Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 117880 |
| Name | oriT_pKOCBH-C  |
| Organism | Klebsiella michiganensis strain M82255 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP035217 (78270..78375 [-], 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_pKOCBH-C
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 11360 | GenBank | WP_050868819 |
| Name | traI_KOCBH_RS32435_pKOCBH-C |
UniProt ID | A0A142BMF1 |
| Length | 659 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 659 a.a. Molecular weight: 75234.98 Da Isoelectric Point: 10.0285
>WP_050868819.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPVYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSERDDKFNPK
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPVYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSERDDKFNPK
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A142BMF1 |
T4CP
| ID | 13273 | GenBank | WP_011091092 |
| Name | t4cp2_KOCBH_RS32190_pKOCBH-C |
UniProt ID | _ |
| Length | 695 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 695 a.a. Molecular weight: 79491.81 Da Isoelectric Point: 4.8270
>WP_011091092.1 MULTISPECIES: hypothetical protein [Gammaproteobacteria]
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMHFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFADWLDGTDTDDVLYHQEDDLFPMIEM
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMHFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFADWLDGTDTDDVLYHQEDDLFPMIEM
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 56326..75474
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| KOCBH_RS32320 (KOCBH_C00066) | 52338..52943 | + | 606 | WP_000509966 | recombinase family protein | - |
| KOCBH_RS32325 (KOCBH_C00067) | 54012..55067 | - | 1056 | WP_011091086 | plasmid replication initiator RepA | - |
| KOCBH_RS32330 (KOCBH_C00068) | 55365..55595 | - | 231 | WP_011091085 | IncL/M type plasmid replication protein RepC | - |
| KOCBH_RS32335 (KOCBH_C00069) | 55670..56323 | - | 654 | WP_011091084 | hypothetical protein | - |
| KOCBH_RS32340 (KOCBH_C00070) | 56326..58506 | - | 2181 | WP_004187492 | DotA/TraY family protein | traY |
| KOCBH_RS32345 (KOCBH_C00071) | 58499..59149 | - | 651 | WP_011091083 | hypothetical protein | - |
| KOCBH_RS32350 (KOCBH_C00072) | 59146..60354 | - | 1209 | WP_011091082 | conjugal transfer protein TraW | traW |
| KOCBH_RS32355 (KOCBH_C00073) | 60351..63401 | - | 3051 | WP_011091081 | hypothetical protein | traU |
| KOCBH_RS32360 (KOCBH_C00074) | 63398..63892 | - | 495 | WP_011091080 | hypothetical protein | - |
| KOCBH_RS32365 (KOCBH_C00075) | 63938..64327 | - | 390 | WP_011091078 | DUF6750 family protein | traR |
| KOCBH_RS32370 (KOCBH_C00076) | 64344..64874 | - | 531 | WP_011091077 | conjugal transfer protein TraQ | traQ |
| KOCBH_RS32375 (KOCBH_C00077) | 64898..65602 | - | 705 | WP_011091076 | conjugal transfer protein TraP | traP |
| KOCBH_RS32380 (KOCBH_C00078) | 65614..66963 | - | 1350 | WP_128697117 | conjugal transfer protein TraO | traO |
| KOCBH_RS32385 (KOCBH_C00079) | 66975..68126 | - | 1152 | WP_011091074 | DotH/IcmK family type IV secretion protein | traN |
| KOCBH_RS32390 (KOCBH_C00080) | 68135..68848 | - | 714 | WP_109914255 | DotI/IcmL family type IV secretion protein | traM |
| KOCBH_RS32395 (KOCBH_C00081) | 68916..69326 | + | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| KOCBH_RS32400 (KOCBH_C00082) | 69355..69510 | + | 156 | WP_172693602 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| KOCBH_RS32405 (KOCBH_C00083) | 69511..70023 | - | 513 | WP_011091071 | hypothetical protein | traL |
| KOCBH_RS33460 (KOCBH_C00084) | 69989..73246 | - | 3258 | WP_222859430 | LPD7 domain-containing protein | - |
| KOCBH_RS32415 (KOCBH_C00085) | 73271..73531 | - | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| KOCBH_RS32420 (KOCBH_C00086) | 73521..74684 | - | 1164 | WP_004187313 | plasmid transfer ATPase TraJ | virB11 |
| KOCBH_RS32425 (KOCBH_C00087) | 74695..75474 | - | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| KOCBH_RS32430 (KOCBH_C00088) | 75471..75971 | - | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| KOCBH_RS32435 (KOCBH_C00089) | 75985..77964 | - | 1980 | WP_050868819 | TraI/MobA(P) family conjugative relaxase | - |
| KOCBH_RS33465 | 77951..78529 | - | 579 | WP_223811519 | plasmid mobilization protein MobA | - |
| KOCBH_RS32445 (KOCBH_C00091) | 78544..78909 | + | 366 | WP_011091067 | hypothetical protein | - |
| KOCBH_RS32450 (KOCBH_C00093) | 79410..79946 | - | 537 | WP_011091066 | hypothetical protein | - |
| KOCBH_RS32455 (KOCBH_C00094) | 80079..80390 | - | 312 | WP_011091065 | hypothetical protein | - |
Host bacterium
| ID | 18313 | GenBank | NZ_CP035217 |
| Plasmid name | pKOCBH-C | Incompatibility group | IncL/M |
| Plasmid size | 87421 bp | Coordinate of oriT [Strand] | 78270..78375 [-] |
| Host baterium | Klebsiella michiganensis strain M82255 |
Cargo genes
| Drug resistance gene | blaSHV-2, aac(3)-IId, blaTEM-1B |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |