Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 118033 |
| Name | oriT_pSCH909  |
| Organism | Serratia marcescens strain SCH909 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP063239 (60834..60939 [+], 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_pSCH909
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 11437 | GenBank | WP_004187323 |
| Name | traI_SCH909_RS25685_pSCH909 |
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 | 13367 | GenBank | WP_004206885 |
| Name | t4cp2_SCH909_RS25350_pSCH909 |
UniProt ID | _ |
| Length | 695 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 695 a.a. Molecular weight: 79538.91 Da Isoelectric Point: 4.8317
>WP_004206885.1 MULTISPECIES: conjugal transfer protein TrbC [Enterobacterales]
MQQESVDSKKVLRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM
MQQESVDSKKVLRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 63735..83024
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| SCH909_RS25665 (SCH909_5081) | 58819..59130 | + | 312 | WP_004187333 | hypothetical protein | - |
| SCH909_RS25670 (SCH909_5082) | 59263..59799 | + | 537 | WP_004187332 | hypothetical protein | - |
| SCH909_RS25675 (SCH909_5084) | 60301..60696 | - | 396 | WP_019725163 | hypothetical protein | - |
| SCH909_RS26010 | 60731..61258 | + | 528 | WP_172740549 | plasmid mobilization protein MobA | - |
| SCH909_RS25685 (SCH909_5086) | 61245..63224 | + | 1980 | WP_004187323 | TraI/MobA(P) family conjugative relaxase | - |
| SCH909_RS25690 (SCH909_5087) | 63238..63738 | + | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| SCH909_RS25695 (SCH909_5088) | 63735..64514 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| SCH909_RS25700 (SCH909_5089) | 64525..65688 | + | 1164 | WP_004187313 | plasmid transfer ATPase TraJ | virB11 |
| SCH909_RS25705 (SCH909_5090) | 65678..65938 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| SCH909_RS26015 (SCH909_5091) | 65963..69400 | + | 3438 | WP_225373171 | LPD7 domain-containing protein | - |
| SCH909_RS25715 (SCH909_5092) | 69366..69878 | + | 513 | WP_011091071 | hypothetical protein | traL |
| SCH909_RS25720 | 69879..70091 | - | 213 | WP_305953721 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| SCH909_RS25725 (SCH909_5093) | 70063..70473 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| SCH909_RS25730 (SCH909_5094) | 70541..71254 | + | 714 | WP_004187467 | DotI/IcmL family type IV secretion protein | traM |
| SCH909_RS25735 (SCH909_5095) | 71263..72414 | + | 1152 | WP_004187471 | DotH/IcmK family type IV secretion protein | traN |
| SCH909_RS25740 (SCH909_5096) | 72426..73775 | + | 1350 | WP_004187474 | conjugal transfer protein TraO | traO |
| SCH909_RS25745 (SCH909_5097) | 73787..74491 | + | 705 | WP_015060002 | conjugal transfer protein TraP | traP |
| SCH909_RS25750 (SCH909_5098) | 74515..75045 | + | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| SCH909_RS25755 (SCH909_5099) | 75062..75451 | + | 390 | WP_004187479 | DUF6750 family protein | traR |
| SCH909_RS25760 (SCH909_5100) | 75497..75991 | + | 495 | WP_004187480 | hypothetical protein | - |
| SCH909_RS25765 (SCH909_5101) | 75988..79038 | + | 3051 | WP_004187482 | hypothetical protein | traU |
| SCH909_RS25770 (SCH909_5102) | 79035..80243 | + | 1209 | WP_011091082 | conjugal transfer protein TraW | traW |
| SCH909_RS25775 (SCH909_5103) | 80240..80836 | + | 597 | WP_015060003 | hypothetical protein | - |
| SCH909_RS25780 (SCH909_5104) | 80829..83024 | + | 2196 | WP_015062834 | DotA/TraY family protein | traY |
| SCH909_RS25785 (SCH909_5105) | 83026..83679 | + | 654 | WP_015060005 | hypothetical protein | - |
Host bacterium
| ID | 18466 | GenBank | NZ_CP063239 |
| Plasmid name | pSCH909 | Incompatibility group | IncL/M |
| Plasmid size | 83750 bp | Coordinate of oriT [Strand] | 60834..60939 [+] |
| Host baterium | Serratia marcescens strain SCH909 |
Cargo genes
| Drug resistance gene | blaTEM-1A, sul1, qacE, ant(3'')-Ia, dfrA1, ant(2'')-Ia, ant(3'')-Ii-aac(6')-IId |
| Virulence gene | - |
| Metal resistance gene | arsC, arsB, arsA, arsD, arsR |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |