Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 115084 |
| Name | oriT_0|P1  |
| Organism | Serratia marcescens isolate 0 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_OW849112 (46635..46740 [+], 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_0|P1
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 9649 | GenBank | WP_004187323 |
| Name | traI_LQ078_RS24775_0|P1 |
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 | 11258 | GenBank | WP_004206885 |
| Name | t4cp2_LQ078_RS24425_0|P1 |
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: 49536..68825
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| LQ078_RS24755 (AI2616V1_4720) | 44620..44931 | + | 312 | WP_004187333 | hypothetical protein | - |
| LQ078_RS24760 (AI2616V1_4721) | 45064..45600 | + | 537 | WP_004187332 | hypothetical protein | - |
| LQ078_RS24765 (AI2616V1_4722) | 46102..46497 | - | 396 | WP_019725163 | hypothetical protein | - |
| LQ078_RS24770 (AI2616V1_4723) | 46532..47059 | + | 528 | WP_172740549 | plasmid mobilization protein MobA | - |
| LQ078_RS24775 (AI2616V1_4724) | 47046..49025 | + | 1980 | WP_004187323 | TraI/MobA(P) family conjugative relaxase | - |
| LQ078_RS24780 (AI2616V1_4725) | 49039..49539 | + | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| LQ078_RS24785 (AI2616V1_4726) | 49536..50315 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| LQ078_RS24790 (AI2616V1_4727) | 50326..51489 | + | 1164 | WP_004187313 | plasmid transfer ATPase TraJ | virB11 |
| LQ078_RS24795 (AI2616V1_4728) | 51479..51739 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| LQ078_RS24800 (AI2616V1_4729) | 51764..55201 | + | 3438 | WP_225373171 | LPD7 domain-containing protein | - |
| LQ078_RS24805 (AI2616V1_4730) | 55167..55679 | + | 513 | WP_011091071 | hypothetical protein | traL |
| LQ078_RS24810 | 55680..55892 | - | 213 | WP_305953721 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| LQ078_RS24815 | 55864..56274 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| LQ078_RS24820 (AI2616V1_4732) | 56342..57055 | + | 714 | WP_004187467 | DotI/IcmL family type IV secretion protein | traM |
| LQ078_RS24825 (AI2616V1_4733) | 57064..58215 | + | 1152 | WP_004187471 | DotH/IcmK family type IV secretion protein | traN |
| LQ078_RS24830 (AI2616V1_4734) | 58227..59576 | + | 1350 | WP_004187474 | conjugal transfer protein TraO | traO |
| LQ078_RS24835 (AI2616V1_4735) | 59588..60292 | + | 705 | WP_015060002 | conjugal transfer protein TraP | traP |
| LQ078_RS24840 (AI2616V1_4736) | 60316..60846 | + | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| LQ078_RS24845 (AI2616V1_4737) | 60863..61252 | + | 390 | WP_004187479 | DUF6750 family protein | traR |
| LQ078_RS24850 (AI2616V1_4738) | 61298..61792 | + | 495 | WP_004187480 | hypothetical protein | - |
| LQ078_RS24855 (AI2616V1_4739) | 61789..64839 | + | 3051 | WP_004187482 | hypothetical protein | traU |
| LQ078_RS24860 (AI2616V1_4740) | 64836..66044 | + | 1209 | WP_011091082 | conjugal transfer protein TraW | traW |
| LQ078_RS24865 (AI2616V1_4741) | 66041..66637 | + | 597 | WP_015060003 | hypothetical protein | - |
| LQ078_RS24870 (AI2616V1_4742) | 66630..68825 | + | 2196 | WP_015062834 | DotA/TraY family protein | traY |
| LQ078_RS24875 (AI2616V1_4743) | 68827..69480 | + | 654 | WP_015060005 | hypothetical protein | - |
| LQ078_RS24880 (AI2616V1_4744) | 69561..69791 | + | 231 | WP_011091085 | IncL/M type plasmid replication protein RepC | - |
Host bacterium
| ID | 15519 | GenBank | NZ_OW849112 |
| Plasmid name | 0|P1 | Incompatibility group | IncL/M |
| Plasmid size | 70086 bp | Coordinate of oriT [Strand] | 46635..46740 [+] |
| Host baterium | Serratia marcescens isolate 0 |
Cargo genes
| Drug resistance gene | catA1, blaVIM-1, dfrB1, ant(3'')-Ia, catB2, qacE, sul1 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |