Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100743 |
| Name | oriT_pSA02DT10168701_99  |
| Organism | Salmonella enterica subsp. enterica serovar Heidelberg strain SA02DT10168701 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP012923 (43731..43840 [-], 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_pSA02DT10168701_99
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 815 | GenBank | WP_001474686 |
| Name | NikB_pSA02DT10168701_99 |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 103834.33 Da Isoelectric Point: 7.3473
>WP_001474686.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFLQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFLQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 49200..88904
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| APS46_RS23455 (APS46_23175) | 46916..49207 | - | 2292 | WP_001289271 | F-type conjugative transfer protein TrbC | - |
| APS46_RS23460 (APS46_23180) | 49200..50270 | - | 1071 | WP_000151575 | IncI1-type conjugal transfer protein TrbB | trbB |
| APS46_RS23465 (APS46_23185) | 50289..51497 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| APS46_RS23470 (APS46_23190) | 51789..51941 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| APS46_RS23475 (APS46_23195) | 52013..52264 | - | 252 | WP_001291965 | hypothetical protein | - |
| APS46_RS23480 (APS46_23200) | 52625..53407 | - | 783 | WP_001300609 | IS21-like element IS100kyp family helper ATPase IstB | - |
| APS46_RS23485 (APS46_23205) | 53404..54426 | - | 1023 | WP_001572805 | IS21-like element IS100 family transposase | - |
| APS46_RS26180 | 55147..55323 | - | 177 | WP_001054900 | hypothetical protein | - |
| APS46_RS23490 (APS46_23210) | 55715..55924 | + | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| APS46_RS23495 (APS46_23215) | 55996..56658 | - | 663 | WP_000644794 | plasmid IncI1-type surface exclusion protein ExcA | - |
| APS46_RS23500 (APS46_23220) | 56729..58897 | - | 2169 | WP_000698368 | DotA/TraY family protein | traY |
| APS46_RS23505 (APS46_23225) | 58994..59578 | - | 585 | WP_001037998 | conjugal transfer protein TraX | - |
| APS46_RS23510 (APS46_23230) | 59607..60809 | - | 1203 | WP_001189158 | IncI1-type conjugal transfer protein TraW | traW |
| APS46_RS25210 | 60776..61390 | - | 615 | WP_000337394 | IncI1-type conjugal transfer protein TraV | traV |
| APS46_RS23515 (APS46_23235) | 61390..64434 | - | 3045 | WP_001024751 | IncI1-type conjugal transfer protein TraU | traU |
| APS46_RS23520 (APS46_23240) | 64524..65324 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| APS46_RS23525 (APS46_23245) | 65308..65496 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| APS46_RS23530 (APS46_23250) | 65560..65964 | - | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| APS46_RS23535 (APS46_23255) | 66015..66542 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| APS46_RS23540 (APS46_23260) | 66542..67246 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| APS46_RS23545 (APS46_23265) | 67246..68535 | - | 1290 | WP_001271997 | conjugal transfer protein TraO | traO |
| APS46_RS23550 (APS46_23270) | 68538..69521 | - | 984 | WP_001191878 | IncI1-type conjugal transfer protein TraN | traN |
| APS46_RS23555 (APS46_23275) | 69532..70224 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| APS46_RS23560 (APS46_23280) | 70221..70568 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| APS46_RS23565 (APS46_23285) | 70586..74353 | - | 3768 | WP_001141535 | LPD7 domain-containing protein | - |
| APS46_RS23570 (APS46_23290) | 74443..74994 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| APS46_RS25215 | 75009..75299 | - | 291 | WP_001299214 | hypothetical protein | traK |
| APS46_RS23575 (APS46_23295) | 75296..76444 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| APS46_RS23580 (APS46_23300) | 76441..77259 | - | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| APS46_RS23585 (APS46_23305) | 77256..77714 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| APS46_RS23590 (APS46_23310) | 78109..78693 | - | 585 | WP_000977517 | histidine phosphatase family protein | - |
| APS46_RS23595 (APS46_23315) | 78753..79955 | - | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| APS46_RS23600 (APS46_23320) | 80041..80865 | - | 825 | WP_001238927 | conjugal transfer protein TraE | traE |
| APS46_RS23605 (APS46_23325) | 81016..82170 | - | 1155 | WP_001139958 | site-specific integrase | - |
| APS46_RS26525 | 82756..82977 | + | 222 | Protein_93 | prepilin | - |
| APS46_RS23620 (APS46_23340) | 82974..84398 | - | 1425 | WP_023278060 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| APS46_RS25225 | 84398..85054 | - | 657 | WP_001193553 | prepilin peptidase | - |
| APS46_RS23625 (APS46_23345) | 85039..85599 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| APS46_RS23630 (APS46_23350) | 85609..86223 | - | 615 | WP_000959785 | type 4 pilus major pilin | - |
| APS46_RS23635 (APS46_23355) | 86241..87338 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| APS46_RS23640 (APS46_23360) | 87351..88904 | - | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| APS46_RS23645 (APS46_23365) | 88915..89367 | - | 453 | WP_001247336 | type IV pilus biogenesis protein PilP | - |
| APS46_RS23650 (APS46_23370) | 89354..90649 | - | 1296 | WP_000752774 | type 4b pilus protein PilO2 | - |
| APS46_RS23655 (APS46_23375) | 90642..92324 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| APS46_RS23660 (APS46_23380) | 92338..92775 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| APS46_RS25230 | 92775..93842 | - | 1068 | WP_000742600 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1203 | GenBank | NZ_CP012923 |
| Plasmid name | pSA02DT10168701_99 | Incompatibility group | IncI1 |
| Plasmid size | 99011 bp | Coordinate of oriT [Strand] | 43731..43840 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Heidelberg strain SA02DT10168701 |
Cargo genes
| Drug resistance gene | resistance to cetylpyridinium; quaternary ammonium compound resistance |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |