Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 101573 |
| Name | oriT_pMFDS1016224  |
| Organism | Escherichia coli strain MFDS1016224 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_JAQMVF010000003 (72924..73047 [-], 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_pMFDS1016224
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGTTTTTTTAATCATTAGTTTATGTTCTAAATAATGTATTTTAATTTATTTTACATTATTAAA
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGTTTTTTTAATCATTAGTTTATGTTCTAAATAATGTATTTTAATTTATTTTACATTATTAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1395 | GenBank | WP_096136349 |
| Name | traI_V6M14_RS25970_pMFDS1016224 |
UniProt ID | _ |
| Length | 1756 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1756 a.a. Molecular weight: 192263.11 Da Isoelectric Point: 5.9188
>WP_096136349.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGRNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIEAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLGERKVQFTYTDVLARTVGILPPE
NGVIERVRAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYETEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLLQRSGETPNFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVELPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLQ
DGRTEQAVREIAGQERERAVTSEREAALPESVLREPQREREAVREVVRENLLQERLQQMERDMVRDLQKE
KTLGGD
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGRNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIEAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLGERKVQFTYTDVLARTVGILPPE
NGVIERVRAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYETEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLLQRSGETPNFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVELPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLQ
DGRTEQAVREIAGQERERAVTSEREAALPESVLREPQREREAVREVVRENLLQERLQQMERDMVRDLQKE
KTLGGD
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
Auxiliary protein
| ID | 525 | GenBank | WP_001254386 |
| Name | WP_001254386_pMFDS1016224 |
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 |
| ID | 526 | GenBank | WP_040073112 |
| Name | WP_040073112_pMFDS1016224 |
UniProt ID | _ |
| Length | 127 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 127 a.a. Molecular weight: 14556.62 Da Isoelectric Point: 5.0278
>WP_040073112.1 conjugal transfer relaxosome DNA-binding protein TraM [Escherichia coli]
MARVNLYISNEVHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSIEMDRFFPKNDDE
MARVNLYISNEVHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSIEMDRFFPKNDDE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 1037 | GenBank | WP_001064245 |
| Name | traC_V6M14_RS26075_pMFDS1016224 |
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: 51137..73619
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| V6M14_RS25975 | 46848..47075 | + | 228 | WP_000450532 | toxin-antitoxin system antitoxin VapB | - |
| V6M14_RS25980 | 47075..47473 | + | 399 | WP_000911317 | type II toxin-antitoxin system VapC family toxin | - |
| V6M14_RS25985 | 47482..49634 | - | 2153 | Protein_62 | type IV conjugative transfer system coupling protein TraD | - |
| V6M14_RS25990 | 49886..50617 | - | 732 | WP_024187508 | conjugal transfer complement resistance protein TraT | - |
| V6M14_RS25995 | 50631..51140 | - | 510 | WP_032082913 | conjugal transfer entry exclusion protein TraS | - |
| V6M14_RS26000 | 51137..53962 | - | 2826 | WP_062873763 | conjugal transfer mating-pair stabilization protein TraG | traG |
| V6M14_RS26005 | 53959..55332 | - | 1374 | WP_000944319 | conjugal transfer pilus assembly protein TraH | traH |
| V6M14_RS26010 | 55319..55711 | - | 393 | WP_032082924 | F-type conjugal transfer protein TrbF | - |
| V6M14_RS26015 | 55698..56039 | - | 342 | WP_001442101 | P-type conjugative transfer protein TrbJ | - |
| V6M14_RS26020 | 55969..56514 | - | 546 | WP_032082911 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| V6M14_RS26025 | 56501..56785 | - | 285 | WP_000624108 | type-F conjugative transfer system pilin chaperone TraQ | - |
| V6M14_RS26030 | 56866..57141 | + | 276 | WP_074430089 | toxin ArtA | - |
| V6M14_RS26035 | 57143..57490 | - | 348 | WP_032082949 | conjugal transfer protein TrbA | - |
| V6M14_RS26040 | 57506..58249 | - | 744 | WP_135460420 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| V6M14_RS26045 | 58242..58499 | - | 258 | WP_000864318 | conjugal transfer protein TrbE | - |
| V6M14_RS26050 | 58526..60334 | - | 1809 | WP_032082947 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| V6M14_RS26055 | 60331..60969 | - | 639 | WP_000777695 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| V6M14_RS26060 | 60978..61970 | - | 993 | WP_000830183 | conjugal transfer pilus assembly protein TraU | traU |
| V6M14_RS26065 | 61967..62599 | - | 633 | WP_001203720 | type-F conjugative transfer system protein TraW | traW |
| V6M14_RS26070 | 62596..62982 | - | 387 | WP_032082946 | type-F conjugative transfer system protein TrbI | - |
| V6M14_RS26075 | 62979..65606 | - | 2628 | WP_001064245 | type IV secretion system protein TraC | virb4 |
| V6M14_RS26080 | 65766..65987 | - | 222 | WP_001278689 | conjugal transfer protein TraR | - |
| V6M14_RS26085 | 66122..66637 | - | 516 | WP_000809838 | type IV conjugative transfer system lipoprotein TraV | traV |
| V6M14_RS26090 | 66634..66884 | - | 251 | Protein_83 | conjugal transfer protein TrbG | - |
| V6M14_RS26095 | 66896..67093 | - | 198 | WP_001324648 | conjugal transfer protein TrbD | - |
| V6M14_RS26100 | 67080..67670 | - | 591 | WP_000002787 | conjugal transfer pilus-stabilizing protein TraP | - |
| V6M14_RS26105 | 67660..69087 | - | 1428 | WP_000146685 | F-type conjugal transfer pilus assembly protein TraB | traB |
| V6M14_RS26110 | 69087..69815 | - | 729 | WP_001230787 | type-F conjugative transfer system secretin TraK | traK |
| V6M14_RS26115 | 69802..70368 | - | 567 | WP_000399792 | type IV conjugative transfer system protein TraE | traE |
| V6M14_RS26120 | 70390..70701 | - | 312 | WP_000012106 | type IV conjugative transfer system protein TraL | traL |
| V6M14_RS26125 | 70716..71081 | - | 366 | WP_000340270 | type IV conjugative transfer system pilin TraA | - |
| V6M14_RS26130 | 71115..71342 | - | 228 | WP_001254386 | conjugal transfer relaxosome protein TraY | - |
| V6M14_RS26135 | 71436..72122 | - | 687 | WP_000332492 | PAS domain-containing protein | - |
| V6M14_RS26140 | 72312..72695 | - | 384 | WP_040073112 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| V6M14_RS26145 | 72972..73619 | + | 648 | WP_123007297 | transglycosylase SLT domain-containing protein | virB1 |
| V6M14_RS26150 | 73916..74737 | - | 822 | WP_074014913 | DUF932 domain-containing protein | - |
| V6M14_RS26155 | 74856..75142 | - | 287 | Protein_96 | hypothetical protein | - |
| V6M14_RS26160 | 75167..75373 | - | 207 | WP_000547968 | hypothetical protein | - |
| V6M14_RS26165 | 75443..75616 | + | 174 | Protein_98 | hypothetical protein | - |
| V6M14_RS26170 | 75754..77325 | - | 1572 | WP_000381442 | IS66 family transposase | - |
| V6M14_RS26175 | 77345..77692 | - | 348 | WP_000624618 | IS66 family insertion sequence element accessory protein TnpB | - |
| V6M14_RS26180 | 77692..78342 | - | 651 | WP_000993956 | IS66-like element accessory protein TnpA | - |
Host bacterium
| ID | 2017 | GenBank | NZ_JAQMVF010000003 |
| Plasmid name | pMFDS1016224 | Incompatibility group | IncFII |
| Plasmid size | 86642 bp | Coordinate of oriT [Strand] | 72924..73047 [-] |
| Host baterium | Escherichia coli strain MFDS1016224 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | estIa |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |