Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100927 |
| Name | oriT_pCFSAN004173  |
| Organism | Salmonella enterica subsp. enterica serovar Saintpaul strain CFSAN004173 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP019205 (76489..76598 [-], 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_pCFSAN004173
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 998 | GenBank | WP_076033867 |
| Name | NikB_pCFSAN004173 |
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: 549..36324
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| BKQ24_RS23965 (BKQ24_23965) | 549..1619 | - | 1071 | WP_001749135 | IncI1-type conjugal transfer protein TrbB | trbB |
| BKQ24_RS23970 (BKQ24_23970) | 1638..2846 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| BKQ24_RS23975 (BKQ24_23975) | 3138..3290 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| BKQ24_RS23980 (BKQ24_23980) | 3362..3613 | - | 252 | WP_001291964 | hypothetical protein | - |
| BKQ24_RS25560 | 4112..4207 | + | 96 | WP_000609148 | DinQ-like type I toxin DqlB | - |
| BKQ24_RS25245 | 4272..4448 | - | 177 | WP_001054904 | hypothetical protein | - |
| BKQ24_RS23985 (BKQ24_23985) | 4840..5049 | + | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| BKQ24_RS23990 (BKQ24_23990) | 5121..5771 | - | 651 | WP_001178506 | plasmid IncI1-type surface exclusion protein ExcA | - |
| BKQ24_RS23995 (BKQ24_23995) | 5845..8013 | - | 2169 | WP_000698357 | DotA/TraY family protein | traY |
| BKQ24_RS24000 (BKQ24_24000) | 8110..8694 | - | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| BKQ24_RS24005 (BKQ24_24005) | 8723..9925 | - | 1203 | WP_001189160 | IncI1-type conjugal transfer protein TraW | traW |
| BKQ24_RS24010 (BKQ24_24010) | 9892..10506 | - | 615 | WP_000337398 | IncI1-type conjugal transfer protein TraV | traV |
| BKQ24_RS24015 (BKQ24_24015) | 10506..13550 | - | 3045 | WP_021265678 | IncI1-type conjugal transfer protein TraU | traU |
| BKQ24_RS24020 (BKQ24_24020) | 13640..14440 | - | 801 | WP_001164783 | IncI1-type conjugal transfer protein TraT | traT |
| BKQ24_RS24025 (BKQ24_24025) | 14424..14612 | - | 189 | WP_001277253 | putative conjugal transfer protein TraS | - |
| BKQ24_RS24030 (BKQ24_24030) | 14676..15080 | - | 405 | WP_001422824 | IncI1-type conjugal transfer protein TraR | traR |
| BKQ24_RS24035 (BKQ24_24035) | 15131..15658 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| BKQ24_RS24040 (BKQ24_24040) | 15658..16362 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| BKQ24_RS24045 (BKQ24_24045) | 16362..17651 | - | 1290 | WP_023196135 | conjugal transfer protein TraO | traO |
| BKQ24_RS24050 (BKQ24_24050) | 17654..18637 | - | 984 | WP_001191880 | IncI1-type conjugal transfer protein TraN | traN |
| BKQ24_RS24055 (BKQ24_24055) | 18648..19340 | - | 693 | WP_000138551 | DotI/IcmL family type IV secretion protein | traM |
| BKQ24_RS24060 (BKQ24_24060) | 19337..19684 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| BKQ24_RS24065 (BKQ24_24065) | 19702..23466 | - | 3765 | WP_076033866 | LPD7 domain-containing protein | - |
| BKQ24_RS24070 (BKQ24_24070) | 23556..24107 | - | 552 | WP_000014586 | phospholipase D family protein | - |
| BKQ24_RS24075 (BKQ24_24075) | 24122..24412 | - | 291 | WP_001314267 | hypothetical protein | traK |
| BKQ24_RS24080 (BKQ24_24080) | 24409..25557 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| BKQ24_RS24085 (BKQ24_24085) | 25554..26372 | - | 819 | WP_076033865 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| BKQ24_RS24090 (BKQ24_24090) | 26369..26827 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| BKQ24_RS24095 (BKQ24_24095) | 27222..27806 | - | 585 | WP_001611722 | histidine phosphatase family protein | - |
| BKQ24_RS24100 (BKQ24_24100) | 27866..29068 | - | 1203 | WP_023196138 | conjugal transfer protein TraF | - |
| BKQ24_RS24105 (BKQ24_24105) | 29154..29978 | - | 825 | WP_076033864 | conjugal transfer protein TraE | traE |
| BKQ24_RS25605 | 30129..30221 | - | 93 | Protein_32 | shufflon-specific DNA recombinase | - |
| BKQ24_RS24115 (BKQ24_24115) | 30225..30482 | + | 258 | Protein_33 | transposase | - |
| BKQ24_RS24120 (BKQ24_24120) | 30539..31831 | - | 1293 | WP_024145563 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| BKQ24_RS24125 (BKQ24_24125) | 31831..32487 | - | 657 | WP_001193549 | A24 family peptidase | - |
| BKQ24_RS24130 (BKQ24_24130) | 32472..33032 | - | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| BKQ24_RS24135 (BKQ24_24135) | 33042..33656 | - | 615 | WP_000908227 | type 4 pilus major pilin | - |
| BKQ24_RS24140 (BKQ24_24140) | 33673..34758 | - | 1086 | WP_001208802 | type II secretion system F family protein | - |
| BKQ24_RS24145 (BKQ24_24145) | 34771..36324 | - | 1554 | WP_001545756 | ATPase, T2SS/T4P/T4SS family | virB11 |
| BKQ24_RS24150 (BKQ24_24150) | 36335..36787 | - | 453 | WP_001247333 | type IV pilus biogenesis protein PilP | - |
| BKQ24_RS24155 (BKQ24_24155) | 36774..38069 | - | 1296 | WP_016245572 | type 4b pilus protein PilO2 | - |
| BKQ24_RS24160 (BKQ24_24160) | 38062..39744 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| BKQ24_RS24165 (BKQ24_24165) | 39758..40195 | - | 438 | WP_001545758 | type IV pilus biogenesis protein PilM | - |
| BKQ24_RS24170 (BKQ24_24170) | 40195..41262 | - | 1068 | WP_001545759 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1386 | GenBank | NZ_CP019205 |
| Plasmid name | pCFSAN004173 | Incompatibility group | IncI1 |
| Plasmid size | 81408 bp | Coordinate of oriT [Strand] | 76489..76598 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Saintpaul strain CFSAN004173 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |