Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 104240 |
| Name | oriT_pKp1050-3  |
| Organism | Klebsiella pneumoniae strain 1050 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP023419 (47463..47568 [+], 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_pKp1050-3
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 3116 | GenBank | WP_004187323 |
| Name | Relaxase_CN260_RS29850_pKp1050-3 |
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 | 3020 | GenBank | WP_004206885 |
| Name | t4cp2_CN260_RS29475_pKp1050-3 |
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: 50364..69608
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| CN260_RS29830 (CN260_29680) | 45448..45759 | + | 312 | WP_004187333 | hypothetical protein | - |
| CN260_RS29835 (CN260_29685) | 45892..46428 | + | 537 | WP_004187332 | hypothetical protein | - |
| CN260_RS29840 (CN260_29690) | 46930..47325 | - | 396 | WP_019725163 | hypothetical protein | - |
| CN260_RS31950 | 47360..47887 | + | 528 | WP_172740549 | plasmid mobilization protein MobA | - |
| CN260_RS29850 (CN260_29700) | 47874..49853 | + | 1980 | WP_004187323 | TraI/MobA(P) family conjugative relaxase | - |
| CN260_RS29855 (CN260_29705) | 49867..50367 | + | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| CN260_RS29860 (CN260_29710) | 50364..51143 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| CN260_RS29865 (CN260_29715) | 51154..52317 | + | 1164 | WP_004187313 | plasmid transfer ATPase TraJ | virB11 |
| CN260_RS29870 (CN260_29720) | 52307..52567 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| CN260_RS31955 | 52592..55984 | + | 3393 | WP_228200759 | LPD7 domain-containing protein | - |
| CN260_RS29880 (CN260_29730) | 55950..56462 | + | 513 | WP_011091071 | hypothetical protein | traL |
| CN260_RS29885 (CN260_29735) | 56463..56675 | - | 213 | WP_305953721 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| CN260_RS29890 (CN260_29740) | 56647..57057 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| CN260_RS29895 (CN260_29745) | 57125..57838 | + | 714 | WP_004187467 | DotI/IcmL family type IV secretion protein | traM |
| CN260_RS29905 (CN260_29750) | 57847..58998 | + | 1152 | WP_004187471 | DotH/IcmK family type IV secretion protein | traN |
| CN260_RS29910 (CN260_29755) | 59010..60359 | + | 1350 | WP_004187474 | conjugal transfer protein TraO | traO |
| CN260_RS29915 (CN260_29760) | 60371..61075 | + | 705 | WP_015060002 | conjugal transfer protein TraP | traP |
| CN260_RS29920 (CN260_29765) | 61099..61629 | + | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| CN260_RS29925 (CN260_29770) | 61646..62035 | + | 390 | WP_004187479 | DUF6750 family protein | traR |
| CN260_RS29930 (CN260_29775) | 62081..62575 | + | 495 | WP_004187480 | hypothetical protein | - |
| CN260_RS29935 (CN260_29780) | 62572..65622 | + | 3051 | WP_004187482 | hypothetical protein | traU |
| CN260_RS29940 (CN260_29785) | 65619..66827 | + | 1209 | WP_011091082 | conjugal transfer protein TraW | traW |
| CN260_RS29945 (CN260_29790) | 66824..67420 | + | 597 | WP_015060003 | hypothetical protein | - |
| CN260_RS29950 (CN260_29795) | 67413..69608 | + | 2196 | WP_015062834 | DotA/TraY family protein | traY |
| CN260_RS29955 (CN260_29800) | 69610..70263 | + | 654 | WP_015060005 | hypothetical protein | - |
| CN260_RS29960 (CN260_29805) | 70344..70574 | + | 231 | WP_011091085 | IncL/M type plasmid replication protein RepC | - |
Host bacterium
| ID | 4679 | GenBank | NZ_CP023419 |
| Plasmid name | pKp1050-3 | Incompatibility group | IncL/M |
| Plasmid size | 70869 bp | Coordinate of oriT [Strand] | 47463..47568 [+] |
| Host baterium | Klebsiella pneumoniae strain 1050 |
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 | - |