Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100831 |
| Name | oriT_pAMR588-04-00318_99  |
| Organism | Salmonella enterica subsp. enterica serovar Heidelberg strain AMR588-04-00318 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP016568 (43718..43827 [-], 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_pAMR588-04-00318_99
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 903 | GenBank | WP_001474686 |
| Name | NikB_pAMR588-04-00318_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: 49187..88891
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| BAT62_RS23455 (BAT62_23245) | 46903..49194 | - | 2292 | WP_001289271 | F-type conjugative transfer protein TrbC | - |
| BAT62_RS23460 (BAT62_23250) | 49187..50257 | - | 1071 | WP_000151575 | IncI1-type conjugal transfer protein TrbB | trbB |
| BAT62_RS23465 (BAT62_23255) | 50276..51484 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| BAT62_RS23470 (BAT62_23260) | 51776..51928 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| BAT62_RS23475 (BAT62_23265) | 52000..52251 | - | 252 | WP_001291965 | hypothetical protein | - |
| BAT62_RS23480 (BAT62_23270) | 52612..53394 | - | 783 | WP_001300609 | IS21-like element IS100kyp family helper ATPase IstB | - |
| BAT62_RS23485 (BAT62_23275) | 53391..54413 | - | 1023 | WP_001572805 | IS21-like element IS100 family transposase | - |
| BAT62_RS26105 | 55134..55310 | - | 177 | WP_001054900 | hypothetical protein | - |
| BAT62_RS23490 (BAT62_23280) | 55702..55911 | + | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| BAT62_RS23495 (BAT62_23285) | 55983..56645 | - | 663 | WP_000644794 | plasmid IncI1-type surface exclusion protein ExcA | - |
| BAT62_RS23500 (BAT62_23290) | 56716..58884 | - | 2169 | WP_000698368 | DotA/TraY family protein | traY |
| BAT62_RS23505 (BAT62_23295) | 58981..59565 | - | 585 | WP_001037998 | conjugal transfer protein TraX | - |
| BAT62_RS23510 (BAT62_23300) | 59594..60796 | - | 1203 | WP_001189158 | IncI1-type conjugal transfer protein TraW | traW |
| BAT62_RS25250 | 60763..61377 | - | 615 | WP_000337394 | IncI1-type conjugal transfer protein TraV | traV |
| BAT62_RS23515 (BAT62_23305) | 61377..64421 | - | 3045 | WP_001024751 | IncI1-type conjugal transfer protein TraU | traU |
| BAT62_RS23520 (BAT62_23310) | 64511..65311 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| BAT62_RS23525 (BAT62_23315) | 65295..65483 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| BAT62_RS23530 (BAT62_23320) | 65547..65951 | - | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| BAT62_RS23535 (BAT62_23325) | 66002..66529 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| BAT62_RS23540 (BAT62_23330) | 66529..67233 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| BAT62_RS23545 (BAT62_23335) | 67233..68522 | - | 1290 | WP_001271997 | conjugal transfer protein TraO | traO |
| BAT62_RS23550 (BAT62_23340) | 68525..69508 | - | 984 | WP_001191878 | IncI1-type conjugal transfer protein TraN | traN |
| BAT62_RS23555 (BAT62_23345) | 69519..70211 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| BAT62_RS23560 (BAT62_23350) | 70208..70555 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| BAT62_RS23565 (BAT62_23355) | 70573..74340 | - | 3768 | WP_001141535 | LPD7 domain-containing protein | - |
| BAT62_RS23570 (BAT62_23360) | 74430..74981 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| BAT62_RS25255 | 74996..75286 | - | 291 | WP_001299214 | hypothetical protein | traK |
| BAT62_RS23575 (BAT62_23365) | 75283..76431 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| BAT62_RS23580 (BAT62_23370) | 76428..77246 | - | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| BAT62_RS23585 (BAT62_23375) | 77243..77701 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| BAT62_RS23590 (BAT62_23380) | 78096..78680 | - | 585 | WP_000977517 | histidine phosphatase family protein | - |
| BAT62_RS23595 (BAT62_23385) | 78740..79942 | - | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| BAT62_RS23600 (BAT62_23390) | 80028..80852 | - | 825 | WP_001238927 | conjugal transfer protein TraE | traE |
| BAT62_RS23605 (BAT62_23395) | 81003..82157 | - | 1155 | WP_001139958 | site-specific integrase | - |
| BAT62_RS26475 | 82743..82964 | + | 222 | Protein_93 | prepilin | - |
| BAT62_RS23620 (BAT62_23410) | 82961..84385 | - | 1425 | WP_023278060 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| BAT62_RS25265 | 84385..85041 | - | 657 | WP_001193553 | prepilin peptidase | - |
| BAT62_RS23625 (BAT62_23415) | 85026..85586 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| BAT62_RS23630 (BAT62_23420) | 85596..86210 | - | 615 | WP_000959785 | type 4 pilus major pilin | - |
| BAT62_RS23635 (BAT62_23425) | 86228..87325 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| BAT62_RS23640 (BAT62_23430) | 87338..88891 | - | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| BAT62_RS23645 (BAT62_23435) | 88902..89354 | - | 453 | WP_001247336 | type IV pilus biogenesis protein PilP | - |
| BAT62_RS23650 (BAT62_23440) | 89341..90636 | - | 1296 | WP_000752774 | type 4b pilus protein PilO2 | - |
| BAT62_RS23655 (BAT62_23445) | 90629..92311 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| BAT62_RS23660 (BAT62_23450) | 92325..92762 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| BAT62_RS25270 | 92762..93829 | - | 1068 | WP_000742600 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1291 | GenBank | NZ_CP016568 |
| Plasmid name | pAMR588-04-00318_99 | Incompatibility group | IncI1 |
| Plasmid size | 98998 bp | Coordinate of oriT [Strand] | 43718..43827 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Heidelberg strain AMR588-04-00318 |
Cargo genes
| Drug resistance gene | resistance to cetylpyridinium; quaternary ammonium compound resistance |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |