Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100782 |
| Name | oriT_pSAN1-1727  |
| Organism | Salmonella enterica subsp. enterica serovar Anatum str. USDA-ARS-USMARC-1727 isolate SAN1261-1 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP014622 (33979..34088 [-], 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_pSAN1-1727
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 854 | GenBank | WP_064757406 |
| Name | NikB_pSAN1-1727 |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 104135.55 Da Isoelectric Point: 7.2529
>WP_064757406.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPENRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLYLIAPVLFERDPRMGFEPEGNDGQFNQVFAEMVAW
HNVTGFSEHGNYVITRPDVDQHREVSERGYRNYMDSNTYRDGTQPVQDSENRWEPPTPV
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPENRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLYLIAPVLFERDPRMGFEPEGNDGQFNQVFAEMVAW
HNVTGFSEHGNYVITRPDVDQHREVSERGYRNYMDSNTYRDGTQPVQDSENRWEPPTPV
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 45025..86638
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| AW49_RS26805 (AW49_24215) | 41320..41955 | - | 636 | WP_000999379 | CPBP family intramembrane glutamic endopeptidase | - |
| AW49_RS25445 (AW49_24225) | 42741..45032 | - | 2292 | WP_001289267 | F-type conjugative transfer protein TrbC | - |
| AW49_RS25450 (AW49_24230) | 45025..46095 | - | 1071 | WP_000151573 | IncI1-type conjugal transfer protein TrbB | trbB |
| AW49_RS25455 (AW49_24235) | 46114..47322 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| AW49_RS26810 (AW49_26035) | 47614..47682 | + | 69 | Protein_56 | protein pndA | - |
| AW49_RS25465 (AW49_24240) | 47731..48957 | - | 1227 | WP_001805100 | RNA-guided endonuclease TnpB family protein | - |
| AW49_RS25470 (AW49_24245) | 49016..49420 | + | 405 | WP_001175010 | IS200/IS605 family transposase | - |
| AW49_RS26170 | 49492..49584 | + | 93 | Protein_59 | Hok/Gef family protein | - |
| AW49_RS25475 (AW49_24250) | 49656..49907 | - | 252 | WP_001291965 | hypothetical protein | - |
| AW49_RS26815 | 51025..51123 | + | 99 | WP_022630883 | DinQ-like type I toxin DqlB | - |
| AW49_RS26420 | 51185..51361 | - | 177 | WP_201259076 | hypothetical protein | - |
| AW49_RS25485 (AW49_24255) | 51570..51779 | - | 210 | WP_001140543 | hemolysin expression modulator Hha | - |
| AW49_RS25490 (AW49_24260) | 51877..52491 | - | 615 | WP_000578649 | plasmid IncI1-type surface exclusion protein ExcA | - |
| AW49_RS25495 (AW49_24265) | 52567..54735 | - | 2169 | WP_000698355 | IncI1-type conjugal transfer membrane protein TraY | traY |
| AW49_RS25500 (AW49_24270) | 54832..55416 | - | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| AW49_RS25505 (AW49_24275) | 55445..56647 | - | 1203 | WP_001189156 | IncI1-type conjugal transfer protein TraW | traW |
| AW49_RS25510 (AW49_26050) | 56614..57228 | - | 615 | WP_000337399 | IncI1-type conjugal transfer protein TraV | traV |
| AW49_RS25515 (AW49_24280) | 57228..60272 | - | 3045 | WP_042966216 | IncI1-type conjugal transfer protein TraU | traU |
| AW49_RS25520 (AW49_24285) | 60362..61162 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| AW49_RS25525 (AW49_24290) | 61146..61334 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| AW49_RS25530 (AW49_24295) | 61398..61802 | - | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| AW49_RS25535 (AW49_24300) | 61853..62380 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| AW49_RS25540 (AW49_24305) | 62380..63084 | - | 705 | WP_042966215 | IncI1-type conjugal transfer protein TraP | traP |
| AW49_RS25545 (AW49_24310) | 63084..64373 | - | 1290 | WP_063267851 | conjugal transfer protein TraO | traO |
| AW49_RS25550 (AW49_24315) | 64376..65359 | - | 984 | WP_001191879 | IncI1-type conjugal transfer protein TraN | traN |
| AW49_RS25555 (AW49_24320) | 65370..66062 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| AW49_RS25560 (AW49_24325) | 66059..66406 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| AW49_RS25565 (AW49_24330) | 66424..70191 | - | 3768 | WP_063267852 | LPD7 domain-containing protein | - |
| AW49_RS25570 (AW49_24335) | 70281..70832 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| AW49_RS25575 (AW49_26055) | 70847..71137 | - | 291 | WP_001299214 | hypothetical protein | traK |
| AW49_RS25580 (AW49_24340) | 71134..72282 | - | 1149 | WP_001024974 | plasmid transfer ATPase TraJ | virB11 |
| AW49_RS25585 (AW49_24345) | 72279..73097 | - | 819 | WP_000646095 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| AW49_RS25590 (AW49_24350) | 73094..73552 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| AW49_RS25595 (AW49_24355) | 73947..74531 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| AW49_RS25600 (AW49_24360) | 74591..75793 | - | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| AW49_RS25605 (AW49_24365) | 75879..76703 | - | 825 | WP_001545755 | conjugal transfer protein TraE | traE |
| AW49_RS25610 (AW49_24370) | 76854..77399 | - | 546 | Protein_88 | tyrosine-type recombinase/integrase | - |
| AW49_RS25615 (AW49_24375) | 77433..78401 | + | 969 | WP_012904651 | IS5 family transposase | - |
| AW49_RS25620 (AW49_24380) | 78457..79074 | - | 618 | Protein_90 | site-specific integrase | - |
| AW49_RS26820 (AW49_26085) | 80487..80711 | + | 225 | Protein_91 | hypothetical protein | - |
| AW49_RS25655 (AW49_24385) | 80708..82132 | - | 1425 | WP_063267855 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| AW49_RS25660 (AW49_26090) | 82132..82788 | - | 657 | WP_001193553 | prepilin peptidase | - |
| AW49_RS25665 (AW49_24390) | 82773..83333 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| AW49_RS25670 (AW49_24395) | 83343..83957 | - | 615 | WP_001542527 | type 4 pilus major pilin | - |
| AW49_RS25675 (AW49_24400) | 83975..85072 | - | 1098 | WP_001492931 | type II secretion system F family protein | - |
| AW49_RS25680 (AW49_24405) | 85085..86638 | - | 1554 | WP_001492932 | ATPase, T2SS/T4P/T4SS family | virB11 |
| AW49_RS25685 (AW49_24410) | 86649..87101 | - | 453 | WP_001247870 | type IV pilus biogenesis protein PilP | - |
| AW49_RS25690 (AW49_24415) | 87088..88383 | - | 1296 | WP_000752775 | type 4b pilus protein PilO2 | - |
| AW49_RS25695 (AW49_24420) | 88376..90058 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| AW49_RS25700 (AW49_24425) | 90072..90509 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| AW49_RS25705 (AW49_26095) | 90509..91576 | - | 1068 | WP_071892277 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1242 | GenBank | NZ_CP014622 |
| Plasmid name | pSAN1-1727 | Incompatibility group | IncI1 |
| Plasmid size | 97041 bp | Coordinate of oriT [Strand] | 33979..34088 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Anatum str. USDA-ARS-USMARC-1727 isolate SAN1261-1 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |