Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200414 |
| Name | oriT_Tn6860  |
| Organism | Providencia rettgeri strain PROV275 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | CP059298 (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_Tn6860
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
GCTCTGTTTGGCGGCTGGTGACCTAGCCAAAAAAATTGAGACGCCAAACGTCGTTTGCATTCTGGCCTGAACTTGCCAAACGGTTTGTATCTTCATGGCGATACGTCTTTTTAGGTGTTTTTAAGTGAAATCAGCCTGTATCCCTTGTCGGGTATGGGATTGAGCGAGTCGATTTATATCGAGACGCCAAACAGTGATTGTGACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCAAACGGATAGTGGTTTTGGCTTTAGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14442 | GenBank | QLQ65366 |
| Name | TraI_2_H0904_02820_Tn6860 |
UniProt ID | _ |
| Length | 716 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 716 a.a. Molecular weight: 79894.02 Da Isoelectric Point: 5.0500
>QLQ65366.1 TraI domain-containing protein [Providencia rettgeri]
MFKKLFFQTKALPELSSQLDADIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNQRDFQRLIQPC
IDHLASYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWVRKSNQSTHLFLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLATKSA
SNERYESLAPEVLIKDDKPIWLPMLHISEADILFSSNVPSSVMLFSKSEWEAKQQTQAEPQSRSSEQPGL
PEASSSIELSNSAESPSTKSLEQDDELRHSIDVNNLQSAENDPRDGCEKPNNSYDGAISNNVSQQNEAAF
NLPESLAWLPEASSALIMAGEQILIRYPDAVRPWCAPRKLLAELSRLDWLELDPANPTRKARTVTTNDGV
QEQGLLLKVSISKGLIALIDLSKQDAESVEPIQNEEASQRPSRTETANAQAKEPATRAERKQKPIAPNAN
SSTDPKHAQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANEHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAER
MFKKLFFQTKALPELSSQLDADIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNQRDFQRLIQPC
IDHLASYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGTPVEKKELEPRWRVAAALGGL
FHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIERYFIRWRDGRCKRHEQFSILVLNRVMTPELL
AWLTQPGPEILQAMLEAIGNTDPEHVLSKLVIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRL
LASSQWLVNQRDARVWVRKSNQSTHLFLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLATKSA
SNERYESLAPEVLIKDDKPIWLPMLHISEADILFSSNVPSSVMLFSKSEWEAKQQTQAEPQSRSSEQPGL
PEASSSIELSNSAESPSTKSLEQDDELRHSIDVNNLQSAENDPRDGCEKPNNSYDGAISNNVSQQNEAAF
NLPESLAWLPEASSALIMAGEQILIRYPDAVRPWCAPRKLLAELSRLDWLELDPANPTRKARTVTTNDGV
QEQGLLLKVSISKGLIALIDLSKQDAESVEPIQNEEASQRPSRTETANAQAKEPATRAERKQKPIAPNAN
SSTDPKHAQRQQMVNFVKDLPILLTDGDYPDVDHSADGIRVTIQTLRQVANEHGIPAGQLLRGISASDQC
QFDEGETVLFTAHAER
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16976 | GenBank | QLQ65340 |
| Name | t4cp2_H0904_02670_Tn6860 |
UniProt ID | _ |
| Length | 695 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 695 a.a. Molecular weight: 79491.81 Da Isoelectric Point: 4.8270
>QLQ65340.1 conjugal transfer protein TrbC [Providencia rettgeri]
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMHFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFADWLDGTDTDDVLYHQEDDLFPMIEM
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMHFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFADWLDGTDTDDVLYHQEDDLFPMIEM
Protein domains
No domain identified.
Protein structure
No available structure.
| ID | 16977 | GenBank | QLQ65367 |
| Name | traD_H0904_02825_Tn6860 |
UniProt ID | _ |
| Length | 606 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 606 a.a. Molecular weight: 67130.95 Da Isoelectric Point: 6.5123
>QLQ65367.1 conjugative transfer system coupling protein TraD [Providencia rettgeri]
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQMG
LKGKPLAFMELSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNQGHGKQMGSTWIHGVE
PKDEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
QRFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FAARTGSEAKARQVLGNINNLIALRVMDTETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
MKENAYEMPWRTNYEAMAAAGWLVGATGAIAAEMLTELPPEPFWWMTGISSGMALYRLPEAYRLYKLQMG
LKGKPLAFMELSHLQKVMAKHPDELWLGYGFEWDQRHAQRAYEILKRDKQTLLNQGHGKQMGSTWIHGVE
PKDEDVYQPVGHTEGHTLIVGTTGAGKTRCFDAMITQAILRNEAVIIIDPKGDKELKDNAQRACIAAGSP
QRFVYFHPGFPEHSVRLNPLRNFNRGTEIASRIAALIPSETGADPFKAFGQMALNNIVQGLLLTSQRPDL
KTLRRFLEGGPEGLVVKAVTAWGEQVYPNFSVEIKRFTEKANTLAKQAMAMLLFYYERIQPVAANTDLEG
LLSMFEHDRTHYSKMVASLMPVLNMLTSSELGPLLSPIANDVDDSRLITDSGRIINNAQVAYIGLDSLTD
AMVGSAIGSLLLSDLTAVAGDRYNYGVENRPVNIFIDEAAEVVNDPFIQLLNKGRGAKMRCVIATQTFAD
FAARTGSEAKARQVLGNINNLIALRVMDTETQQYITDNLPKTRLQYIMQTQGMSSNSDSPALFTGNHGER
LMEEEGDMFPPQLLGQLPNLEYIAKLSGGRVIKGRIPILTSSTQAA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 16978 | GenBank | QLQ65381 |
| Name | traC_H0904_02900_Tn6860 |
UniProt ID | _ |
| Length | 799 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 799 a.a. Molecular weight: 90098.71 Da Isoelectric Point: 6.2880
>QLQ65381.1 type IV secretion system protein TraC [Providencia rettgeri]
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTERELSRASALRASFSQALATVGFRVTEMTDRNWLAAISAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAEAM
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMTLTLFSPTGEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRNSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHEDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE
MKASLYSGQRASELLPVLAYSDDEQLFFMEDQSVGFGFLCDPLPGGDESVADRVNVLLNNDWPKDTLLQF
GLYASPDIQTDLQRMMGLRHRQSDPLLRASIRKRADFLDGGTVQPIEESTQTQVRNFQLIVTCKLPLESP
IPTERELSRASALRASFSQALATVGFRVTEMTDRNWLAAISAQLNWGKDASWRNPSPIRSEADKPLREQV
LDYDRAIKVDSQGLMLGDYRVKTLSFKRLPERIWFGHAASFAGDMMTGSRGLRGSFLLNVTIHFPSAEAM
RSRLETKRQWAVNQAYGPMLKFVPVLAAKKKGFDVLFEALQEGDRPIRANMTLTLFSPTGEASISSVSNA
RTYFKELGFELMEDKYFCLPIFLNALPFGADRQAMNDLFRFKTMATRHVIPLLPLFADWKGTGTPVINFV
SRNGQIMSVSLYDSGSNYNCCIAAQSGSGKSFLVNEIISSYLSEGGQCWVIDVGRSYEKLCEVYDGEFLQ
FGRNSGICLNPFEIVEDYDEEADVLVGLLAAMAAPTQSLTDFQMANLKRQTRELWEKKGRAMLVDDVAEA
LKNHEDRRVQDVGEQLYPFTTQGEYGRFFNGHNNIRFKNRFTVLELEELKGRKHLQQVVLLQLIYQIQQE
MYLGERDRRKIVFIDEAWDLLTQGDVGKFIETGYRRFRKYGGSAVTVTQSVNDLYDSPTGKAIAENSANM
YLLGQKAETINALKKEGRLPLGEGGYEYLKTVHTVTGVYSEIFFITEMGTGIGRLIVDPFHKLLYSSRAE
DVNAIKQLTRKGLSVADAISQLLKERGYE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 644569..664334
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| H0904_02810 | 640349..641539 | + | 1191 | QLQ65364 | nucleotidyltransferase | - |
| H0904_02815 | 641540..642253 | + | 714 | QLQ65365 | hypothetical protein | - |
| H0904_02820 | 642370..644520 | + | 2151 | QLQ65366 | TraI domain-containing protein | - |
| H0904_02825 | 644569..646389 | + | 1821 | QLQ65367 | conjugative transfer system coupling protein TraD | virb4 |
| H0904_02830 | 646399..646959 | + | 561 | QLQ65368 | conjugative transfer protein | - |
| H0904_02835 | 646946..647581 | + | 636 | QLQ65369 | DUF4400 domain-containing protein | tfc7 |
| H0904_02840 | 647607..647885 | - | 279 | QLQ65370 | helix-turn-helix transcriptional regulator | - |
| H0904_02845 | 647882..648205 | - | 324 | QLQ65371 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| H0904_02850 | 648386..648667 | + | 282 | QLQ65372 | type IV conjugative transfer system protein TraL | traL |
| H0904_02855 | 648664..649290 | + | 627 | QLQ65373 | pilus assembly protein | traE |
| H0904_02860 | 649274..650170 | + | 897 | QLQ66808 | type-F conjugative transfer system secretin TraK | traK |
| H0904_02865 | 650173..651462 | + | 1290 | QLQ65374 | conjugal transfer protein TraB | traB |
| H0904_02870 | 651537..652109 | + | 573 | QLQ65375 | type IV conjugative transfer system lipoprotein TraV | traV |
| H0904_02875 | 652106..652492 | + | 387 | QLQ65376 | hypothetical protein | - |
| H0904_02880 | 652713..653504 | + | 792 | QLQ65377 | type IV toxin-antitoxin system AbiEi family antitoxin | - |
| H0904_02885 | 653497..654186 | + | 690 | QLQ65378 | nucleotidyl transferase AbiEii/AbiGii toxin family protein | - |
| H0904_02890 | 654191..654433 | + | 243 | QLQ65379 | hypothetical protein | - |
| H0904_02895 | 654565..655257 | + | 693 | QLQ65380 | DsbC family protein | trbB |
| H0904_02900 | 655257..657656 | + | 2400 | QLQ65381 | type IV secretion system protein TraC | virb4 |
| H0904_02905 | 657649..657996 | + | 348 | QLQ65382 | plasmid-related protein | - |
| H0904_02910 | 657980..658492 | + | 513 | QLQ65383 | S26 family signal peptidase | - |
| H0904_02915 | 658503..659627 | + | 1125 | QLQ66809 | pilus assembly protein | traW |
| H0904_02920 | 659611..660639 | + | 1029 | QLQ65384 | TraU family protein | traU |
| H0904_02925 | 660642..664334 | + | 3693 | QLQ65385 | conjugal transfer protein TraN | traN |
| H0904_02930 | 664566..664898 | + | 333 | QLQ65386 | hypothetical protein | - |
| H0904_02935 | 664929..665591 | + | 663 | QLQ65387 | hypothetical protein | - |
| H0904_02940 | 665682..666284 | - | 603 | QLQ65388 | hypothetical protein | - |
| H0904_02945 | 666652..666978 | + | 327 | QLQ65389 | plasmid-related protein | - |
| H0904_02950 | 666994..667413 | + | 420 | QLQ65390 | single-stranded DNA-binding protein | - |
| H0904_02955 | 667493..668311 | + | 819 | QLQ66810 | phage recombination protein Bet | - |
| H0904_02960 | 668393..668536 | + | 144 | QLQ65391 | hypothetical protein | - |
Host bacterium
| ID | 369 | Element type | ICE (Integrative and conjugative element) |
| Element name | Tn6860 | GenBank | CP059298 |
| Element size | 4601020 bp | Coordinate of oriT [Strand] | 5646..5944 [+] |
| Host bacterium | Providencia rettgeri strain PROV275 | Coordinate of element | 575696..691964 |
Cargo genes
| Drug resistance gene | blaCTX-M-3, mph(E), msr(E) |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |