Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 120540 |
| Name | oriT_p41A20036_B_KPC  |
| Organism | Klebsiella oxytoca strain 41A20CPO036 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_OQ821211 (67546..67651 [+], 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_p41A20036_B_KPC
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 12940 | GenBank | WP_004187323 |
| Name | traI_SLH58_RS00470_p41A20036_B_KPC |
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 | 15197 | GenBank | WP_038874906 |
| Name | t4cp2_SLH58_RS00195_p41A20036_B_KPC |
UniProt ID | _ |
| Length | 701 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 701 a.a. Molecular weight: 80068.49 Da Isoelectric Point: 4.8705
>WP_038874906.1 MULTISPECIES: conjugal transfer protein TrbC [Enterobacterales]
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAESNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIGVVSEFG
K
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAESNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIGVVSEFG
K
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 70447..89775
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| SLH58_RS00450 (PJPFPHIH_00086) | 65533..65844 | + | 312 | WP_004187333 | hypothetical protein | - |
| SLH58_RS00455 (PJPFPHIH_00087) | 65976..66512 | + | 537 | WP_011091066 | hypothetical protein | - |
| SLH58_RS00460 (PJPFPHIH_00089) | 67013..67408 | - | 396 | WP_020805633 | hypothetical protein | - |
| SLH58_RS00465 | 67407..67970 | + | 564 | WP_319382137 | plasmid mobilization protein MobA | - |
| SLH58_RS00470 (PJPFPHIH_00091) | 67957..69936 | + | 1980 | WP_004187323 | TraI/MobA(P) family conjugative relaxase | - |
| SLH58_RS00475 (PJPFPHIH_00092) | 69950..70450 | + | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| SLH58_RS00480 (PJPFPHIH_00093) | 70447..71226 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| SLH58_RS00485 (PJPFPHIH_00094) | 71237..72400 | + | 1164 | WP_020805653 | plasmid transfer ATPase TraJ | virB11 |
| SLH58_RS00490 (PJPFPHIH_00095) | 72390..72650 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| SLH58_RS00495 (PJPFPHIH_00096) | 72675..76112 | + | 3438 | WP_319382138 | LPD7 domain-containing protein | - |
| SLH58_RS00500 (PJPFPHIH_00097) | 76036..76590 | + | 555 | WP_011154467 | hypothetical protein | traL |
| SLH58_RS00505 (PJPFPHIH_00098) | 76591..76788 | - | 198 | WP_004187464 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| SLH58_RS00510 (PJPFPHIH_00099) | 76775..77185 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| SLH58_RS00515 (PJPFPHIH_00100) | 77184..77966 | + | 783 | WP_004206929 | DotI/IcmL family type IV secretion protein | traM |
| SLH58_RS00520 (PJPFPHIH_00101) | 78002..79126 | + | 1125 | WP_319382139 | DotH/IcmK family type IV secretion protein | traN |
| SLH58_RS00525 (PJPFPHIH_00102) | 79138..80487 | + | 1350 | WP_020805691 | conjugal transfer protein TraO | traO |
| SLH58_RS00530 (PJPFPHIH_00103) | 80499..81203 | + | 705 | WP_020805696 | conjugal transfer protein TraP | traP |
| SLH58_RS00535 (PJPFPHIH_00104) | 81227..81757 | + | 531 | WP_011091077 | conjugal transfer protein TraQ | traQ |
| SLH58_RS00540 (PJPFPHIH_00105) | 81774..82163 | + | 390 | WP_020805690 | DUF6750 family protein | traR |
| SLH58_RS00545 (PJPFPHIH_00106) | 82209..82703 | + | 495 | WP_223294957 | hypothetical protein | - |
| SLH58_RS00550 (PJPFPHIH_00107) | 82700..85750 | + | 3051 | WP_020805687 | ATPase AAA | traU |
| SLH58_RS00555 (PJPFPHIH_00108) | 85780..86955 | + | 1176 | WP_167577398 | conjugal transfer protein TraW | traW |
| SLH58_RS00560 (PJPFPHIH_00109) | 86952..87602 | + | 651 | WP_032426814 | hypothetical protein | - |
| SLH58_RS00565 (PJPFPHIH_00110) | 87595..89775 | + | 2181 | WP_032426815 | DotA/TraY family protein | traY |
| SLH58_RS00570 (PJPFPHIH_00111) | 89778..90431 | + | 654 | WP_020805693 | hypothetical protein | - |
| SLH58_RS00575 (PJPFPHIH_00112) | 90493..90735 | + | 243 | WP_023893611 | IncL/M type plasmid replication protein RepC | - |
Host bacterium
| ID | 20969 | GenBank | NZ_OQ821211 |
| Plasmid name | p41A20036_B_KPC | Incompatibility group | IncL/M |
| Plasmid size | 91031 bp | Coordinate of oriT [Strand] | 67546..67651 [+] |
| Host baterium | Klebsiella oxytoca strain 41A20CPO036 |
Cargo genes
| Drug resistance gene | blaKPC-3, blaTEM-1B, aac(6')-Ib-cr, ARR-3, dfrA27, aadA16, qacE, sul1, qnrB6 |
| Virulence gene | - |
| Metal resistance gene | merE, merD, merA, merC, merP, merT, merR |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |