Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 102414 |
| Name | oriT_SMG001F1|unnamed1  |
| Organism | Escherichia coli strain SMG001F1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_JAKVSL010000025 (27149..27500 [-], 352 nt) |
| oriT length | 352 nt |
| IRs (inverted repeats) | 255..262, 271..278 (ACCGCTAG..CTAGCGGT) 192..198, 206..212 (TATAAAA..TTTTATA) 40..46, 51..57 (GCAAAAA..TTTTTGC) 4..11, 16..23 (TTGGTGGT..ACCACCAA) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 352 nt
>oriT_SMG001F1|unnamed1
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAATTTTTTGCTGATTTTTCTTTATAAATAGAGTGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATCATTTTATATTAGGGGCGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGTATTATGAATTTTAGTGTTCCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAATTTTTTGCTGATTTTTCTTTATAAATAGAGTGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATCATTTTATATTAGGGGCGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGTATTATGAATTTTAGTGTTCCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 1390 | GenBank | WP_000069771 |
| Name | traC_ML381_RS22605_SMG001F1|unnamed1 |
UniProt ID | _ |
| Length | 876 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 876 a.a. Molecular weight: 99316.14 Da Isoelectric Point: 6.4096
>WP_000069771.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASFHGAKITTQTVDAQAFIEIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRTLKKLNVIDEGW
RLLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASFHGAKITTQTVDAQAFIEIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRTLKKLNVIDEGW
RLLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 2367..28071
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ML381_RS22490 (ML381_22490) | 1..96 | + | 96 | WP_024202152 | transposase domain-containing protein | - |
| ML381_RS22495 (ML381_22495) | 148..885 | - | 738 | WP_000199901 | hypothetical protein | - |
| ML381_RS22500 (ML381_22500) | 1088..1819 | - | 732 | WP_000850422 | conjugal transfer complement resistance protein TraT | - |
| ML381_RS22505 (ML381_22505) | 1851..2348 | - | 498 | WP_000605862 | entry exclusion protein | - |
| ML381_RS22510 (ML381_22510) | 2367..5186 | - | 2820 | WP_001537571 | conjugal transfer mating-pair stabilization protein TraG | traG |
| ML381_RS22515 (ML381_22515) | 5183..6556 | - | 1374 | WP_000944331 | conjugal transfer pilus assembly protein TraH | traH |
| ML381_RS22520 (ML381_22520) | 6543..6935 | - | 393 | WP_000138369 | F-type conjugal transfer protein TrbF | - |
| ML381_RS22525 (ML381_22525) | 6889..7203 | - | 315 | WP_001336805 | P-type conjugative transfer protein TrbJ | - |
| ML381_RS22530 (ML381_22530) | 7193..7738 | - | 546 | WP_000059830 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| ML381_RS22535 (ML381_22535) | 7725..8009 | - | 285 | WP_000624194 | type-F conjugative transfer system pilin chaperone TraQ | - |
| ML381_RS22540 (ML381_22540) | 8090..8350 | + | 261 | WP_000736412 | hypothetical protein | - |
| ML381_RS22545 (ML381_22545) | 8406..8747 | - | 342 | WP_000556795 | conjugal transfer protein TrbA | - |
| ML381_RS22550 (ML381_22550) | 8761..9504 | - | 744 | WP_001030371 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| ML381_RS22555 (ML381_22555) | 9497..9754 | - | 258 | WP_000864310 | conjugal transfer protein TrbE | - |
| ML381_RS22560 (ML381_22560) | 9781..11631 | - | 1851 | WP_000826177 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| ML381_RS22565 (ML381_22565) | 11628..12050 | - | 423 | WP_001229309 | HNH endonuclease signature motif containing protein | - |
| ML381_RS22570 (ML381_22570) | 12075..12446 | - | 372 | WP_000174465 | hypothetical protein | - |
| ML381_RS22575 (ML381_22575) | 12443..13081 | - | 639 | WP_000087539 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| ML381_RS22580 (ML381_22580) | 13108..13626 | - | 519 | WP_000009088 | hypothetical protein | - |
| ML381_RS22585 (ML381_22585) | 13689..13997 | - | 309 | WP_000412445 | hypothetical protein | - |
| ML381_RS22590 (ML381_22590) | 14024..15016 | - | 993 | WP_000830838 | conjugal transfer pilus assembly protein TraU | traU |
| ML381_RS22595 (ML381_22595) | 15013..15645 | - | 633 | WP_001203720 | type-F conjugative transfer system protein TraW | traW |
| ML381_RS22600 (ML381_22600) | 15642..16028 | - | 387 | WP_000214084 | type-F conjugative transfer system protein TrbI | - |
| ML381_RS22605 (ML381_22605) | 16025..18655 | - | 2631 | WP_000069771 | type IV secretion system protein TraC | virb4 |
| ML381_RS27085 | 18781..18994 | - | 214 | Protein_24 | hypothetical protein | - |
| ML381_RS22610 (ML381_22610) | 19022..19240 | - | 219 | WP_000556746 | hypothetical protein | - |
| ML381_RS22615 (ML381_22615) | 19320..19793 | - | 474 | WP_000549566 | hypothetical protein | - |
| ML381_RS22620 (ML381_22620) | 19786..20199 | - | 414 | WP_000549574 | hypothetical protein | - |
| ML381_RS22625 (ML381_22625) | 20192..20413 | - | 222 | WP_001278695 | conjugal transfer protein TraR | - |
| ML381_RS22630 (ML381_22630) | 20548..21063 | - | 516 | WP_000809872 | type IV conjugative transfer system lipoprotein TraV | traV |
| ML381_RS22635 (ML381_22635) | 21063..21380 | - | 318 | WP_001057297 | conjugal transfer protein TrbD | - |
| ML381_RS22640 (ML381_22640) | 21367..21933 | - | 567 | WP_000896598 | conjugal transfer pilus-stabilizing protein TraP | - |
| ML381_RS22645 (ML381_22645) | 21923..23374 | - | 1452 | WP_000146675 | F-type conjugal transfer pilus assembly protein TraB | traB |
| ML381_RS22650 (ML381_22650) | 23374..24102 | - | 729 | WP_001230767 | type-F conjugative transfer system secretin TraK | traK |
| ML381_RS22655 (ML381_22655) | 24089..24655 | - | 567 | WP_000399780 | type IV conjugative transfer system protein TraE | traE |
| ML381_RS22660 (ML381_22660) | 24677..24988 | - | 312 | WP_000012100 | type IV conjugative transfer system protein TraL | traL |
| ML381_RS22665 (ML381_22665) | 25003..25362 | - | 360 | WP_001099001 | type IV conjugative transfer system pilin TraA | - |
| ML381_RS22670 (ML381_22670) | 25395..25790 | - | 396 | WP_001309237 | conjugal transfer relaxosome DNA-bindin protein TraY | - |
| ML381_RS22675 (ML381_22675) | 25889..26578 | - | 690 | WP_000283387 | conjugal transfer transcriptional regulator TraJ | - |
| ML381_RS22680 (ML381_22680) | 26765..27148 | - | 384 | WP_001151538 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| ML381_RS22685 (ML381_22685) | 27562..28071 | + | 510 | WP_000759173 | transglycosylase SLT domain-containing protein | virB1 |
| ML381_RS22690 (ML381_22690) | 28368..29189 | - | 822 | WP_001234445 | DUF932 domain-containing protein | - |
| ML381_RS22695 (ML381_22695) | 29299..29595 | - | 297 | WP_001545326 | hypothetical protein | - |
| ML381_RS22700 (ML381_22700) | 29895..30191 | + | 297 | Protein_43 | hypothetical protein | - |
| ML381_RS22705 (ML381_22705) | 30492..30617 | - | 126 | WP_001372321 | type I toxin-antitoxin system Hok family toxin | - |
| ML381_RS22710 (ML381_22710) | 30559..30708 | - | 150 | Protein_45 | plasmid maintenance protein Mok | - |
| ML381_RS22715 (ML381_22715) | 30730..30909 | + | 180 | WP_001309233 | hypothetical protein | - |
| ML381_RS22720 (ML381_22720) | 30887..31649 | - | 763 | Protein_47 | plasmid SOS inhibition protein A | - |
| ML381_RS22725 (ML381_22725) | 31646..32080 | - | 435 | WP_000845953 | conjugation system SOS inhibitor PsiB | - |
Host bacterium
| ID | 2858 | GenBank | NZ_JAKVSL010000025 |
| Plasmid name | SMG001F1|unnamed1 | Incompatibility group | IncFIB |
| Plasmid size | 55855 bp | Coordinate of oriT [Strand] | 27149..27500 [-] |
| Host baterium | Escherichia coli strain SMG001F1 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |