Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100828 |
| Name | oriT_pSA02DT09004001_101  |
| Organism | Salmonella enterica subsp. enterica serovar Heidelberg strain SA02DT09004001 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP016522 (46444..46553 [-], 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_pSA02DT09004001_101
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 900 | GenBank | WP_001474686 |
| Name | NikB_pSA02DT09004001_101 |
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: 51913..91616
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| BAT61_RS23265 (BAT61_23260) | 49629..51920 | - | 2292 | WP_001289271 | F-type conjugative transfer protein TrbC | - |
| BAT61_RS23270 (BAT61_23265) | 51913..52983 | - | 1071 | WP_000151575 | IncI1-type conjugal transfer protein TrbB | trbB |
| BAT61_RS23275 (BAT61_23270) | 53002..54210 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| BAT61_RS23280 (BAT61_23275) | 54502..54654 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| BAT61_RS23285 (BAT61_23280) | 54726..54977 | - | 252 | WP_001291965 | hypothetical protein | - |
| BAT61_RS23290 (BAT61_23285) | 55338..56120 | - | 783 | WP_001300609 | IS21-like element IS100kyp family helper ATPase IstB | - |
| BAT61_RS23295 (BAT61_23290) | 56117..57139 | - | 1023 | WP_001572805 | IS21-like element IS100 family transposase | - |
| BAT61_RS26150 | 57860..58036 | - | 177 | WP_001054900 | hypothetical protein | - |
| BAT61_RS23300 (BAT61_23295) | 58428..58637 | + | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| BAT61_RS23305 (BAT61_23300) | 58709..59371 | - | 663 | WP_000644794 | plasmid IncI1-type surface exclusion protein ExcA | - |
| BAT61_RS23310 (BAT61_23305) | 59442..61610 | - | 2169 | WP_000698368 | DotA/TraY family protein | traY |
| BAT61_RS23315 (BAT61_23310) | 61707..62291 | - | 585 | WP_001037998 | conjugal transfer protein TraX | - |
| BAT61_RS23320 (BAT61_23315) | 62320..63522 | - | 1203 | WP_001189158 | IncI1-type conjugal transfer protein TraW | traW |
| BAT61_RS25195 | 63489..64103 | - | 615 | WP_000337394 | IncI1-type conjugal transfer protein TraV | traV |
| BAT61_RS23325 (BAT61_23320) | 64103..67147 | - | 3045 | WP_001024751 | IncI1-type conjugal transfer protein TraU | traU |
| BAT61_RS23330 (BAT61_23325) | 67237..68037 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| BAT61_RS23335 (BAT61_23330) | 68021..68209 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| BAT61_RS23340 (BAT61_23335) | 68273..68677 | - | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| BAT61_RS23345 (BAT61_23340) | 68728..69255 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| BAT61_RS23350 (BAT61_23345) | 69255..69959 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| BAT61_RS23355 (BAT61_23350) | 69959..71248 | - | 1290 | WP_001271997 | conjugal transfer protein TraO | traO |
| BAT61_RS23360 (BAT61_23355) | 71251..72234 | - | 984 | WP_001191878 | IncI1-type conjugal transfer protein TraN | traN |
| BAT61_RS23365 (BAT61_23360) | 72245..72937 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| BAT61_RS23370 (BAT61_23365) | 72934..73281 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| BAT61_RS23375 (BAT61_23370) | 73299..77066 | - | 3768 | WP_001141535 | LPD7 domain-containing protein | - |
| BAT61_RS23380 (BAT61_23375) | 77156..77707 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| BAT61_RS25200 | 77722..78012 | - | 291 | WP_001299214 | hypothetical protein | traK |
| BAT61_RS23385 (BAT61_23380) | 78009..79157 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| BAT61_RS23390 (BAT61_23385) | 79154..79972 | - | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| BAT61_RS23395 (BAT61_23390) | 79969..80427 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| BAT61_RS23400 (BAT61_23395) | 80822..81406 | - | 585 | WP_000977517 | histidine phosphatase family protein | - |
| BAT61_RS23405 (BAT61_23400) | 81466..82668 | - | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| BAT61_RS23410 (BAT61_23405) | 82754..83578 | - | 825 | WP_001238927 | conjugal transfer protein TraE | traE |
| BAT61_RS23415 (BAT61_23410) | 83729..84883 | - | 1155 | WP_001139958 | site-specific integrase | - |
| BAT61_RS26490 | 84935..85192 | + | 258 | Protein_97 | hypothetical protein | - |
| BAT61_RS26495 | 85468..85689 | + | 222 | Protein_98 | prepilin | - |
| BAT61_RS23425 (BAT61_23420) | 85686..87110 | - | 1425 | WP_023278060 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| BAT61_RS25210 | 87110..87766 | - | 657 | WP_001193553 | prepilin peptidase | - |
| BAT61_RS23430 (BAT61_23425) | 87751..88311 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| BAT61_RS23435 (BAT61_23430) | 88321..88935 | - | 615 | WP_000959785 | type 4 pilus major pilin | - |
| BAT61_RS23440 (BAT61_23435) | 88953..90050 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| BAT61_RS23445 (BAT61_23440) | 90063..91616 | - | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| BAT61_RS23450 (BAT61_23445) | 91627..92079 | - | 453 | WP_001247336 | type IV pilus biogenesis protein PilP | - |
| BAT61_RS23455 (BAT61_23450) | 92066..93361 | - | 1296 | WP_000752774 | type 4b pilus protein PilO2 | - |
| BAT61_RS23460 (BAT61_23455) | 93354..95036 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| BAT61_RS23465 (BAT61_23460) | 95050..95487 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| BAT61_RS25215 | 95487..96554 | - | 1068 | WP_000742600 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1288 | GenBank | NZ_CP016522 |
| Plasmid name | pSA02DT09004001_101 | Incompatibility group | IncI1 |
| Plasmid size | 101723 bp | Coordinate of oriT [Strand] | 46444..46553 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Heidelberg strain SA02DT09004001 |
Cargo genes
| Drug resistance gene | resistance to cetylpyridinium; quaternary ammonium compound resistance |
| Virulence gene | - |
| Metal resistance gene | copper resistance |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |