Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 101576 |
| Name | oriT_pMFDS1014122  |
| Organism | Escherichia coli strain MFDS1014122 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_JAQMUX010000002 (95689..95812 [-], 124 nt) |
| oriT length | 124 nt |
| IRs (inverted repeats) | 92..99, 113..120 (ATAATGTA..TACATTAT) 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_pMFDS1014122
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGTATTTAGAATCATCATGTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATAAAA
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGTATTTAGAATCATCATGTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATAAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Auxiliary protein
| ID | 531 | GenBank | WP_047670840 |
| Name | WP_047670840_pMFDS1014122 |
UniProt ID | A0A4C9I5X4 |
| Length | 75 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 75 a.a. Molecular weight: 9037.06 Da Isoelectric Point: 10.0297
>WP_047670840.1 conjugal transfer relaxosome protein TraY [Escherichia coli]
MRRRNARGGTSRTVSVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRYPDFYNEEIFREVTEESES
TFKEL
MRRRNARGGTSRTVSVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRYPDFYNEEIFREVTEESES
TFKEL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A4C9I5X4 |
| ID | 532 | GenBank | WP_047671111 |
| Name | WP_047671111_pMFDS1014122 |
UniProt ID | A0A4D1P4A9 |
| Length | 128 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 128 a.a. Molecular weight: 14608.73 Da Isoelectric Point: 4.7116
>WP_047671111.1 conjugal transfer relaxosome DNA-binding protein TraM [Escherichia coli]
MARVILYISNDVYDKVNAIVEKRRQEGARDKEISISGTASMLLELGLRVYEAQMECKESSFNQTEFNKVL
LECVVKTQSSVAKILGIESLSPHIAGNPKFEYANMVEDIREKVSIEMDRFFPKIDNEE
MARVILYISNDVYDKVNAIVEKRRQEGARDKEISISGTASMLLELGLRVYEAQMECKESSFNQTEFNKVL
LECVVKTQSSVAKILGIESLSPHIAGNPKFEYANMVEDIREKVSIEMDRFFPKIDNEE
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A4D1P4A9 |
T4CP
| ID | 1042 | GenBank | WP_135564103 |
| Name | traC_V6M10_RS25835_pMFDS1014122 |
UniProt ID | _ |
| Length | 875 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 875 a.a. Molecular weight: 99420.17 Da Isoelectric Point: 6.0813
>WP_135564103.1 type IV secretion system protein TraC [Escherichia coli]
MNNPLEAVTQAVNSLLTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDITMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNARDNDQYAESPTIRSRLDEMIVLLDQYT
SNGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNFKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSIA
MNNPLEAVTQAVNSLLTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDITMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNARDNDQYAESPTIRSRLDEMIVLLDQYT
SNGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNFKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSIA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 70100..96384
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| V6M10_RS25700 | 65498..65848 | + | 351 | WP_000624677 | IS66 family insertion sequence element accessory protein TnpB | - |
| V6M10_RS25705 | 65879..67471 | + | 1593 | WP_000080223 | IS66 family transposase | - |
| V6M10_RS25710 | 67475..67588 | - | 114 | WP_231529310 | conjugal transfer protein TraD | - |
| V6M10_RS25715 | 67644..68361 | - | 718 | Protein_81 | hypothetical protein | - |
| V6M10_RS25720 | 68529..68789 | - | 261 | WP_135564096 | hypothetical protein | - |
| V6M10_RS25725 | 68849..69580 | - | 732 | WP_332832752 | conjugal transfer complement resistance protein TraT | - |
| V6M10_RS25730 | 69594..70103 | - | 510 | WP_332832753 | conjugal transfer entry exclusion protein TraS | - |
| V6M10_RS25735 | 70100..72925 | - | 2826 | WP_332832754 | conjugal transfer mating-pair stabilization protein TraG | traG |
| V6M10_RS25740 | 72922..74295 | - | 1374 | WP_135564106 | conjugal transfer pilus assembly protein TraH | traH |
| V6M10_RS25745 | 74282..74674 | - | 393 | WP_250204681 | F-type conjugal transfer protein TrbF | - |
| V6M10_RS25750 | 74628..74942 | - | 315 | WP_001244894 | P-type conjugative transfer protein TrbJ | - |
| V6M10_RS25755 | 74932..75468 | - | 537 | WP_040091329 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| V6M10_RS25760 | 75455..75736 | - | 282 | WP_000049684 | type-F conjugative transfer system pilin chaperone TraQ | - |
| V6M10_RS25765 | 76116..76479 | - | 364 | Protein_91 | hypothetical protein | - |
| V6M10_RS25770 | 76493..77236 | - | 744 | WP_040091331 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| V6M10_RS25775 | 77229..77486 | - | 258 | WP_332832755 | conjugal transfer protein TrbE | - |
| V6M10_RS25780 | 77500..78300 | - | 801 | Protein_94 | conjugal transfer protein TraN | - |
| V6M10_RS25785 | 78359..79153 | - | 795 | WP_000544800 | IS21-like element helper ATPase IstB | - |
| V6M10_RS25790 | 79153..80325 | - | 1173 | WP_000952431 | IS21-like element ISEc62 family transposase | - |
| V6M10_RS25795 | 80427..81533 | - | 1107 | Protein_97 | conjugal transfer protein TraN | - |
| V6M10_RS25800 | 81558..81779 | + | 222 | WP_135276000 | hypothetical protein | - |
| V6M10_RS25805 | 81768..82148 | - | 381 | WP_024213661 | hypothetical protein | - |
| V6M10_RS25810 | 82145..82783 | - | 639 | WP_047670815 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| V6M10_RS25815 | 82810..83328 | - | 519 | WP_047670817 | hypothetical protein | - |
| V6M10_RS25820 | 83901..84893 | - | 993 | WP_047670819 | conjugal transfer pilus assembly protein TraU | traU |
| V6M10_RS25825 | 84890..85522 | - | 633 | WP_047670821 | type-F conjugative transfer system protein TraW | traW |
| V6M10_RS25830 | 85519..85905 | - | 387 | WP_047670823 | type-F conjugative transfer system protein TrbI | - |
| V6M10_RS25835 | 85902..88529 | - | 2628 | WP_135564103 | type IV secretion system protein TraC | virb4 |
| V6M10_RS25840 | 88689..88910 | - | 222 | WP_332832756 | conjugal transfer protein TraR | - |
| V6M10_RS25845 | 89045..89560 | - | 516 | WP_135564104 | type IV conjugative transfer system lipoprotein TraV | traV |
| V6M10_RS25850 | 89557..89877 | - | 321 | WP_135564105 | conjugal transfer protein TrbD | - |
| V6M10_RS25855 | 89864..90451 | - | 588 | WP_047670832 | conjugal transfer pilus-stabilizing protein TraP | - |
| V6M10_RS25860 | 90441..91859 | - | 1419 | WP_047670834 | F-type conjugal transfer pilus assembly protein TraB | traB |
| V6M10_RS25865 | 91859..92587 | - | 729 | WP_001355329 | type-F conjugative transfer system secretin TraK | traK |
| V6M10_RS25870 | 92574..93140 | - | 567 | WP_000399757 | type IV conjugative transfer system protein TraE | traE |
| V6M10_RS25875 | 93162..93473 | - | 312 | WP_000012108 | type IV conjugative transfer system protein TraL | traL |
| V6M10_RS25880 | 93488..93847 | - | 360 | WP_000340268 | type IV conjugative transfer system pilin TraA | - |
| V6M10_RS25885 | 93881..94108 | - | 228 | WP_047670840 | conjugal transfer relaxosome protein TraY | - |
| V6M10_RS25890 | 94196..94885 | - | 690 | WP_000332474 | PAS domain-containing protein | - |
| V6M10_RS25895 | 95075..95461 | - | 387 | WP_047671111 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| V6M10_RS25900 | 95737..96384 | + | 648 | WP_332832772 | transglycosylase SLT domain-containing protein | virB1 |
| V6M10_RS25905 | 96681..97502 | - | 822 | WP_332832757 | DUF932 domain-containing protein | - |
| V6M10_RS25910 | 97621..97908 | - | 288 | WP_000107542 | hypothetical protein | - |
| V6M10_RS25915 | 98159..99163 | + | 1005 | WP_332832773 | IS110 family transposase | - |
| V6M10_RS25920 | 99257..99517 | - | 261 | WP_000547943 | hypothetical protein | - |
| V6M10_RS25925 | 100212..100337 | - | 126 | WP_001372321 | type I toxin-antitoxin system Hok family toxin | - |
| V6M10_RS25930 | 100279..100428 | - | 150 | Protein_124 | plasmid maintenance protein Mok | - |
| V6M10_RS25935 | 100450..100638 | + | 189 | WP_032189914 | hypothetical protein | - |
| V6M10_RS25940 | 100583..101369 | - | 787 | Protein_126 | plasmid SOS inhibition protein A | - |
Host bacterium
| ID | 2020 | GenBank | NZ_JAQMUX010000002 |
| Plasmid name | pMFDS1014122 | Incompatibility group | IncFIB |
| Plasmid size | 235829 bp | Coordinate of oriT [Strand] | 95689..95812 [-] |
| Host baterium | Escherichia coli strain MFDS1014122 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | estIa, faeJ, faeI, faeH, faeF, faeE, faeD, faeC, espP |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrIF11 |