Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100461 |
| Name | oriT_pCS0010A_95  |
| Organism | Salmonella enterica subsp. enterica serovar Kentucky |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_019104 (40667..40776 [-], 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_pCS0010A_95
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 532 | GenBank | YP_006954714 |
| Name | NikB_pCS0010A_95 |
UniProt ID | E9LM77 |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 103948.32 Da Isoelectric Point: 7.4265
>YP_006954714.1 putative relaxase/mobilization protein NikB (plasmid) [Salmonella enterica subsp. enterica serovar Kentucky]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPAERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPVLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPAERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPVLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | E9LM77 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 46136..85103
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS791_RS00265 (CS0010IncI1_50) | 43852..46143 | - | 2292 | WP_001289276 | F-type conjugative transfer protein TrbC | - |
| HS791_RS00270 (CS0010IncI1_51) | 46136..47206 | - | 1071 | WP_000151582 | IncI1-type conjugal transfer protein TrbB | trbB |
| HS791_RS00275 (CS0010IncI1_52) | 47225..48433 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| HS791_RS00280 (CS0010IncI1_53) | 48740..49519 | - | 780 | WP_275450201 | protein FinQ | - |
| HS791_RS00285 | 50146..50298 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| HS791_RS00290 (CS0010IncI1_55) | 50370..50621 | - | 252 | WP_001291965 | hypothetical protein | - |
| HS791_RS00295 | 50664..50828 | + | 165 | WP_001323923 | hypothetical protein | - |
| HS791_RS00300 (CS0010IncI1_57) | 51545..51829 | - | 285 | WP_014640317 | hypothetical protein | - |
| HS791_RS00305 | 51930..52139 | - | 210 | Protein_59 | hemolysin expression modulator Hha | - |
| HS791_RS00310 (CS0010IncI1_58) | 52237..52851 | - | 615 | WP_000578649 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HS791_RS00315 (CS0010IncI1_59) | 52927..55095 | - | 2169 | WP_000698360 | IncI1-type conjugal transfer membrane protein TraY | traY |
| HS791_RS00320 (CS0010IncI1_60) | 55192..55776 | - | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| HS791_RS00325 (CS0010IncI1_61) | 55805..57007 | - | 1203 | WP_001189159 | IncI1-type conjugal transfer protein TraW | traW |
| HS791_RS00330 (CS0010IncI1_62) | 56974..57588 | - | 615 | WP_000337394 | IncI1-type conjugal transfer protein TraV | traV |
| HS791_RS00335 (CS0010IncI1_63) | 57588..60632 | - | 3045 | WP_001024752 | IncI1-type conjugal transfer protein TraU | traU |
| HS791_RS00340 (CS0010IncI1_64) | 60722..61522 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| HS791_RS00345 | 61506..61694 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| HS791_RS00350 (CS0010IncI1_65) | 61758..62162 | - | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| HS791_RS00355 (CS0010IncI1_66) | 62213..62740 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| HS791_RS00360 (CS0010IncI1_67) | 62740..63444 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HS791_RS00365 (CS0010IncI1_68) | 63444..64733 | - | 1290 | WP_001271997 | conjugal transfer protein TraO | traO |
| HS791_RS00370 (CS0010IncI1_69) | 64736..65719 | - | 984 | WP_001191878 | IncI1-type conjugal transfer protein TraN | traN |
| HS791_RS00375 (CS0010IncI1_70) | 65730..66422 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| HS791_RS00380 | 66419..66766 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| HS791_RS00385 (CS0010IncI1_71) | 66784..70551 | - | 3768 | WP_001141539 | LPD7 domain-containing protein | - |
| HS791_RS00390 | 70641..71192 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| HS791_RS00395 | 71207..71497 | - | 291 | WP_001299214 | hypothetical protein | traK |
| HS791_RS00400 (CS0010IncI1_73) | 71494..72642 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HS791_RS00405 (CS0010IncI1_74) | 72639..73457 | - | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HS791_RS00410 (CS0010IncI1_75) | 73454..73912 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HS791_RS00415 (CS0010IncI1_76) | 74307..74891 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| HS791_RS00420 (CS0010IncI1_77) | 74951..76153 | - | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| HS791_RS00425 (CS0010IncI1_78) | 76239..77063 | - | 825 | WP_001238927 | conjugal transfer protein TraE | traE |
| HS791_RS00430 (CS0010IncI1_79) | 77214..78368 | - | 1155 | WP_001139958 | site-specific integrase | - |
| HS791_RS00435 | 78395..78679 | + | 285 | WP_172684396 | hypothetical protein | - |
| HS791_RS00535 | 78955..79176 | + | 222 | Protein_86 | prepilin | - |
| HS791_RS00445 (CS0010IncI1_80) | 79173..80597 | - | 1425 | WP_024199048 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HS791_RS00450 (CS0010IncI1_81) | 80597..81253 | - | 657 | WP_001389386 | prepilin peptidase | - |
| HS791_RS00455 (CS0010IncI1_82) | 81238..81798 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| HS791_RS00460 (CS0010IncI1_83) | 81808..82422 | - | 615 | WP_000959786 | type 4 pilus major pilin | - |
| HS791_RS00465 (CS0010IncI1_84) | 82440..83537 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| HS791_RS00470 (CS0010IncI1_85) | 83550..85103 | - | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HS791_RS00475 (CS0010IncI1_86) | 85114..85566 | - | 453 | WP_001247334 | type IV pilus biogenesis protein PilP | - |
| HS791_RS00480 (CS0010IncI1_87) | 85553..86848 | - | 1296 | WP_000752772 | type 4b pilus protein PilO2 | - |
| HS791_RS00485 (CS0010IncI1_88) | 86841..88523 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| HS791_RS00490 (CS0010IncI1_89) | 88537..88974 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| HS791_RS00495 (CS0010IncI1_90) | 88974..90041 | - | 1068 | WP_001302629 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 922 | GenBank | NC_019104 |
| Plasmid name | pCS0010A_95 | Incompatibility group | IncI1 |
| Plasmid size | 95175 bp | Coordinate of oriT [Strand] | 40667..40776 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Kentucky |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | silR, silS, silE |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrVA2 |