184..190737 | + | 1554 | WP_000362204 | ATPase, T2SS/T4P/T4SS family | virB11 |
| P2V98_RS23850 (P2V98_23850) | 190750..191835 | + | 1086 | WP_001208803 | type II secretion system F family protein | - |
| P2V98_RS23855 (P2V98_23855) | 191852..192466 | + | 615 | WP_000908228 | type 4 pilus major pilin | - |
| P2V98_RS23860 (P2V98_23860) | 192476..193036 | + | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| P2V98_RS23865 (P2V98_23865) | 193021..193677 | + | 657 | WP_001193551 | A24 family peptidase | - |
| P2V98_RS23870 (P2V98_23870) | 193665..195101 | + | 1437 | WP_015058913 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| P2V98_RS24465 | 195098..195322 | - | 225 | Protein_182 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| P2V98_RS23875 (P2V98_23875) | 195904..197058 | + | 1155 | WP_001139955 | site-specific integrase | - |
| P2V98_RS23880 (P2V98_23880) | 197209..198033 | + | 825 | WP_058649947 | conjugal transfer protein TraE | traE |
| P2V98_RS23885 (P2V98_23885) | 198119..199321 | + | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| P2V98_RS23890 (P2V98_23890) | 199381..199965 | + | 585 | WP_000977520 | histidine phosphatase family protein | - |
| P2V98_RS23895 (P2V98_23895) | 200360..200818 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| P2V98_RS23900 (P2V98_23900) | 200815..201633 | + | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| P2V98_RS23905 (P2V98_23905) | 201630..202778 | + | 1149 | WP_001024976 | plasmid transfer ATPase TraJ | virB11 |
| P2V98_RS23910 (P2V98_23910) | 202775..203065 | + | 291 | WP_001299214 | hypothetical protein | traK |
| P2V98_RS23915 (P2V98_23915) | 203080..203631 | + | 552 | WP_000014584 | phospholipase D family protein | - |
| P2V98_RS23920 (P2V98_23920) | 203721..207488 | + | 3768 | WP_058649948 | LPD7 domain-containing protein | - |
| P2V98_RS23925 (P2V98_23925) | 207506..207853 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| P2V98_RS23930 (P2V98_23930) | 207850..208542 | + | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| P2V98_RS23935 (P2V98_23935) | 208553..209536 | + | 984 | WP_021513963 | IncI1-type conjugal transfer protein TraN | traN |
| P2V98_RS23940 (P2V98_23940) | 209539..210828 | + | 1290 | WP_001271994 | conjugal transfer protein TraO | traO |
| P2V98_RS23945 (P2V98_23945) | 210828..211532 | + | 705 | WP_023155244 | IncI1-type conjugal transfer protein TraP | traP |
| P2V98_RS23950 (P2V98_23950) | 211532..212059 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| P2V98_RS23955 (P2V98_23955) | 212110..212514 | + | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| P2V98_RS23960 (P2V98_23960) | 212578..212766 | + | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| P2V98_RS23965 (P2V98_23965) | 212750..213550 | + | 801 | WP_001164792 | IncI1-type conjugal transfer protein TraT | traT |
| P2V98_RS23970 (P2V98_23970) | 213640..216684 | + | 3045 | WP_001024776 | IncI1-type conjugal transfer protein TraU | traU |
| P2V98_RS23975 (P2V98_23975) | 216684..217298 | + | 615 | WP_000337399 | IncI1-type conjugal transfer protein TraV | traV |
| P2V98_RS23980 (P2V98_23980) | 217265..218467 | + | 1203 | WP_001189156 | IncI1-type conjugal transfer protein TraW | traW |
| P2V98_RS23985 (P2V98_23985) | 218496..219080 | + | 585 | WP_001037996 | IncI1-type conjugal transfer protein TraX | - |
| P2V98_RS23990 (P2V98_23990) | 219177..221345 | + | 2169 | WP_058649949 | DotA/TraY family protein | traY |
| P2V98_RS23995 (P2V98_23995) | 221416..222078 | + | 663 | WP_000644796 | plasmid IncI1-type surface exclusion protein ExcA | - |
| P2V98_RS24000 (P2V98_24000) | 222150..222359 | - | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| P2V98_RS24005 (P2V98_24005) | 222751..222927 | + | 177 | WP_001054897 | hypothetical protein | - |
| P2V98_RS24010 (P2V98_24010) | 222992..223087 | - | 96 | WP_000609148 | DinQ-like type I toxin DqlB | - |
| P2V98_RS24015 (P2V98_24015) | 223588..223839 | + | 252 | WP_001291964 | hypothetical protein | - |
| P2V98_RS24020 (P2V98_24020) | 223911..224063 | - | 153 | WP_001387489 | Hok/Gef family protein | - |
| P2V98_RS24025 (P2V98_24025) | 224690..225469 | + | 780 | WP_275450201 | protein FinQ | - |
| P2V98_RS24030 (P2V98_24030) | 225776..226984 | + | 1209 | WP_001383960 | IncI1-type conjugal transfer protein TrbA | trbA |
| P2V98_RS24035 (P2V98_24035) | 227003..228073 | + | 1071 | WP_000151583 | IncI1-type conjugal transfer protein TrbB | trbB |
| P2V98_RS24040 (P2V98_24040) | 228066..230357 | + | 2292 | Protein_216 | F-type conjugative transfer protein TrbC | - |
Host bacterium
| ID | 7037 | GenBank | NZ_CP119981 |
| Plasmid name | p525628 | Incompatibility group | IncFIB |
| Plasmid size | 294021 bp | Coordinate of oriT [Strand] | 233451..233539 [+] |
| Host baterium | Salmonella enterica strain CRIN525628 |
Cargo genes
| Drug resistance gene | ant(3'')-Ia, qacE, sul1, tet(A), blaCTX-M-65 |
| 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 |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |