Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200416 |
| Name | oriT_Tn6862  |
| Organism | Providencia rettgeri strain PROV023 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | CP059348 (5646..5944 [+], 299 nt) |
| oriT length | 299 nt |
| IRs (inverted repeats) | 234..242, 254..262 (AAAGCCAAA..TTTGGCTTT) 45..50, 52..57 (CAAACG..CGTTTG) 7..12, 26..31 (TTTGGC..GCCAAA) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 299 nt
>oriT_Tn6862
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14444 | GenBank | QLR05424 |
| Name | TraI_2_H0913_03365_Tn6862 |
UniProt ID | _ |
| Length | 716 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 716 a.a. Molecular weight: 79746.90 Da Isoelectric Point: 5.1002
>QLR05424.1 TraI domain-containing protein [Providencia rettgeri]
MFKNLFFQTKALPELSSQLDTEIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNQRDFQRLIQPC
IDHLASYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWIRKSNQSTNLYLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLATKSA
SNERYESLAPEVLIKDGKPIWLPMLHISEADLLFSSNVPSCVTLFNKSEWEATQQTQAEPQSRSSEHSDL
PEASLSIELSNSAESPSTNSSEQDDELCHACDVNHLQATENAPGDECEKPNNSYDGAISNNVSQQNEAAL
TPPESLAWLPEASSALVIVGEQILIRYPDAVRPWCAPRKLLAELSRLDWLELDPANPTRKARTVTTKDGV
QEQGLLLKVSISKGLTSLIDLPKQDAESAAAIQNEEASPRPSRTETTNAQAKEPAKRAERKQKPIAPNAN
SITDPKHEQRQKMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANEHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAKR
MFKNLFFQTKALPELSSQLDTEIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNQRDFQRLIQPC
IDHLASYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWIRKSNQSTNLYLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLATKSA
SNERYESLAPEVLIKDGKPIWLPMLHISEADLLFSSNVPSCVTLFNKSEWEATQQTQAEPQSRSSEHSDL
PEASLSIELSNSAESPSTNSSEQDDELCHACDVNHLQATENAPGDECEKPNNSYDGAISNNVSQQNEAAL
TPPESLAWLPEASSALVIVGEQILIRYPDAVRPWCAPRKLLAELSRLDWLELDPANPTRKARTVTTKDGV
QEQGLLLKVSISKGLTSLIDLPKQDAESAAAIQNEEASPRPSRTETTNAQAKEPAKRAERKQKPIAPNAN
SITDPKHEQRQKMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANEHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAKR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16981 | GenBank | QLR05425 |
| Name | traD_H0913_03370_Tn6862 |
UniProt ID | _ |
| Length | 606 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 606 a.a. Molecular weight: 67028.85 Da Isoelectric Point: 6.6970
>QLR05425.1 conjugative transfer system coupling protein TraD [Providencia rettgeri]
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLHKLQKG
LKGKPLAFMALSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNQGHGKQMGSTWIHGVE
PKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
ERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLHKLQKG
LKGKPLAFMALSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNQGHGKQMGSTWIHGVE
PKEEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
ERFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FAARTGSEAKARQVLGNINNLIALRVMDAETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 16982 | GenBank | QLR05437 |
| Name | traC_H0913_03435_Tn6862 |
UniProt ID | _ |
| Length | 799 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 799 a.a. Molecular weight: 90071.64 Da Isoelectric Point: 6.1301
>QLR05437.1 type IV secretion system protein TraC [Providencia rettgeri]
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSAGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTERELSRASALRASFSQALATVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAEAM
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMTLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGDFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAAA
LKNHEDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSAGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTERELSRASALRASFSQALATVGFRVTEMTDRNWLAALSAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAEAM
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMTLTLFSPTEEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGDFLQ
FGRDSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAAA
LKNHEDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 757169..776319
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| H0913_03350 | 753148..754002 | + | 855 | QLR05421 | restriction endonuclease | - |
| H0913_03355 | 754096..754377 | + | 282 | QLR05422 | hypothetical protein | - |
| H0913_03360 | 754377..754850 | + | 474 | QLR05423 | hypothetical protein | - |
| H0913_03365 | 754970..757120 | + | 2151 | QLR05424 | TraI domain-containing protein | - |
| H0913_03370 | 757169..758989 | + | 1821 | QLR05425 | conjugative transfer system coupling protein TraD | virb4 |
| H0913_03375 | 758999..759559 | + | 561 | QLR05426 | conjugative transfer protein | - |
| H0913_03380 | 759546..760181 | + | 636 | QLR05427 | DUF4400 domain-containing protein | tfc7 |
| H0913_03385 | 760208..760795 | - | 588 | QLR05428 | plasmid-related protein | - |
| H0913_03390 | 761084..761365 | + | 282 | QLR05429 | type IV conjugative transfer system protein TraL | traL |
| H0913_03395 | 761362..761988 | + | 627 | QLR05430 | pilus assembly protein | traE |
| H0913_03400 | 761972..762868 | + | 897 | QLR06532 | type-F conjugative transfer system secretin TraK | traK |
| H0913_03405 | 762871..764160 | + | 1290 | QLR05431 | conjugal transfer protein TraB | traB |
| H0913_03410 | 764235..764807 | + | 573 | QLR05432 | type IV conjugative transfer system lipoprotein TraV | traV |
| H0913_03415 | 764804..765190 | + | 387 | QLR05433 | hypothetical protein | - |
| H0913_03420 | 765462..766118 | - | 657 | QLR05434 | hypothetical protein | - |
| H0913_03425 | 766162..766308 | - | 147 | QLR05435 | hypothetical protein | - |
| H0913_03430 | 766550..767242 | + | 693 | QLR05436 | DsbC family protein | trbB |
| H0913_03435 | 767242..769641 | + | 2400 | QLR05437 | type IV secretion system protein TraC | virb4 |
| H0913_03440 | 769634..769981 | + | 348 | QLR05438 | plasmid-related protein | - |
| H0913_03445 | 769965..770477 | + | 513 | QLR05439 | S26 family signal peptidase | - |
| H0913_03450 | 770488..771612 | + | 1125 | QLR06533 | pilus assembly protein | traW |
| H0913_03455 | 771596..772624 | + | 1029 | QLR05440 | TraU family protein | traU |
| H0913_03460 | 772627..776319 | + | 3693 | QLR05441 | conjugal transfer protein TraN | traN |
| H0913_03465 | 776442..778118 | - | 1677 | QLR05442 | ATP-dependent helicase | - |
| H0913_03470 | 778115..780040 | - | 1926 | QLR05443 | AAA family ATPase | - |
Host bacterium
| ID | 371 | Element type | ICE (Integrative and conjugative element) |
| Element name | Tn6862 | GenBank | CP059348 |
| Element size | 4023756 bp | Coordinate of oriT [Strand] | 5646..5944 [+] |
| Host bacterium | Providencia rettgeri strain PROV023 | Coordinate of element | 704853..810761 |
Cargo genes
| Drug resistance gene | aph(4)-Ia, aac(3)-IVa, aph(3')-Ia, floR, aph(6)-Id, aph(3'')-Ib, sul2 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |