Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 101584 |
| Name | oriT_pMFDS1016222  |
| Organism | Escherichia coli strain MFDS1016222 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_JAQMVE010000003 (65890..66013 [+], 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) 41..48, 61..68 (AAAAACAA..TTGTTTTT) 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_pMFDS1016222
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGTTTTTTTAATCATTAGTTTATGTTCTAAATAATGTATTTTAATTTATTTTACATTATTAAA
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGTTTTTTTAATCATTAGTTTATGTTCTAAATAATGTATTTTAATTTATTTTACATTATTAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Auxiliary protein
| ID | 545 | GenBank | WP_032083503 |
| Name | WP_032083503_pMFDS1016222 |
UniProt ID | _ |
| Length | 127 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 127 a.a. Molecular weight: 14584.63 Da Isoelectric Point: 5.0278
>WP_032083503.1 conjugal transfer relaxosome DNA-binding protein TraM [Escherichia coli]
MARVNLYISNEVHEKINMIVERRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSIEMDRFFPKNDDE
MARVNLYISNEVHEKINMIVERRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSIEMDRFFPKNDDE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 546 | GenBank | WP_001254386 |
| Name | WP_001254386_pMFDS1016222 |
UniProt ID | A0A3Z6KJB5 |
| Length | 75 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 75 a.a. Molecular weight: 9005.11 Da Isoelectric Point: 10.1422
>WP_001254386.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Gammaproteobacteria]
MRRRNARGGISRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTEESES
TFKEL
MRRRNARGGISRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTEESES
TFKEL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A3Z6KJB5 |
T4CP
| ID | 1057 | GenBank | WP_062873762 |
| Name | traD_V6M04_RS24965_pMFDS1016222 |
UniProt ID | _ |
| Length | 717 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 717 a.a. Molecular weight: 81434.90 Da Isoelectric Point: 5.0485
>WP_062873762.1 type IV conjugative transfer system coupling protein TraD [Escherichia coli]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAASLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPDMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVN
INVHRERGEDVEPGDDF
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAASLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPDMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVN
INVHRERGEDVEPGDDF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 1058 | GenBank | WP_001064245 |
| Name | traC_V6M04_RS25445_pMFDS1016222 |
UniProt ID | _ |
| Length | 875 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 875 a.a. Molecular weight: 99159.81 Da Isoelectric Point: 5.8486
>WP_001064245.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 65318..84785
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| V6M04_RS25325 | 61284..61718 | + | 435 | WP_000845953 | conjugation system SOS inhibitor PsiB | - |
| V6M04_RS25330 | 61715..62477 | + | 763 | Protein_77 | plasmid SOS inhibition protein A | - |
| V6M04_RS25335 | 62446..62634 | - | 189 | WP_032084246 | hypothetical protein | - |
| V6M04_RS25340 | 62656..62805 | + | 150 | Protein_79 | plasmid maintenance protein Mok | - |
| V6M04_RS25345 | 62747..62872 | + | 126 | WP_001372321 | type I toxin-antitoxin system Hok family toxin | - |
| V6M04_RS25350 | 63092..63322 | + | 231 | WP_074014914 | hypothetical protein | - |
| V6M04_RS25355 | 63320..63493 | - | 174 | Protein_82 | hypothetical protein | - |
| V6M04_RS25360 | 63563..63760 | + | 198 | WP_332829938 | single-stranded DNA-binding protein | - |
| V6M04_RS25365 | 63795..64081 | + | 287 | Protein_84 | hypothetical protein | - |
| V6M04_RS25370 | 64200..65021 | + | 822 | WP_074014913 | DUF932 domain-containing protein | - |
| V6M04_RS25375 | 65318..65965 | - | 648 | WP_123007297 | transglycosylase SLT domain-containing protein | virB1 |
| V6M04_RS25380 | 66242..66625 | + | 384 | WP_032083503 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| V6M04_RS25385 | 66815..67501 | + | 687 | WP_000332492 | PAS domain-containing protein | - |
| V6M04_RS25390 | 67595..67822 | + | 228 | WP_001254386 | conjugal transfer relaxosome protein TraY | - |
| V6M04_RS25395 | 67856..68221 | + | 366 | WP_332829939 | type IV conjugative transfer system pilin TraA | - |
| V6M04_RS25400 | 68236..68547 | + | 312 | WP_000012106 | type IV conjugative transfer system protein TraL | traL |
| V6M04_RS25405 | 68569..69135 | + | 567 | WP_000399792 | type IV conjugative transfer system protein TraE | traE |
| V6M04_RS25410 | 69122..69850 | + | 729 | WP_001230787 | type-F conjugative transfer system secretin TraK | traK |
| V6M04_RS25415 | 69850..71277 | + | 1428 | WP_000146685 | F-type conjugal transfer pilus assembly protein TraB | traB |
| V6M04_RS25420 | 71267..71857 | + | 591 | WP_000002787 | conjugal transfer pilus-stabilizing protein TraP | - |
| V6M04_RS25425 | 71844..72041 | + | 198 | WP_001324648 | conjugal transfer protein TrbD | - |
| V6M04_RS25430 | 72053..72303 | + | 251 | Protein_97 | conjugal transfer protein TrbG | - |
| V6M04_RS25435 | 72300..72815 | + | 516 | WP_000809838 | type IV conjugative transfer system lipoprotein TraV | traV |
| V6M04_RS25440 | 72950..73171 | + | 222 | WP_001278689 | conjugal transfer protein TraR | - |
| V6M04_RS25445 | 73331..75958 | + | 2628 | WP_001064245 | type IV secretion system protein TraC | virb4 |
| V6M04_RS25450 | 75955..76341 | + | 387 | WP_000214096 | type-F conjugative transfer system protein TrbI | - |
| V6M04_RS25455 | 76338..76970 | + | 633 | WP_062873969 | type-F conjugative transfer system protein TraW | traW |
| V6M04_RS25460 | 76967..77959 | + | 993 | WP_021559016 | conjugal transfer pilus assembly protein TraU | traU |
| V6M04_RS25465 | 77968..78606 | + | 639 | WP_282868777 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| V6M04_RS25470 | 78603..80411 | + | 1809 | WP_096111975 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| V6M04_RS25475 | 80438..80695 | + | 258 | WP_000864318 | conjugal transfer protein TrbE | - |
| V6M04_RS25480 | 80688..81431 | + | 744 | WP_123010632 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| V6M04_RS25485 | 81447..81794 | + | 348 | WP_032082949 | conjugal transfer protein TrbA | - |
| V6M04_RS25490 | 81796..82071 | - | 276 | WP_001513501 | hypothetical protein | - |
| V6M04_RS25495 | 82152..82436 | + | 285 | WP_000624108 | type-F conjugative transfer system pilin chaperone TraQ | - |
| V6M04_RS25500 | 82423..82968 | + | 546 | WP_000059818 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| V6M04_RS25505 | 82898..83239 | + | 342 | WP_001442101 | P-type conjugative transfer protein TrbJ | - |
| V6M04_RS25510 | 83226..83618 | + | 393 | WP_282868770 | F-type conjugal transfer protein TrbF | - |
| V6M04_RS25515 | 83605..84785 | + | 1181 | WP_332834651 | conjugal transfer pilus assembly protein TraH | traH |
Host bacterium
| ID | 2028 | GenBank | NZ_JAQMVE010000003 |
| Plasmid name | pMFDS1016222 | Incompatibility group | IncFII |
| Plasmid size | 84785 bp | Coordinate of oriT [Strand] | 65890..66013 [+] |
| Host baterium | Escherichia coli strain MFDS1016222 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | estIa |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |