Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100563 |
| Name | oriT_pSTM7  |
| Organism | Salmonella enterica subsp. enterica serovar Typhimurium |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_023899 (78514..78623 [+], 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_pSTM7
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 635 | GenBank | YP_009022388 |
| Name | Relaxase_pSTM7 |
UniProt ID | A0A023JAU0 |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 104010.41 Da Isoelectric Point: 7.4265
>YP_009022388.1 relaxase (plasmid) [Salmonella enterica subsp. enterica serovar Typhimurium]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNNDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNNDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A023JAU0 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 36218..73154
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HTB57_RS00195 (PSTM7_00039) | 31280..32347 | + | 1068 | WP_001302629 | type IV pilus biogenesis lipoprotein PilL | - |
| HTB57_RS00200 (PSTM7_00040) | 32347..32784 | + | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| HTB57_RS00205 (PSTM7_00041) | 32798..34480 | + | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| HTB57_RS00210 (PSTM7_00042) | 34473..35768 | + | 1296 | WP_000752772 | type 4b pilus protein PilO2 | - |
| HTB57_RS00215 (PSTM7_00043) | 35755..36207 | + | 453 | WP_001247334 | type IV pilus biogenesis protein PilP | - |
| HTB57_RS00220 (PSTM7_00044) | 36218..37771 | + | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HTB57_RS00225 (PSTM7_00045) | 37784..38881 | + | 1098 | WP_001208805 | type II secretion system F family protein | - |
| HTB57_RS00230 (PSTM7_00046) | 38899..39513 | + | 615 | WP_000959785 | type 4 pilus major pilin | - |
| HTB57_RS00235 (PSTM7_00047) | 39523..40083 | + | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| HTB57_RS00240 (PSTM7_00048) | 40068..40724 | + | 657 | WP_001193553 | prepilin peptidase | - |
| HTB57_RS00245 (PSTM7_00049) | 40724..42016 | + | 1293 | WP_001417545 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HTB57_RS00470 | 42013..42435 | - | 423 | WP_162847923 | prepilin, shufflon protein A | - |
| HTB57_RS00255 (PSTM7_00050) | 42419..43573 | + | 1155 | WP_001139957 | site-specific integrase | - |
| HTB57_RS00260 (PSTM7_00051) | 43724..44548 | + | 825 | WP_001238939 | conjugal transfer protein TraE | traE |
| HTB57_RS00265 (PSTM7_00052) | 44633..45835 | + | 1203 | WP_000976351 | conjugal transfer protein TraF | - |
| HTB57_RS00270 (PSTM7_00053) | 45895..46479 | + | 585 | WP_000977522 | histidine phosphatase family protein | - |
| HTB57_RS00275 (PSTM7_00054) | 46874..47332 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HTB57_RS00280 (PSTM7_00055) | 47329..48147 | + | 819 | WP_000646098 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HTB57_RS00285 (PSTM7_00056) | 48144..49292 | + | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HTB57_RS00290 (PSTM7_00057) | 49289..49579 | + | 291 | WP_001299214 | hypothetical protein | traK |
| HTB57_RS00295 (PSTM7_00058) | 49594..50145 | + | 552 | WP_000014583 | phospholipase D family protein | - |
| HTB57_RS00300 (PSTM7_00059) | 50234..54001 | + | 3768 | WP_001141527 | LPD7 domain-containing protein | - |
| HTB57_RS00305 (PSTM7_00060) | 54019..54366 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| HTB57_RS00310 (PSTM7_00061) | 54363..55055 | + | 693 | WP_000138550 | DotI/IcmL family type IV secretion protein | traM |
| HTB57_RS00315 (PSTM7_00062) | 55066..56049 | + | 984 | WP_001191877 | IncI1-type conjugal transfer protein TraN | traN |
| HTB57_RS00320 (PSTM7_00063) | 56052..57341 | + | 1290 | WP_001272003 | conjugal transfer protein TraO | traO |
| HTB57_RS00325 (PSTM7_00064) | 57341..58045 | + | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HTB57_RS00330 (PSTM7_00065) | 58045..58572 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| HTB57_RS00335 (PSTM7_00066) | 58623..59027 | + | 405 | WP_000086958 | IncI1-type conjugal transfer protein TraR | traR |
| HTB57_RS00340 (PSTM7_00067) | 59091..59279 | + | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| HTB57_RS00345 (PSTM7_00068) | 59263..60063 | + | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| HTB57_RS00350 (PSTM7_00069) | 60153..63197 | + | 3045 | WP_021265678 | IncI1-type conjugal transfer protein TraU | traU |
| HTB57_RS00355 (PSTM7_00070) | 63197..63811 | + | 615 | WP_000337398 | IncI1-type conjugal transfer protein TraV | traV |
| HTB57_RS00360 (PSTM7_00071) | 63778..64980 | + | 1203 | WP_001189160 | IncI1-type conjugal transfer protein TraW | traW |
| HTB57_RS00365 (PSTM7_00072) | 65009..65593 | + | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| HTB57_RS00370 (PSTM7_00073) | 65690..67858 | + | 2169 | WP_021265679 | DotA/TraY family protein | traY |
| HTB57_RS00375 (PSTM7_00074) | 67908..68582 | + | 675 | WP_223866377 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HTB57_RS00380 (PSTM7_00075) | 68654..68863 | - | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| HTB57_RS00385 | 69147..69431 | + | 285 | WP_031942457 | hypothetical protein | - |
| HTB57_RS00495 | 69496..69591 | - | 96 | WP_001303310 | DinQ-like type I toxin DqlB | - |
| HTB57_RS00390 (PSTM7_00077) | 70090..70341 | + | 252 | WP_001291964 | hypothetical protein | - |
| HTB57_RS00395 (PSTM7_00078) | 70413..70565 | - | 153 | WP_001331364 | Hok/Gef family protein | - |
| HTB57_RS00400 (PSTM7_00079) | 70857..72065 | + | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| HTB57_RS00405 (PSTM7_00080) | 72084..73154 | + | 1071 | WP_000151583 | IncI1-type conjugal transfer protein TrbB | trbB |
| HTB57_RS00410 (PSTM7_00081) | 73147..75438 | + | 2292 | WP_001289276 | F-type conjugative transfer protein TrbC | - |
Host bacterium
| ID | 1023 | GenBank | NC_023899 |
| Plasmid name | pSTM7 | Incompatibility group | IncI1 |
| Plasmid size | 83410 bp | Coordinate of oriT [Strand] | 78514..78623 [+] |
| Host baterium | Salmonella enterica subsp. enterica serovar Typhimurium |
Cargo genes
| Drug resistance gene | sul2 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |