Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 104930 |
| Name | oriT_2020CK-00213|unnamed3  |
| Organism | Klebsiella oxytoca strain 2020CK-00213 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP118215 (37118..37222 [+], 105 nt) |
| oriT length | 105 nt |
| IRs (inverted repeats) | 32..37, 40..45 (GCCGGC..GCCGGC) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 105 nt
>oriT_2020CK-00213|unnamed3
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 3472 | GenBank | WP_004206924 |
| Name | Relaxase_PVK22_RS30820_2020CK-00213|unnamed3 |
UniProt ID | A0A2V4FJ40 |
| Length | 659 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 659 a.a. Molecular weight: 75087.84 Da Isoelectric Point: 10.0285
>WP_004206924.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFAGIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQLRSESDDKFNPK
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFAGIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQLRSESDDKFNPK
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A2V4FJ40 |
T4CP
| ID | 3417 | GenBank | WP_004206885 |
| Name | t4cp2_PVK22_RS30570_2020CK-00213|unnamed3 |
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: 40020..59216
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| PVK22_RS30800 (PVK22_30800) | 35104..35415 | + | 312 | WP_004187333 | hypothetical protein | - |
| PVK22_RS30805 (PVK22_30805) | 35548..36084 | + | 537 | WP_004206920 | hypothetical protein | - |
| PVK22_RS30810 (PVK22_30810) | 36585..36950 | - | 366 | WP_004206922 | hypothetical protein | - |
| PVK22_RS30815 (PVK22_30815) | 37226..37543 | + | 318 | WP_004206923 | plasmid mobilization protein MobA | - |
| PVK22_RS30820 (PVK22_30820) | 37530..39509 | + | 1980 | WP_004206924 | TraI/MobA(P) family conjugative relaxase | - |
| PVK22_RS30825 (PVK22_30825) | 39523..40023 | + | 501 | WP_004206925 | DotD/TraH family lipoprotein | - |
| PVK22_RS30830 (PVK22_30830) | 40020..40799 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| PVK22_RS30835 (PVK22_30835) | 40810..41973 | + | 1164 | WP_004206926 | plasmid transfer ATPase TraJ | virB11 |
| PVK22_RS30840 (PVK22_30840) | 41963..42223 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| PVK22_RS30845 (PVK22_30845) | 42248..45553 | + | 3306 | WP_219818010 | LPD7 domain-containing protein | - |
| PVK22_RS30850 (PVK22_30850) | 45519..46031 | + | 513 | WP_011091071 | hypothetical protein | traL |
| PVK22_RS30855 (PVK22_30855) | 46032..46244 | - | 213 | WP_305953721 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| PVK22_RS30860 (PVK22_30860) | 46216..46626 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| PVK22_RS30865 (PVK22_30865) | 46694..47407 | + | 714 | WP_223294958 | DotI/IcmL family type IV secretion protein | traM |
| PVK22_RS30870 (PVK22_30870) | 47416..48567 | + | 1152 | WP_015062843 | DotH/IcmK family type IV secretion protein | traN |
| PVK22_RS30875 (PVK22_30875) | 48579..49928 | + | 1350 | WP_004206932 | conjugal transfer protein TraO | traO |
| PVK22_RS30880 (PVK22_30880) | 49940..50644 | + | 705 | WP_004206933 | conjugal transfer protein TraP | traP |
| PVK22_RS30885 (PVK22_30885) | 50668..51198 | + | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| PVK22_RS30890 (PVK22_30890) | 51215..51604 | + | 390 | WP_011154472 | DUF6750 family protein | traR |
| PVK22_RS30895 (PVK22_30895) | 51650..52144 | + | 495 | WP_004187480 | hypothetical protein | - |
| PVK22_RS30900 (PVK22_30900) | 52141..55191 | + | 3051 | WP_011154474 | conjugative transfer protein | traU |
| PVK22_RS30905 (PVK22_30905) | 55311..56396 | + | 1086 | WP_228719183 | conjugal transfer protein TraW | traW |
| PVK22_RS30910 (PVK22_30910) | 56393..57043 | + | 651 | WP_004187488 | hypothetical protein | - |
| PVK22_RS30915 (PVK22_30915) | 57036..59216 | + | 2181 | WP_004187492 | DotA/TraY family protein | traY |
| PVK22_RS30920 (PVK22_30920) | 59219..59608 | + | 390 | WP_275880960 | hypothetical protein | - |
| PVK22_RS30925 (PVK22_30925) | 59885..61204 | + | 1320 | WP_004152397 | IS1182-like element ISKpn6 family transposase | - |
| PVK22_RS30930 (PVK22_30930) | 61454..62335 | - | 882 | WP_004152396 | carbapenem-hydrolyzing class A beta-lactamase KPC-3 | - |
| PVK22_RS30935 (PVK22_30935) | 62722..63501 | - | 780 | WP_004152394 | IS21-like element ISKpn7 family helper ATPase IstB | - |
Host bacterium
| ID | 5368 | GenBank | NZ_CP118215 |
| Plasmid name | 2020CK-00213|unnamed3 | Incompatibility group | IncL/M |
| Plasmid size | 70483 bp | Coordinate of oriT [Strand] | 37118..37222 [+] |
| Host baterium | Klebsiella oxytoca strain 2020CK-00213 |
Cargo genes
| Drug resistance gene | blaKPC-3 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |