Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100994 |
| Name | oriT_p2511STDY5712385-2  |
| Organism | Salmonella enterica subsp. enterica serovar Weltevreden strain 2511STDY5712385 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_LN890525 (2494..2603 [-], 110 nt) |
| oriT length | 110 nt |
| IRs (inverted repeats) | IR1: 24..31, 35..42 (GTCGGGGC..GCCCTGAC) IR2: 49..65, 72..88 (GTAATTGTAATAGCGTC..GACGGTATTACAATTAC) |
| 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_p2511STDY5712385-2
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1064 | GenBank | WP_052971501 |
| Name | NikB_p2511STDY5712385-2 |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 103896.37 Da Isoelectric Point: 7.4198
>WP_052971501.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMEGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMEGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 7963..47770
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ARA94_RS24150 (ERS394426_04904) | 5679..7970 | - | 2292 | WP_072121498 | F-type conjugative transfer protein TrbC | - |
| ARA94_RS24155 (ERS394426_04905) | 7963..9033 | - | 1071 | WP_000151579 | IncI1-type conjugal transfer protein TrbB | trbB |
| ARA94_RS24160 (ERS394426_04906) | 9052..10260 | - | 1209 | WP_001383960 | IncI1-type conjugal transfer protein TrbA | trbA |
| ARA94_RS24165 (ERS394426_04907) | 10478..11464 | - | 987 | WP_060527633 | hypothetical protein | - |
| ARA94_RS24170 | 12033..12185 | + | 153 | WP_023156060 | Hok/Gef family protein | - |
| ARA94_RS24175 (ERS394426_04909) | 12257..12508 | - | 252 | WP_001291965 | hypothetical protein | - |
| ARA94_RS28080 | 13007..13102 | + | 96 | WP_001303310 | DinQ-like type I toxin DqlB | - |
| ARA94_RS27580 (ERS394426_04911) | 13167..13343 | - | 177 | WP_001054901 | hypothetical protein | - |
| ARA94_RS24180 (ERS394426_04912) | 13675..13884 | + | 210 | WP_000062602 | HEAT repeat domain-containing protein | - |
| ARA94_RS24185 (ERS394426_04913) | 13956..14618 | - | 663 | WP_060527638 | plasmid IncI1-type surface exclusion protein ExcA | - |
| ARA94_RS24190 (ERS394426_04914) | 14689..16857 | - | 2169 | WP_000698368 | DotA/TraY family protein | traY |
| ARA94_RS24195 (ERS394426_04915) | 16954..17538 | - | 585 | WP_060527640 | IncI1-type conjugal transfer protein TraX | - |
| ARA94_RS24200 (ERS394426_04916) | 17567..18769 | - | 1203 | WP_001189156 | IncI1-type conjugal transfer protein TraW | traW |
| ARA94_RS26435 (ERS394426_04917) | 18736..19350 | - | 615 | WP_000337399 | IncI1-type conjugal transfer protein TraV | traV |
| ARA94_RS24205 (ERS394426_04918) | 19350..22394 | - | 3045 | WP_001024780 | IncI1-type conjugal transfer protein TraU | traU |
| ARA94_RS24210 (ERS394426_04919) | 22484..23284 | - | 801 | WP_060527642 | IncI1-type conjugal transfer protein TraT | traT |
| ARA94_RS24215 (ERS394426_04920) | 23268..23456 | - | 189 | WP_060527645 | putative conjugal transfer protein TraS | - |
| ARA94_RS24220 (ERS394426_04921) | 23520..23924 | - | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| ARA94_RS24225 (ERS394426_04922) | 23975..24502 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| ARA94_RS24230 (ERS394426_04923) | 24502..25206 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| ARA94_RS24235 (ERS394426_04924) | 25206..26495 | - | 1290 | WP_001271994 | conjugal transfer protein TraO | traO |
| ARA94_RS24240 (ERS394426_04925) | 26498..27481 | - | 984 | WP_001191879 | IncI1-type conjugal transfer protein TraN | traN |
| ARA94_RS24245 (ERS394426_04926) | 27492..28184 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| ARA94_RS24250 (ERS394426_04927) | 28181..28528 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| ARA94_RS24255 (ERS394426_04928) | 28546..32313 | - | 3768 | WP_060527647 | LPD7 domain-containing protein | - |
| ARA94_RS24260 (ERS394426_04929) | 32403..32954 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| ARA94_RS26440 (ERS394426_04930) | 32969..33259 | - | 291 | WP_001299214 | hypothetical protein | traK |
| ARA94_RS24265 (ERS394426_04931) | 33256..34404 | - | 1149 | WP_001024976 | plasmid transfer ATPase TraJ | virB11 |
| ARA94_RS24270 (ERS394426_04932) | 34401..35219 | - | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| ARA94_RS24275 (ERS394426_04933) | 35216..35674 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| ARA94_RS24280 (ERS394426_04934) | 36069..36653 | - | 585 | WP_000977520 | histidine phosphatase family protein | - |
| ARA94_RS24285 (ERS394426_04935) | 36713..37915 | - | 1203 | WP_000976357 | conjugal transfer protein TraF | - |
| ARA94_RS24290 (ERS394426_04936) | 38001..38825 | - | 825 | WP_015058912 | conjugal transfer protein TraE | traE |
| ARA94_RS24295 (ERS394426_04937) | 38976..40130 | - | 1155 | WP_001139955 | site-specific integrase | - |
| ARA94_RS28085 | 40170..40439 | + | 270 | Protein_42 | hypothetical protein | - |
| ARA94_RS28090 | 41505..41729 | + | 225 | Protein_43 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| ARA94_RS27960 | 41726..41974 | - | 249 | WP_001349157 | hypothetical protein | - |
| ARA94_RS28095 | 42128..42229 | - | 102 | Protein_45 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| ARA94_RS24300 (ERS394426_04939) | 42189..43289 | - | 1101 | Protein_46 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| ARA94_RS24305 (ERS394426_04940) | 43277..43933 | - | 657 | WP_001193551 | A24 family peptidase | - |
| ARA94_RS24310 (ERS394426_04941) | 43918..44478 | - | 561 | WP_000014005 | lytic transglycosylase domain-containing protein | virB1 |
| ARA94_RS24315 (ERS394426_04942) | 44488..45102 | - | 615 | WP_000908228 | type 4 pilus major pilin | - |
| ARA94_RS24320 (ERS394426_04943) | 45119..46204 | - | 1086 | WP_001208803 | type II secretion system F family protein | - |
| ARA94_RS24325 (ERS394426_04944) | 46217..47770 | - | 1554 | WP_000362204 | ATPase, T2SS/T4P/T4SS family | virB11 |
| ARA94_RS24330 (ERS394426_04945) | 47781..48233 | - | 453 | WP_001247333 | type IV pilus biogenesis protein PilP | - |
| ARA94_RS24335 (ERS394426_04946) | 48220..49515 | - | 1296 | WP_000752776 | type 4b pilus protein PilO2 | - |
| ARA94_RS24340 (ERS394426_04947) | 49508..51190 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| ARA94_RS24345 (ERS394426_04948) | 51204..51641 | - | 438 | WP_000539811 | type IV pilus biogenesis protein PilM | - |
| ARA94_RS24350 (ERS394426_04949) | 51641..52708 | - | 1068 | WP_021513968 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1452 | GenBank | NZ_LN890525 |
| Plasmid name | p2511STDY5712385-2 | Incompatibility group | IncI1 |
| Plasmid size | 84987 bp | Coordinate of oriT [Strand] | 2494..2603 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Weltevreden strain 2511STDY5712385 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |