Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100832 |
| Name | oriT_pAMR588-04-00320_99  |
| Organism | Salmonella enterica subsp. enterica serovar Heidelberg strain AMR588-04-00320 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP016572 (43719..43828 [-], 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_pAMR588-04-00320_99
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 904 | GenBank | WP_001474686 |
| Name | NikB_pAMR588-04-00320_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: 49188..88892
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| BAT63_RS23465 (BAT63_23255) | 46904..49195 | - | 2292 | WP_001289271 | F-type conjugative transfer protein TrbC | - |
| BAT63_RS23470 (BAT63_23260) | 49188..50258 | - | 1071 | WP_000151575 | IncI1-type conjugal transfer protein TrbB | trbB |
| BAT63_RS23475 (BAT63_23265) | 50277..51485 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| BAT63_RS23480 (BAT63_23270) | 51777..51929 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| BAT63_RS23485 (BAT63_23275) | 52001..52252 | - | 252 | WP_001291965 | hypothetical protein | - |
| BAT63_RS23490 (BAT63_23280) | 52613..53395 | - | 783 | WP_001300609 | IS21-like element IS100kyp family helper ATPase IstB | - |
| BAT63_RS23495 (BAT63_23285) | 53392..54414 | - | 1023 | WP_001572805 | IS21-like element IS100 family transposase | - |
| BAT63_RS26110 | 55135..55311 | - | 177 | WP_001054900 | hypothetical protein | - |
| BAT63_RS23500 (BAT63_23290) | 55703..55912 | + | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| BAT63_RS23505 (BAT63_23295) | 55984..56646 | - | 663 | WP_000644794 | plasmid IncI1-type surface exclusion protein ExcA | - |
| BAT63_RS23510 (BAT63_23300) | 56717..58885 | - | 2169 | WP_000698368 | DotA/TraY family protein | traY |
| BAT63_RS23515 (BAT63_23305) | 58982..59566 | - | 585 | WP_001037998 | conjugal transfer protein TraX | - |
| BAT63_RS23520 (BAT63_23310) | 59595..60797 | - | 1203 | WP_001189158 | IncI1-type conjugal transfer protein TraW | traW |
| BAT63_RS25235 | 60764..61378 | - | 615 | WP_000337394 | IncI1-type conjugal transfer protein TraV | traV |
| BAT63_RS23525 (BAT63_23315) | 61378..64422 | - | 3045 | WP_001024751 | IncI1-type conjugal transfer protein TraU | traU |
| BAT63_RS23530 (BAT63_23320) | 64512..65312 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| BAT63_RS23535 (BAT63_23325) | 65296..65484 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| BAT63_RS23540 (BAT63_23330) | 65548..65952 | - | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| BAT63_RS23545 (BAT63_23335) | 66003..66530 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| BAT63_RS23550 (BAT63_23340) | 66530..67234 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| BAT63_RS23555 (BAT63_23345) | 67234..68523 | - | 1290 | WP_001271997 | conjugal transfer protein TraO | traO |
| BAT63_RS23560 (BAT63_23350) | 68526..69509 | - | 984 | WP_001191878 | IncI1-type conjugal transfer protein TraN | traN |
| BAT63_RS23565 (BAT63_23355) | 69520..70212 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| BAT63_RS23570 (BAT63_23360) | 70209..70556 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| BAT63_RS23575 (BAT63_23365) | 70574..74341 | - | 3768 | WP_001141535 | LPD7 domain-containing protein | - |
| BAT63_RS23580 (BAT63_23370) | 74431..74982 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| BAT63_RS25240 | 74997..75287 | - | 291 | WP_001299214 | hypothetical protein | traK |
| BAT63_RS23585 (BAT63_23375) | 75284..76432 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| BAT63_RS23590 (BAT63_23380) | 76429..77247 | - | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| BAT63_RS23595 (BAT63_23385) | 77244..77702 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| BAT63_RS23600 (BAT63_23390) | 78097..78681 | - | 585 | WP_000977517 | histidine phosphatase family protein | - |
| BAT63_RS23605 (BAT63_23395) | 78741..79943 | - | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| BAT63_RS23610 (BAT63_23400) | 80029..80853 | - | 825 | WP_001238927 | conjugal transfer protein TraE | traE |
| BAT63_RS23615 (BAT63_23405) | 81004..82158 | - | 1155 | WP_001139958 | site-specific integrase | - |
| BAT63_RS25245 | 82849..83097 | + | 249 | WP_001349157 | hypothetical protein | - |
| BAT63_RS23630 (BAT63_23420) | 83094..84386 | - | 1293 | WP_032274560 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| BAT63_RS25250 | 84386..85042 | - | 657 | WP_001193553 | prepilin peptidase | - |
| BAT63_RS23635 (BAT63_23425) | 85027..85587 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| BAT63_RS23640 (BAT63_23430) | 85597..86211 | - | 615 | WP_000959785 | type 4 pilus major pilin | - |
| BAT63_RS23645 (BAT63_23435) | 86229..87326 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| BAT63_RS23650 (BAT63_23440) | 87339..88892 | - | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| BAT63_RS23655 (BAT63_23445) | 88903..89355 | - | 453 | WP_001247336 | type IV pilus biogenesis protein PilP | - |
| BAT63_RS23660 (BAT63_23450) | 89342..90637 | - | 1296 | WP_000752774 | type 4b pilus protein PilO2 | - |
| BAT63_RS23665 (BAT63_23455) | 90630..92312 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| BAT63_RS23670 (BAT63_23460) | 92326..92763 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| BAT63_RS25255 | 92763..93830 | - | 1068 | WP_000742600 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1292 | GenBank | NZ_CP016572 |
| Plasmid name | pAMR588-04-00320_99 | Incompatibility group | IncI1 |
| Plasmid size | 98999 bp | Coordinate of oriT [Strand] | 43719..43828 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Heidelberg strain AMR588-04-00320 |
Cargo genes
| Drug resistance gene | resistance to cetylpyridinium; quaternary ammonium compound resistance |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |