Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 105186 |
| Name | oriT_pRHBSTW-00039_3  |
| Organism | Klebsiella grimontii strain RHBSTW-00039 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP058182 (61188..61236 [-], 49 nt) |
| oriT length | 49 nt |
| IRs (inverted repeats) | 6..13, 16..23 (GCAAAATT..AATTTTGC) |
| Location of nic site | 32..33 |
| Conserved sequence flanking the nic site |
TGTGTGGTGA |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 49 nt
>oriT_pRHBSTW-00039_3
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 3540 | GenBank | WP_064386203 |
| Name | traD_HV042_RS29920_pRHBSTW-00039_3 |
UniProt ID | _ |
| Length | 772 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 772 a.a. Molecular weight: 86585.38 Da Isoelectric Point: 5.0283
>WP_064386203.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella/Raoultella group]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFIIFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTINYYGKSLEYNSEQILADKYTIWCGEQLWTSFVFAAIVSLTVCIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKHSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDIWRECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFSEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLKNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLGMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDVQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRNLDTRVDARLNALLEAREAEGSLARTLFTPDAPAPELAEKDEKVGNPPEQSQPAE
SSGTSATVKVPSTAKTPEADESGQSPEVSNPAALLTKVVTVPLTRPRPAAATGTAAVASATDVPATPAGG
TEQALETQPAEQGQDMLPPGVNEYGEIDDMHAWDEWQSGEQTQRDMQRREEVNINHSHRRDEQDDIEIGG
NF
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFIIFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTINYYGKSLEYNSEQILADKYTIWCGEQLWTSFVFAAIVSLTVCIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKHSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDIWRECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFSEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLKNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLGMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDVQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRNLDTRVDARLNALLEAREAEGSLARTLFTPDAPAPELAEKDEKVGNPPEQSQPAE
SSGTSATVKVPSTAKTPEADESGQSPEVSNPAALLTKVVTVPLTRPRPAAATGTAAVASATDVPATPAGG
TEQALETQPAEQGQDMLPPGVNEYGEIDDMHAWDEWQSGEQTQRDMQRREEVNINHSHRRDEQDDIEIGG
NF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 63615..92209
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HV042_RS29730 (HV042_29740) | 60056..60598 | + | 543 | WP_053390246 | antirestriction protein | - |
| HV042_RS29735 (HV042_29745) | 60621..61043 | - | 423 | WP_077268549 | transglycosylase SLT domain-containing protein | - |
| HV042_RS29740 (HV042_29750) | 61547..61939 | + | 393 | WP_181334957 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| HV042_RS31310 | 62177..62878 | + | 702 | WP_223174962 | hypothetical protein | - |
| HV042_RS29750 (HV042_29760) | 62964..63164 | + | 201 | WP_048289787 | TraY domain-containing protein | - |
| HV042_RS29755 (HV042_29765) | 63233..63601 | + | 369 | WP_064343525 | type IV conjugative transfer system pilin TraA | - |
| HV042_RS29760 (HV042_29770) | 63615..63920 | + | 306 | WP_064343526 | type IV conjugative transfer system protein TraL | traL |
| HV042_RS29765 (HV042_29775) | 63936..64502 | + | 567 | WP_064359954 | type IV conjugative transfer system protein TraE | traE |
| HV042_RS29770 (HV042_29780) | 64489..65223 | + | 735 | WP_064343528 | type-F conjugative transfer system secretin TraK | traK |
| HV042_RS29775 (HV042_29785) | 65223..66644 | + | 1422 | WP_053390199 | F-type conjugal transfer pilus assembly protein TraB | traB |
| HV042_RS29780 (HV042_29790) | 66637..67071 | + | 435 | WP_020322358 | conjugal transfer protein TraP | - |
| HV042_RS29785 (HV042_29795) | 67105..67689 | + | 585 | WP_064343530 | type IV conjugative transfer system lipoprotein TraV | traV |
| HV042_RS29790 (HV042_29800) | 68302..68490 | + | 189 | WP_053390286 | hypothetical protein | - |
| HV042_RS31315 | 68574..68975 | + | 402 | WP_064343532 | hypothetical protein | - |
| HV042_RS29800 (HV042_29810) | 68972..69271 | + | 300 | WP_053390308 | hypothetical protein | - |
| HV042_RS29805 (HV042_29815) | 69359..69742 | + | 384 | WP_042946290 | hypothetical protein | - |
| HV042_RS29810 (HV042_29820) | 69835..72474 | + | 2640 | WP_064343533 | type IV secretion system protein TraC | virb4 |
| HV042_RS29815 (HV042_29825) | 72474..72866 | + | 393 | WP_064343534 | type-F conjugative transfer system protein TrbI | - |
| HV042_RS29820 (HV042_29830) | 72863..73489 | + | 627 | WP_064343535 | type-F conjugative transfer system protein TraW | traW |
| HV042_RS29825 (HV042_29835) | 73533..74492 | + | 960 | WP_229295972 | conjugal transfer pilus assembly protein TraU | traU |
| HV042_RS29830 (HV042_29840) | 74505..75152 | + | 648 | WP_064343536 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| HV042_RS29835 (HV042_29845) | 75149..75532 | + | 384 | WP_053390297 | hypothetical protein | - |
| HV042_RS29840 (HV042_29850) | 75529..77484 | + | 1956 | WP_080848160 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| HV042_RS29845 (HV042_29855) | 77516..77776 | + | 261 | WP_053390216 | hypothetical protein | - |
| HV042_RS29850 (HV042_29860) | 77769..78380 | + | 612 | WP_053390217 | hypothetical protein | - |
| HV042_RS29855 (HV042_29865) | 78370..78612 | + | 243 | WP_053390218 | conjugal transfer protein TrbE | - |
| HV042_RS29860 (HV042_29870) | 78658..78984 | + | 327 | WP_053390219 | hypothetical protein | - |
| HV042_RS29865 (HV042_29875) | 79005..79757 | + | 753 | WP_064386181 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| HV042_RS29870 (HV042_29880) | 80171..80530 | - | 360 | WP_064386183 | hypothetical protein | - |
| HV042_RS29875 (HV042_29885) | 80596..81564 | + | 969 | WP_074181092 | IS5 family transposase | - |
| HV042_RS29880 (HV042_29890) | 81685..81921 | + | 237 | WP_064386186 | type-F conjugative transfer system pilin chaperone TraQ | - |
| HV042_RS29885 (HV042_29895) | 81896..82462 | + | 567 | WP_100663597 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| HV042_RS29890 (HV042_29900) | 82455..82883 | + | 429 | WP_100663598 | conjugal transfer protein TrbF | - |
| HV042_RS29895 (HV042_29905) | 82870..84240 | + | 1371 | WP_064386191 | conjugal transfer pilus assembly protein TraH | traH |
| HV042_RS29900 (HV042_29910) | 84240..87119 | + | 2880 | WP_064386194 | conjugal transfer mating-pair stabilization protein TraG | traG |
| HV042_RS29905 (HV042_29915) | 87136..87804 | + | 669 | WP_128317877 | hypothetical protein | - |
| HV042_RS29910 (HV042_29920) | 88157..88888 | + | 732 | WP_064386198 | conjugal transfer complement resistance protein TraT | - |
| HV042_RS31320 | 89080..89772 | + | 693 | WP_202395549 | hypothetical protein | - |
| HV042_RS29920 (HV042_29930) | 89891..92209 | + | 2319 | WP_064386203 | type IV conjugative transfer system coupling protein TraD | virb4 |
Host bacterium
| ID | 5624 | GenBank | NZ_CP058182 |
| Plasmid name | pRHBSTW-00039_3 | Incompatibility group | Col440I |
| Plasmid size | 103340 bp | Coordinate of oriT [Strand] | 61188..61236 [-] |
| Host baterium | Klebsiella grimontii strain RHBSTW-00039 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |