Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100268 |
| Name | oriT_pBP136  |
| Organism | Bordetella pertussis |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_008459 (39329..39701 [+], 373 nt) |
| oriT length | 373 nt |
| IRs (inverted repeats) | IR1: 64..68, 72..76 (GTGCC..GGCGC) IR2: 89..107, 110..128 (GCGAAGATAGATAACCGGC..GCCGGTTAGCTAACTTCGC) |
| Location of nic site | 136..137 |
| Conserved sequence flanking the nic site |
CATCTTG|C |
| Note | predicted by the oriTfinder |
oriT sequence
Download Length: 373 nt
>oriT_pBP136
CTCGCCTCGTCGTCTCTCTGCCGGCGGTAGCCGGCTGCCTCGCAGAGCAAGATGCCCCGTTGAGTGCCACCGGCGCGAATAAGGGGAAGCGAAGATAGATAACCGGCTTGCCGGTTAGCTAACTTCGCCCATCTTGCCCGCCTTACGGCGTTAATAACGCCAAGGAAAGTCTACACCAGCCACTACGATTTATCCGCAACTATCGCGCTATCAGGCCGCAAAAGCAGCAACGGATATAGCGAAACCTGCCACAATGGCCCATAATGCGGCTGTCGAAGCGTGCCAATGCACGCCGATAGCGGGCTTTTTGCGTTTCCGTAGCGCCGCTTAGTAGCGTTACATTTGCGACGAGAGGATTAGATGGACGAACACG
CTCGCCTCGTCGTCTCTCTGCCGGCGGTAGCCGGCTGCCTCGCAGAGCAAGATGCCCCGTTGAGTGCCACCGGCGCGAATAAGGGGAAGCGAAGATAGATAACCGGCTTGCCGGTTAGCTAACTTCGCCCATCTTGCCCGCCTTACGGCGTTAATAACGCCAAGGAAAGTCTACACCAGCCACTACGATTTATCCGCAACTATCGCGCTATCAGGCCGCAAAAGCAGCAACGGATATAGCGAAACCTGCCACAATGGCCCATAATGCGGCTGTCGAAGCGTGCCAATGCACGCCGATAGCGGGCTTTTTGCGTTTCCGTAGCGCCGCTTAGTAGCGTTACATTTGCGACGAGAGGATTAGATGGACGAACACG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 339 | GenBank | YP_787961 |
| Name | TraI_pBP136 |
UniProt ID | Q08KX8 |
| Length | 745 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 745 a.a. Molecular weight: 82221.09 Da Isoelectric Point: 10.8818
>YP_787961.1 TraI (plasmid) [Bordetella pertussis]
MILKHVPMRSLGKSDFAELANYITDAQSKEHRLGEVRLTNCHAATVGDAITEVLATQHTNTRATGDKTYH
LLVSFPPGENPPAAVLQQVEERVCAALGYSEHQRISAVHNDTDHLHIHIAINKIHPVRNTMHEPFQAYRT
MADIAVKLEKEFGLQQVNHSSKRTLAEGRAGDMEHHAGVESLVGWIRRECLDEITNAQTWQELHQVMREN
GLELRSRANGFVIEASDGTMVKASTVARDLSRPSLEARLGPFEASPERQAQTTAKRQYRKDPIRLRVNTV
ELYAKYRADQQSLTTARGQALERARHRKNRLIEAAKRSHRLRRATIKVVGEGRTTKKLLYAQASKALRSE
IQAINKQFQQERAALYAEHSRRTWVDWLKKEAHHGNTEALAALRAREKAGLKGNTIRGEGQAKPGHAPAV
DNITKKGTIIFRAGMSAVRDDGDRLQVSREATREGLQEALRLAMQRYGNRITVNGTVEFKAQMIRAAVDS
QLPITFTDPALESRRQALLNKENTHERTERPEHRGRTGRGAGGPGQWPLADQHATGAAAVARAGDGRPAA
GRGDRADAGIHAANVHRKPDVGRLGRKPPPQSQHRLRALSELGVVRIAGGSEVLLPRDVPRHVEQQGTQP
DHALRRAISRPGTGVGQTPPGVAAADKYIAEREAKRLKGFDIPKHSRYTAGDGALTFQGTRTIEGQALAL
LKRGDEVMVMPIDQATARRLTRIAVGDAVSITAKGSIKTSKGRSR
MILKHVPMRSLGKSDFAELANYITDAQSKEHRLGEVRLTNCHAATVGDAITEVLATQHTNTRATGDKTYH
LLVSFPPGENPPAAVLQQVEERVCAALGYSEHQRISAVHNDTDHLHIHIAINKIHPVRNTMHEPFQAYRT
MADIAVKLEKEFGLQQVNHSSKRTLAEGRAGDMEHHAGVESLVGWIRRECLDEITNAQTWQELHQVMREN
GLELRSRANGFVIEASDGTMVKASTVARDLSRPSLEARLGPFEASPERQAQTTAKRQYRKDPIRLRVNTV
ELYAKYRADQQSLTTARGQALERARHRKNRLIEAAKRSHRLRRATIKVVGEGRTTKKLLYAQASKALRSE
IQAINKQFQQERAALYAEHSRRTWVDWLKKEAHHGNTEALAALRAREKAGLKGNTIRGEGQAKPGHAPAV
DNITKKGTIIFRAGMSAVRDDGDRLQVSREATREGLQEALRLAMQRYGNRITVNGTVEFKAQMIRAAVDS
QLPITFTDPALESRRQALLNKENTHERTERPEHRGRTGRGAGGPGQWPLADQHATGAAAVARAGDGRPAA
GRGDRADAGIHAANVHRKPDVGRLGRKPPPQSQHRLRALSELGVVRIAGGSEVLLPRDVPRHVEQQGTQP
DHALRRAISRPGTGVGQTPPGVAAADKYIAEREAKRLKGFDIPKHSRYTAGDGALTFQGTRTIEGQALAL
LKRGDEVMVMPIDQATARRLTRIAVGDAVSITAKGSIKTSKGRSR
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | Q08KX8 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 11926..20603
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HXB90_RS00055 (pBP136_p12) | 7011..7439 | - | 429 | WP_011666376 | antirestriction protein | - |
| HXB90_RS00060 (pBP136_p13) | 7596..7892 | + | 297 | WP_011666377 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| HXB90_RS00065 (pBP136_p14) | 7895..8188 | + | 294 | WP_176451041 | addiction module antidote protein | - |
| HXB90_RS00070 (pBP136_p15) | 9526..10749 | - | 1224 | WP_011666379 | plasmid replication initiator TrfA | - |
| HXB90_RS00075 (pBP136_p16) | 10792..11130 | - | 339 | WP_011666380 | single-stranded DNA-binding protein | - |
| HXB90_RS00080 (pBP136_p17) | 11244..11606 | + | 363 | WP_176451039 | transcriptional regulator | - |
| HXB90_RS00085 (pBP136_p18) | 11926..12888 | + | 963 | WP_011666382 | P-type conjugative transfer ATPase TrbB | virB11 |
| HXB90_RS00090 (pBP136_p19) | 12904..13368 | + | 465 | WP_011114046 | conjugal transfer system pilin TrbC | virB2 |
| HXB90_RS00095 (pBP136_p20) | 13372..13683 | + | 312 | WP_001207961 | conjugal transfer protein TrbD | virB3 |
| HXB90_RS00100 (pBP136_p21) | 13680..16238 | + | 2559 | WP_011666383 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| HXB90_RS00105 (pBP136_p22) | 16235..17017 | + | 783 | WP_011666384 | conjugal transfer protein TrbF | virB8 |
| HXB90_RS00110 (pBP136_p23) | 17035..17934 | + | 900 | WP_176451040 | P-type conjugative transfer protein TrbG | virB9 |
| HXB90_RS00115 (pBP136_p24) | 17937..18401 | + | 465 | WP_011666386 | TrbH | - |
| HXB90_RS00120 (pBP136_p25) | 18406..19818 | + | 1413 | WP_011666387 | TrbI/VirB10 family protein | virB10 |
| HXB90_RS00125 (pBP136_p26) | 19839..20603 | + | 765 | WP_011666388 | P-type conjugative transfer protein TrbJ | virB5 |
| HXB90_RS00130 (pBP136_p27) | 20613..20840 | + | 228 | WP_000644148 | entry exclusion lipoprotein TrbK | - |
| HXB90_RS00135 (pBP136_p28) | 20851..22487 | + | 1637 | Protein_27 | P-type conjugative transfer protein TrbL | - |
| HXB90_RS00140 (pBP136_p29) | 22505..23092 | + | 588 | WP_011666390 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| HXB90_RS00145 (pBP136_p30) | 23106..23741 | + | 636 | WP_011666391 | transglycosylase SLT domain-containing protein | - |
| HXB90_RS00150 (pBP136_p31) | 23770..24036 | + | 267 | WP_010890140 | hypothetical protein | - |
| HXB90_RS00155 (pBP136_p32) | 24036..24734 | + | 699 | WP_011666392 | TraX family protein | - |
| HXB90_RS00160 (pBP136_p33) | 24750..25181 | + | 432 | WP_011666393 | OmpA family protein | - |
Host bacterium
| ID | 730 | GenBank | NC_008459 |
| Plasmid name | pBP136 | Incompatibility group | IncP1 |
| Plasmid size | 41268 bp | Coordinate of oriT [Strand] | 39329..39701 [+] |
| Host baterium | Bordetella pertussis |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |