Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100925 |
| Name | oriT_pCFSAN004175  |
| Organism | Salmonella enterica subsp. enterica serovar Saintpaul strain CFSAN004175 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP019173 (67516..67625 [+], 110 nt) |
| oriT length | 110 nt |
| IRs (inverted repeats) | IR1: 24..31, 35..42 (GTCGGGGC..GCCCTGAC) IR2: 49..65, 72..88 (GCAATTGTAATAGCGTC..GACGGTATTACAATTGC) |
| Location of nic site | 96..97 |
| Conserved sequence flanking the nic site |
CATCCTG|T |
| Note | predicted by the oriTfinder |
oriT sequence
Download Length: 110 nt
>oriT_pCFSAN004175
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 996 | GenBank | WP_076033867 |
| Name | NikB_pCFSAN004175 |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 104039.45 Da Isoelectric Point: 7.3426
>WP_076033867.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDVFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDVFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 26381..62156
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| BKQ22_RS24140 (BKQ22_24140) | 21443..22510 | + | 1068 | WP_001545759 | type IV pilus biogenesis lipoprotein PilL | - |
| BKQ22_RS24145 (BKQ22_24145) | 22510..22947 | + | 438 | WP_001545758 | type IV pilus biogenesis protein PilM | - |
| BKQ22_RS24150 (BKQ22_24150) | 22961..24643 | + | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| BKQ22_RS24155 (BKQ22_24155) | 24636..25931 | + | 1296 | WP_016245572 | type 4b pilus protein PilO2 | - |
| BKQ22_RS24160 (BKQ22_24160) | 25918..26370 | + | 453 | WP_001247333 | type IV pilus biogenesis protein PilP | - |
| BKQ22_RS24165 (BKQ22_24165) | 26381..27934 | + | 1554 | WP_001545756 | ATPase, T2SS/T4P/T4SS family | virB11 |
| BKQ22_RS24170 (BKQ22_24170) | 27947..29032 | + | 1086 | WP_001208802 | type II secretion system F family protein | - |
| BKQ22_RS24175 (BKQ22_24175) | 29049..29663 | + | 615 | WP_000908227 | type 4 pilus major pilin | - |
| BKQ22_RS24180 (BKQ22_24180) | 29673..30233 | + | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| BKQ22_RS24185 (BKQ22_24185) | 30218..30874 | + | 657 | WP_001193549 | A24 family peptidase | - |
| BKQ22_RS24190 (BKQ22_24190) | 30874..32166 | + | 1293 | WP_024145563 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| BKQ22_RS24195 (BKQ22_24195) | 32223..32480 | - | 258 | Protein_38 | transposase | - |
| BKQ22_RS25575 | 32484..32576 | + | 93 | Protein_39 | shufflon-specific DNA recombinase | - |
| BKQ22_RS24205 (BKQ22_24205) | 32727..33551 | + | 825 | WP_076033864 | conjugal transfer protein TraE | traE |
| BKQ22_RS24210 (BKQ22_24210) | 33637..34839 | + | 1203 | WP_023196138 | conjugal transfer protein TraF | - |
| BKQ22_RS24215 (BKQ22_24215) | 34899..35483 | + | 585 | WP_001611722 | histidine phosphatase family protein | - |
| BKQ22_RS24220 (BKQ22_24220) | 35878..36336 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| BKQ22_RS24225 (BKQ22_24225) | 36333..37151 | + | 819 | WP_076033865 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| BKQ22_RS24230 (BKQ22_24230) | 37148..38296 | + | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| BKQ22_RS24235 (BKQ22_24235) | 38293..38583 | + | 291 | WP_001314267 | hypothetical protein | traK |
| BKQ22_RS24240 (BKQ22_24240) | 38598..39149 | + | 552 | WP_000014586 | phospholipase D family protein | - |
| BKQ22_RS24245 (BKQ22_24245) | 39239..43003 | + | 3765 | WP_076033866 | LPD7 domain-containing protein | - |
| BKQ22_RS24250 (BKQ22_24250) | 43021..43368 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| BKQ22_RS24255 (BKQ22_24255) | 43365..44057 | + | 693 | WP_000138551 | DotI/IcmL family type IV secretion protein | traM |
| BKQ22_RS24260 (BKQ22_24260) | 44068..45051 | + | 984 | WP_001191880 | IncI1-type conjugal transfer protein TraN | traN |
| BKQ22_RS24265 (BKQ22_24265) | 45054..46343 | + | 1290 | WP_023196135 | conjugal transfer protein TraO | traO |
| BKQ22_RS24270 (BKQ22_24270) | 46343..47047 | + | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| BKQ22_RS24275 (BKQ22_24275) | 47047..47574 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| BKQ22_RS24280 (BKQ22_24280) | 47625..48029 | + | 405 | WP_001422824 | IncI1-type conjugal transfer protein TraR | traR |
| BKQ22_RS24285 (BKQ22_24285) | 48093..48281 | + | 189 | WP_001277253 | putative conjugal transfer protein TraS | - |
| BKQ22_RS24290 (BKQ22_24290) | 48265..49065 | + | 801 | WP_001164783 | IncI1-type conjugal transfer protein TraT | traT |
| BKQ22_RS24295 (BKQ22_24295) | 49155..52199 | + | 3045 | WP_021265678 | IncI1-type conjugal transfer protein TraU | traU |
| BKQ22_RS24300 (BKQ22_24300) | 52199..52813 | + | 615 | WP_000337398 | IncI1-type conjugal transfer protein TraV | traV |
| BKQ22_RS24305 (BKQ22_24305) | 52780..53982 | + | 1203 | WP_001189160 | IncI1-type conjugal transfer protein TraW | traW |
| BKQ22_RS24310 (BKQ22_24310) | 54011..54595 | + | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| BKQ22_RS24315 (BKQ22_24315) | 54692..56860 | + | 2169 | WP_000698357 | DotA/TraY family protein | traY |
| BKQ22_RS24320 (BKQ22_24320) | 56934..57584 | + | 651 | WP_001178506 | plasmid IncI1-type surface exclusion protein ExcA | - |
| BKQ22_RS24325 (BKQ22_24325) | 57656..57865 | - | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| BKQ22_RS25245 | 58257..58433 | + | 177 | WP_001054904 | hypothetical protein | - |
| BKQ22_RS25525 | 58498..58593 | - | 96 | WP_000609148 | DinQ-like type I toxin DqlB | - |
| BKQ22_RS24330 (BKQ22_24330) | 59092..59343 | + | 252 | WP_001291964 | hypothetical protein | - |
| BKQ22_RS24335 (BKQ22_24335) | 59415..59567 | - | 153 | WP_001303307 | Hok/Gef family protein | - |
| BKQ22_RS24340 (BKQ22_24340) | 59859..61067 | + | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| BKQ22_RS24345 (BKQ22_24345) | 61086..62156 | + | 1071 | WP_001749135 | IncI1-type conjugal transfer protein TrbB | trbB |
| BKQ22_RS24350 (BKQ22_24350) | 62149..64440 | + | 2292 | WP_001289276 | F-type conjugative transfer protein TrbC | - |
Host bacterium
| ID | 1384 | GenBank | NZ_CP019173 |
| Plasmid name | pCFSAN004175 | Incompatibility group | IncI1 |
| Plasmid size | 81409 bp | Coordinate of oriT [Strand] | 67516..67625 [+] |
| Host baterium | Salmonella enterica subsp. enterica serovar Saintpaul strain CFSAN004175 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |