Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 119902 |
| Name | oriT_EMBL-1|unnamed1  |
| Organism | Klebsiella variicola strain EMBL-1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP079803 (57912..57961 [-], 50 nt) |
| oriT length | 50 nt |
| IRs (inverted repeats) | 7..14, 17..24 (GCAAAATT..AATTTTGC) |
| Location of nic site | 33..34 |
| Conserved sequence flanking the nic site |
GGTGTGGTGA |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 50 nt
>oriT_EMBL-1|unnamed1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 14762 | GenBank | WP_060598860 |
| Name | traD_KU883_RS27785_EMBL-1|unnamed1 |
UniProt ID | _ |
| Length | 766 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 766 a.a. Molecular weight: 85363.18 Da Isoelectric Point: 4.9167
>WP_060598860.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGEQPELASQPA
PAEVTVSPAPVKAPATTTMPAAEPSPRTAEPPVLRVTTVPLIKPKAAAAASTASSAGNPAAAAGGTEQEL
AQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGEQPELASQPA
PAEVTVSPAPVKAPATTTMPAAEPSPRTAEPPVLRVTTVPLIKPKAAAAASTASSAGNPAAAAGGTEQEL
AQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 60419..88060
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| KU883_RS27590 (KU883_27575) | 56792..57322 | + | 531 | WP_077138878 | antirestriction protein | - |
| KU883_RS27595 (KU883_27580) | 57360..57767 | - | 408 | WP_224230374 | transglycosylase SLT domain-containing protein | - |
| KU883_RS27600 (KU883_27585) | 58261..58659 | + | 399 | WP_077138880 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| KU883_RS27605 (KU883_27590) | 58832..59518 | + | 687 | WP_060598875 | transcriptional regulator TraJ family protein | - |
| KU883_RS27610 (KU883_27595) | 59597..59983 | + | 387 | WP_004152495 | TraY domain-containing protein | - |
| KU883_RS27615 (KU883_27600) | 60037..60405 | + | 369 | WP_049155512 | type IV conjugative transfer system pilin TraA | - |
| KU883_RS27620 (KU883_27605) | 60419..60724 | + | 306 | WP_004178059 | type IV conjugative transfer system protein TraL | traL |
| KU883_RS27625 (KU883_27610) | 60744..61310 | + | 567 | WP_004194424 | type IV conjugative transfer system protein TraE | traE |
| KU883_RS27630 (KU883_27615) | 61297..62037 | + | 741 | WP_060598874 | type-F conjugative transfer system secretin TraK | traK |
| KU883_RS27635 (KU883_27620) | 62037..63461 | + | 1425 | WP_060598873 | F-type conjugal transfer pilus assembly protein TraB | traB |
| KU883_RS27640 (KU883_27625) | 63454..64050 | + | 597 | WP_060598872 | conjugal transfer pilus-stabilizing protein TraP | - |
| KU883_RS27645 (KU883_27630) | 64073..64657 | + | 585 | WP_060598871 | type IV conjugative transfer system lipoprotein TraV | traV |
| KU883_RS27650 (KU883_27635) | 64789..65199 | + | 411 | WP_060598870 | hypothetical protein | - |
| KU883_RS27655 (KU883_27640) | 65204..65488 | + | 285 | WP_060598886 | hypothetical protein | - |
| KU883_RS27660 (KU883_27645) | 65512..65736 | + | 225 | WP_060598869 | hypothetical protein | - |
| KU883_RS27665 (KU883_27650) | 65729..66040 | + | 312 | WP_077138882 | hypothetical protein | - |
| KU883_RS27670 (KU883_27655) | 66107..66511 | + | 405 | WP_060598867 | hypothetical protein | - |
| KU883_RS27675 (KU883_27660) | 66554..66877 | + | 324 | WP_072124277 | hypothetical protein | - |
| KU883_RS27680 (KU883_27665) | 66885..67283 | + | 399 | WP_072198239 | hypothetical protein | - |
| KU883_RS27685 (KU883_27670) | 67355..69994 | + | 2640 | WP_219163328 | type IV secretion system protein TraC | virb4 |
| KU883_RS27690 (KU883_27675) | 69994..70383 | + | 390 | WP_020803372 | type-F conjugative transfer system protein TrbI | - |
| KU883_RS27695 (KU883_27680) | 70383..71009 | + | 627 | WP_020314628 | type-F conjugative transfer system protein TraW | traW |
| KU883_RS27700 (KU883_27685) | 71053..72012 | + | 960 | WP_029497356 | conjugal transfer pilus assembly protein TraU | traU |
| KU883_RS27705 (KU883_27690) | 72027..72575 | + | 549 | WP_022631518 | hypothetical protein | - |
| KU883_RS27710 (KU883_27695) | 72550..73239 | - | 690 | WP_032427592 | hypothetical protein | - |
| KU883_RS27715 (KU883_27700) | 73296..73898 | + | 603 | WP_077138883 | hypothetical protein | - |
| KU883_RS27720 (KU883_27705) | 74043..74690 | + | 648 | WP_039698503 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| KU883_RS27725 (KU883_27710) | 74749..76704 | + | 1956 | WP_060598862 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| KU883_RS27730 (KU883_27715) | 76737..77018 | + | 282 | WP_022644736 | hypothetical protein | - |
| KU883_RS27735 (KU883_27720) | 77008..77235 | + | 228 | WP_012540032 | conjugal transfer protein TrbE | - |
| KU883_RS27740 (KU883_27725) | 77246..77572 | + | 327 | WP_012539967 | hypothetical protein | - |
| KU883_RS27745 (KU883_27730) | 77593..78345 | + | 753 | WP_004152677 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| KU883_RS27750 (KU883_27735) | 78356..78595 | + | 240 | WP_023340931 | type-F conjugative transfer system pilin chaperone TraQ | - |
| KU883_RS27755 (KU883_27740) | 78567..79124 | + | 558 | WP_032433944 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| KU883_RS27760 (KU883_27745) | 79170..79613 | + | 444 | WP_040172400 | F-type conjugal transfer protein TrbF | - |
| KU883_RS27765 (KU883_27750) | 79591..80970 | + | 1380 | WP_072198238 | conjugal transfer pilus assembly protein TraH | traH |
| KU883_RS27770 (KU883_27755) | 80970..83792 | + | 2823 | WP_060598861 | conjugal transfer mating-pair stabilization protein TraG | traG |
| KU883_RS27775 (KU883_27760) | 83816..84418 | + | 603 | WP_048263624 | hypothetical protein | - |
| KU883_RS27780 (KU883_27765) | 84669..85400 | + | 732 | WP_016831056 | conjugal transfer complement resistance protein TraT | - |
| KU883_RS27785 (KU883_27770) | 85760..88060 | + | 2301 | WP_060598860 | type IV conjugative transfer system coupling protein TraD | virb4 |
Host bacterium
| ID | 20332 | GenBank | NZ_CP079803 |
| Plasmid name | EMBL-1|unnamed1 | Incompatibility group | IncFIA |
| Plasmid size | 98922 bp | Coordinate of oriT [Strand] | 57912..57961 [-] |
| Host baterium | Klebsiella variicola strain EMBL-1 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |