Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 102639 |
| Name | oriT_SYAU4|unnamed1  |
| Organism | Escherichia coli strain SYAU4 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_LNUJ01000036 (2432..2555 [+], 124 nt) |
| oriT length | 124 nt |
| IRs (inverted repeats) | 101..106, 119..124 (TTTAAT..ATTAAA) 91..99, 113..121 (AATAATGTA..TACATTATT) 90..95, 107..112 (AAATAA..TTATTT) 39..46, 49..56 (GCAAAAAC..GTTTTTGC) 3..10, 15..22 (TTGGTGGT..ACCACCAA) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 124 nt
>oriT_SYAU4|unnamed1
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 1589 | GenBank | WP_001064268 |
| Name | traC_AYM09_RS24630_SYAU4|unnamed1 |
UniProt ID | _ |
| Length | 875 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 875 a.a. Molecular weight: 99248.97 Da Isoelectric Point: 6.0801
>WP_001064268.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKNKARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKNKARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 1860..16229
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| AYM09_RS24550 | 102..308 | + | 207 | WP_000547939 | hypothetical protein | - |
| AYM09_RS24555 | 333..620 | + | 288 | WP_000107535 | hypothetical protein | - |
| AYM09_RS24560 | 742..1563 | + | 822 | WP_001234469 | DUF932 domain-containing protein | - |
| AYM09_RS24565 | 1860..2507 | - | 648 | WP_000614936 | transglycosylase SLT domain-containing protein | virB1 |
| AYM09_RS24570 | 2784..3167 | + | 384 | WP_000124981 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| AYM09_RS24575 | 3358..4044 | + | 687 | WP_000332484 | PAS domain-containing protein | - |
| AYM09_RS24580 | 4138..4365 | + | 228 | WP_001254386 | conjugal transfer relaxosome protein TraY | - |
| AYM09_RS24585 | 4399..4758 | + | 360 | WP_000340272 | type IV conjugative transfer system pilin TraA | - |
| AYM09_RS24590 | 4773..5084 | + | 312 | WP_000012106 | type IV conjugative transfer system protein TraL | traL |
| AYM09_RS24595 | 5106..5672 | + | 567 | WP_000399792 | type IV conjugative transfer system protein TraE | traE |
| AYM09_RS24600 | 5659..6387 | + | 729 | WP_001230787 | type-F conjugative transfer system secretin TraK | traK |
| AYM09_RS24605 | 6387..7814 | + | 1428 | WP_000146685 | F-type conjugal transfer pilus assembly protein TraB | traB |
| AYM09_RS24610 | 7804..8376 | + | 573 | WP_000002780 | conjugal transfer pilus-stabilizing protein TraP | - |
| AYM09_RS24615 | 8373..8690 | + | 318 | WP_001057292 | conjugal transfer protein TrbD | virb4 |
| AYM09_RS24620 | 8687..8938 | + | 252 | WP_001038341 | conjugal transfer protein TrbG | - |
| AYM09_RS24625 | 8935..9450 | + | 516 | WP_000809906 | type IV conjugative transfer system lipoprotein TraV | traV |
| AYM09_RS27330 | 9585..9806 | + | 222 | WP_001278689 | conjugal transfer protein TraR | - |
| AYM09_RS24630 | 9966..12593 | + | 2628 | WP_001064268 | type IV secretion system protein TraC | virb4 |
| AYM09_RS24635 | 12590..12976 | + | 387 | WP_000214084 | type-F conjugative transfer system protein TrbI | - |
| AYM09_RS24640 | 12973..13605 | + | 633 | WP_001203745 | type-F conjugative transfer system protein TraW | traW |
| AYM09_RS24645 | 13602..14594 | + | 993 | WP_000830839 | conjugal transfer pilus assembly protein TraU | traU |
| AYM09_RS24650 | 14620..15081 | + | 462 | WP_000277845 | hypothetical protein | - |
| AYM09_RS24655 | 15111..15563 | + | 453 | WP_000069427 | hypothetical protein | - |
| AYM09_RS24660 | 15591..16229 | + | 639 | WP_001104248 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| AYM09_RS24665 | 16226..17086 | + | 861 | Protein_24 | conjugal transfer protein TraN | - |
Host bacterium
| ID | 3083 | GenBank | NZ_LNUJ01000036 |
| Plasmid name | SYAU4|unnamed1 | Incompatibility group | - |
| Plasmid size | 17150 bp | Coordinate of oriT [Strand] | 2432..2555 [+] |
| Host baterium | Escherichia coli strain SYAU4 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |