Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 113788 |
| Name | oriT_pR13.1986_58k  |
| Organism | Salmonella enterica subsp. enterica serovar Infantis strain R13.1986 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP129387 (35483..35588 [+], 106 nt) |
| oriT length | 106 nt |
| IRs (inverted repeats) | 30..35, 41..46 (CCGCCG..CGGCGG) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 106 nt
>oriT_pR13.1986_58k
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 8829 | GenBank | WP_004187323 |
| Name | Relaxase_ETE97_RS24205_pR13.1986_58k |
UniProt ID | A0A3U8KUL3 |
| Length | 659 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 659 a.a. Molecular weight: 75179.89 Da Isoelectric Point: 9.9948
>WP_004187323.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSESDDKFNPK
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSESDDKFNPK
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A3U8KUL3 |
T4CP
| ID | 10242 | GenBank | WP_004187443 |
| Name | t4cp2_ETE97_RS23940_pR13.1986_58k |
UniProt ID | _ |
| Length | 695 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 695 a.a. Molecular weight: 79519.87 Da Isoelectric Point: 4.8309
>WP_004187443.1 MULTISPECIES: hypothetical protein [Enterobacterales]
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMHFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMHFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 38384..57697
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ETE97_RS24185 (ETE97_24185) | 33468..33779 | + | 312 | WP_004187333 | hypothetical protein | - |
| ETE97_RS24190 (ETE97_24190) | 33912..34448 | + | 537 | WP_004187332 | hypothetical protein | - |
| ETE97_RS24195 (ETE97_24195) | 34950..35345 | - | 396 | WP_019725163 | hypothetical protein | - |
| ETE97_RS24200 (ETE97_24200) | 35380..35907 | + | 528 | WP_235341238 | plasmid mobilization protein MobA | - |
| ETE97_RS24205 (ETE97_24205) | 35894..37873 | + | 1980 | WP_004187323 | TraI/MobA(P) family conjugative relaxase | - |
| ETE97_RS24210 (ETE97_24210) | 37887..38387 | + | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| ETE97_RS24215 (ETE97_24215) | 38384..39163 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| ETE97_RS24220 (ETE97_24220) | 39174..40337 | + | 1164 | WP_004187313 | plasmid transfer ATPase TraJ | virB11 |
| ETE97_RS24225 (ETE97_24225) | 40327..40587 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| ETE97_RS24230 (ETE97_24230) | 40612..44094 | + | 3483 | WP_227022524 | LPD7 domain-containing protein | - |
| ETE97_RS24235 (ETE97_24235) | 44060..44572 | + | 513 | WP_011091071 | hypothetical protein | traL |
| ETE97_RS24795 | 44573..44785 | - | 213 | WP_306458688 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| ETE97_RS24245 (ETE97_24245) | 44757..45167 | - | 411 | WP_040027863 | H-NS family nucleoid-associated regulatory protein | - |
| ETE97_RS24250 (ETE97_24250) | 45235..45948 | + | 714 | WP_223430951 | DotI/IcmL family type IV secretion protein | traM |
| ETE97_RS24255 (ETE97_24255) | 46068..47087 | + | 1020 | WP_238600022 | DotH/IcmK family type IV secretion protein | traN |
| ETE97_RS24260 (ETE97_24260) | 47099..48448 | + | 1350 | WP_040119748 | conjugal transfer protein TraO | traO |
| ETE97_RS24265 (ETE97_24265) | 48460..49164 | + | 705 | WP_040119747 | conjugal transfer protein TraP | traP |
| ETE97_RS24270 (ETE97_24270) | 49188..49718 | + | 531 | WP_011091077 | conjugal transfer protein TraQ | traQ |
| ETE97_RS24275 (ETE97_24275) | 49735..50124 | + | 390 | WP_011091078 | DUF6750 family protein | traR |
| ETE97_RS24280 (ETE97_24280) | 50170..50664 | + | 495 | WP_301557926 | hypothetical protein | - |
| ETE97_RS24285 (ETE97_24285) | 50661..53711 | + | 3051 | WP_040119746 | conjugal transfer protein | traU |
| ETE97_RS24290 (ETE97_24290) | 53708..54916 | + | 1209 | WP_004187486 | conjugal transfer protein TraW | traW |
| ETE97_RS24295 (ETE97_24295) | 54913..55509 | + | 597 | WP_015060003 | hypothetical protein | - |
| ETE97_RS24300 (ETE97_24300) | 55502..57697 | + | 2196 | WP_015062834 | DotA/TraY family protein | traY |
| ETE97_RS24305 (ETE97_24305) | 57699..58352 | + | 654 | WP_044706695 | hypothetical protein | - |
| ETE97_RS24310 (ETE97_24310) | 58416..58664 | + | 249 | WP_015062836 | IncL/M type plasmid replication protein RepC | - |
Host bacterium
| ID | 14223 | GenBank | NZ_CP129387 |
| Plasmid name | pR13.1986_58k | Incompatibility group | IncL/M |
| Plasmid size | 58960 bp | Coordinate of oriT [Strand] | 35483..35588 [+] |
| Host baterium | Salmonella enterica subsp. enterica serovar Infantis strain R13.1986 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |