Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 103163 |
| Name | oriT_pRJ119-2  |
| Organism | Klebsiella pneumoniae strain RJ119 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_KX636096 (462..567 [+], 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_pRJ119-2
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 2366 | GenBank | WP_004187323 |
| Name | Relaxase_HTJ05_RS00015_pRJ119-2 |
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 | 2108 | GenBank | WP_004206885 |
| Name | t4cp2_HTJ05_RS00130_pRJ119-2 |
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: 3363..30706
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HTJ05_RS00395 | 323..886 | + | 564 | WP_020277892 | plasmid mobilization protein MobA | - |
| HTJ05_RS00015 | 873..2852 | + | 1980 | WP_004187323 | TraI/MobA(P) family conjugative relaxase | - |
| HTJ05_RS00020 | 2866..3366 | + | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| HTJ05_RS00025 | 3363..4142 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| HTJ05_RS00030 | 4153..5316 | + | 1164 | WP_004187313 | plasmid transfer ATPase TraJ | virB11 |
| HTJ05_RS00035 | 5306..5566 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| HTJ05_RS00400 | 5591..9028 | + | 3438 | WP_015586048 | LPD7 domain-containing protein | - |
| HTJ05_RS00045 | 8994..9506 | + | 513 | WP_011091071 | hypothetical protein | traL |
| HTJ05_RS00050 | 9507..9704 | - | 198 | WP_004187464 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| HTJ05_RS00055 | 9691..10101 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| HTJ05_RS00060 | 10100..10882 | + | 783 | WP_015058941 | DotI/IcmL family type IV secretion protein | traM |
| HTJ05_RS00065 | 10891..12042 | + | 1152 | WP_004187471 | DotH/IcmK family type IV secretion protein | traN |
| HTJ05_RS00070 | 12054..13403 | + | 1350 | WP_004187474 | conjugal transfer protein TraO | traO |
| HTJ05_RS00075 | 13415..14119 | + | 705 | WP_015060002 | conjugal transfer protein TraP | traP |
| HTJ05_RS00080 | 14143..14673 | + | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| HTJ05_RS00085 | 14690..15079 | + | 390 | WP_004187479 | DUF6750 family protein | traR |
| HTJ05_RS00090 | 15125..15619 | + | 495 | WP_004187480 | hypothetical protein | - |
| HTJ05_RS00095 | 15616..18666 | + | 3051 | WP_004187482 | hypothetical protein | traU |
| HTJ05_RS00100 | 18663..19871 | + | 1209 | WP_011091082 | conjugal transfer protein TraW | traW |
| HTJ05_RS00105 | 19868..20464 | + | 597 | WP_015060003 | hypothetical protein | - |
| HTJ05_RS00110 | 20457..22652 | + | 2196 | WP_015062834 | DotA/TraY family protein | traY |
| HTJ05_RS00115 | 22654..23307 | + | 654 | WP_015060005 | hypothetical protein | - |
| HTJ05_RS00120 | 23376..23618 | + | 243 | WP_023893611 | IncL/M type plasmid replication protein RepC | - |
| HTJ05_RS00125 | 23902..24969 | + | 1068 | WP_019725043 | plasmid replication initiator RepA | - |
| HTJ05_RS00410 | 26192..26287 | + | 96 | WP_004206884 | DinQ-like type I toxin DqlB | - |
| HTJ05_RS00130 | 26338..28425 | - | 2088 | WP_004206885 | conjugal transfer protein TrbC | - |
| HTJ05_RS00135 | 28438..29388 | - | 951 | WP_004206886 | DsbC family protein | trbB |
| HTJ05_RS00140 | 29399..30706 | - | 1308 | WP_015059988 | hypothetical protein | trbA |
| HTJ05_RS00145 | 30706..31062 | - | 357 | WP_015586032 | lytic transglycosylase domain-containing protein | - |
| HTJ05_RS00150 | 31206..31601 | - | 396 | WP_015059989 | DUF1496 domain-containing protein | - |
| HTJ05_RS00155 | 31669..32103 | + | 435 | Protein_31 | CPBP family intramembrane glutamate endopeptidase | - |
| HTJ05_RS00160 | 32118..33323 | - | 1206 | WP_025987686 | IS4-like element IS10A family transposase | - |
| HTJ05_RS00170 | 34236..35033 | + | 798 | WP_015059991 | OXA-48 family carbapenem-hydrolyzing class D beta-lactamase OXA-48 | - |
Host bacterium
| ID | 3606 | GenBank | NZ_KX636096 |
| Plasmid name | pRJ119-2 | Incompatibility group | IncL/M |
| Plasmid size | 61748 bp | Coordinate of oriT [Strand] | 462..567 [+] |
| Host baterium | Klebsiella pneumoniae strain RJ119 |
Cargo genes
| Drug resistance gene | blaOXA-48 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |