Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 114420 |
| Name | oriT_pN03G-2  |
| Organism | Bradyrhizobium japonicum strain N03G-Bj |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP126012 (184225..184262 [-], 38 nt) |
| oriT length | 38 nt |
| IRs (inverted repeats) | 18..24, 29..35 (ACGTCGC..GCGACGT) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 38 nt
>oriT_pN03G-2
TCCAAGGGCGCAGTAATACGTCGCTGACGCGACGTCCT
TCCAAGGGCGCAGTAATACGTCGCTGACGCGACGTCCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 9240 | GenBank | WP_232674620 |
| Name | traA_QIH85_RS48710_pN03G-2 |
UniProt ID | _ |
| Length | 1102 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1102 a.a. Molecular weight: 122893.31 Da Isoelectric Point: 10.2929
>WP_232674620.1 Ti-type conjugative transfer relaxase TraA [Bradyrhizobium japonicum]
MAITHFTPQLIGRGDGRSAVLAAAYRHCAKMEFEAEGRTVDYSNKRGMIHEEFLVPADAPAWLRTMIADR
SVAGASEAFWNKVEAFEKRADAQFAKEFIIALPVELTSEQNIALMRQFVVEQVLSRGQVADWVYHDEPGN
PHVHMMTTLRPLTEDGFGPKRVAVIGEDGQPLRMKSGKIAYRLWAGDKQEFLEQRNGWLDLQNQHLALNG
HEIRVDGRSYAERGIDVVPTTHIGVAAKAIQRRAEREGRDPNLERLRVFNENRAETLRRIQRRPEIVLDM
ISREKSVFDERDVGKLLHRYVDDAATFQHLMARVLQSPDVLQLEGEQVDFATGARAPAKYTTRELIRLEA
EMVRRAVHLSGSGAFPVKPSVLAAMSARHANLSAEQRAAIAHLASGIRIAAVVGRAGAGKTTMMRAAREV
WEAAGYRVVGGALAGKAAEGLEKEAGIQSRTLASWELRWKSGRDGLDDRTVFVLDEAGMVASRQMALFVE
TASKAGAKLVLVGDPEQLQPIEAGAAFRAIVERIGYAELETIYRQRQQWMRDASLDLARGRTAQALSAYR
QQGRVFGSELKAQAIDNLIADWNRDYDPSKSTLILAHLRRDIRALNEMARAKLVEGGLLEQGHAFRTEDG
ERRFAPGDQIVFLKNEGSLGVKNGMIGKVVEAGTARLVAEIGEGECRCRVEVDQRFYRNIDHGYATTVHK
AQGATVDRVKVLATLSLDKHLAYVALTRHREDVALYYGRRSFQKAGGLIPILSQRRAKETTLDYERGALY
RAALRFAANRGLHVVRVARTLVNDRLRWTVRQKQRLAEVARRLRALAEKLGLVDGRKPIISTAHKEAKPM
IAGVTTFPKSLIDTVEDRILADPAIKKQWEDVSIRFRLVFADPERAFRATNFDAMLKDPAAASSTMARLA
SSPESFGALRGKVGMLAGKSDKQVRQRAEANAPALKRDIERYLRLRAEAEHKHEAEERAIRHRVAIDIPA
LSREARRVLERVRDAIDRNDLPSALEFALADRMVKAEIDGFNKAVAERFGDRTFLSNAAREPNGQPFEKA
AAGMDPARREQLKEAWPAMRAAQQLAAGERTAQALKQAEGQRLTQSQGQTLK
MAITHFTPQLIGRGDGRSAVLAAAYRHCAKMEFEAEGRTVDYSNKRGMIHEEFLVPADAPAWLRTMIADR
SVAGASEAFWNKVEAFEKRADAQFAKEFIIALPVELTSEQNIALMRQFVVEQVLSRGQVADWVYHDEPGN
PHVHMMTTLRPLTEDGFGPKRVAVIGEDGQPLRMKSGKIAYRLWAGDKQEFLEQRNGWLDLQNQHLALNG
HEIRVDGRSYAERGIDVVPTTHIGVAAKAIQRRAEREGRDPNLERLRVFNENRAETLRRIQRRPEIVLDM
ISREKSVFDERDVGKLLHRYVDDAATFQHLMARVLQSPDVLQLEGEQVDFATGARAPAKYTTRELIRLEA
EMVRRAVHLSGSGAFPVKPSVLAAMSARHANLSAEQRAAIAHLASGIRIAAVVGRAGAGKTTMMRAAREV
WEAAGYRVVGGALAGKAAEGLEKEAGIQSRTLASWELRWKSGRDGLDDRTVFVLDEAGMVASRQMALFVE
TASKAGAKLVLVGDPEQLQPIEAGAAFRAIVERIGYAELETIYRQRQQWMRDASLDLARGRTAQALSAYR
QQGRVFGSELKAQAIDNLIADWNRDYDPSKSTLILAHLRRDIRALNEMARAKLVEGGLLEQGHAFRTEDG
ERRFAPGDQIVFLKNEGSLGVKNGMIGKVVEAGTARLVAEIGEGECRCRVEVDQRFYRNIDHGYATTVHK
AQGATVDRVKVLATLSLDKHLAYVALTRHREDVALYYGRRSFQKAGGLIPILSQRRAKETTLDYERGALY
RAALRFAANRGLHVVRVARTLVNDRLRWTVRQKQRLAEVARRLRALAEKLGLVDGRKPIISTAHKEAKPM
IAGVTTFPKSLIDTVEDRILADPAIKKQWEDVSIRFRLVFADPERAFRATNFDAMLKDPAAASSTMARLA
SSPESFGALRGKVGMLAGKSDKQVRQRAEANAPALKRDIERYLRLRAEAEHKHEAEERAIRHRVAIDIPA
LSREARRVLERVRDAIDRNDLPSALEFALADRMVKAEIDGFNKAVAERFGDRTFLSNAAREPNGQPFEKA
AAGMDPARREQLKEAWPAMRAAQQLAAGERTAQALKQAEGQRLTQSQGQTLK
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 10702 | GenBank | WP_232674731 |
| Name | t4cp2_QIH85_RS47855_pN03G-2 |
UniProt ID | _ |
| Length | 791 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 791 a.a. Molecular weight: 88425.42 Da Isoelectric Point: 5.4966
>WP_232674731.1 conjugal transfer protein TrbE [Bradyrhizobium japonicum]
MVALRTFRHSGPSFADLVPYAGLVANGIVLLKDGSLMAGWYFAGPDSESSTDAERNEVSRQINTILARLG
SGWMIQVEAVRVPTTDYPAQQDCHFPDPVTRAIDDERRGRFEQERGHFESRHAIILSWRPPERRRAGLAR
YIYSDAESRSASYADTAIESFRTSIREVEQYLASVLSIRRMETREVEERDGTRIARYDELFQFIRFCITG
ENHPIRLPDIPMYLDWLATAELQHGLSPMVENRFLGVVAIDGFPAESWPGILNSLDLMPLTYRWSSRFMF
LDDQDARQKLERTRKKWQQKVRPFIDRLFQTQSRSIDQDAAAMVAETEDAIAQASSQLVAYGYYTPVIVL
FDESSARLQEKAEAVRRLIQAEGFGARIETLNATEAFLGSLPGNWYANIREPLINTRNLADLIPLNSVWS
GNPTAPCPFYPPSSPPLMQVASGSTPFRLNLHVDDVGHTLVFGPTGSGKSTLPLTLAAGGDHYEIGGDDA
DGAAALAFCPLSDLSTDNDRAWAAEWVETLVAVQGVLITPDHRNAISRQIGLMAEARGRSLSDFVSGVQM
REIKDALHHYTVDGPMGQLLDAERDGLQLGSFQTFEIEQLMNMGERNLVPVLTYLFRRIEKRLTGSPSLI
ILDEAWLMLGHPVFRDKIREWLKVLRKANCAVLLATQSISDAERSGIIDVLKESCPTKICLPNGAAREPG
TREFYERIGFNERQIEIVAAASPKREYYVASPEGRRLFNMALGPVALSFVGASGKEDLKRILALKAAEAN
WPVHWLKERGIGHAETLLADL
MVALRTFRHSGPSFADLVPYAGLVANGIVLLKDGSLMAGWYFAGPDSESSTDAERNEVSRQINTILARLG
SGWMIQVEAVRVPTTDYPAQQDCHFPDPVTRAIDDERRGRFEQERGHFESRHAIILSWRPPERRRAGLAR
YIYSDAESRSASYADTAIESFRTSIREVEQYLASVLSIRRMETREVEERDGTRIARYDELFQFIRFCITG
ENHPIRLPDIPMYLDWLATAELQHGLSPMVENRFLGVVAIDGFPAESWPGILNSLDLMPLTYRWSSRFMF
LDDQDARQKLERTRKKWQQKVRPFIDRLFQTQSRSIDQDAAAMVAETEDAIAQASSQLVAYGYYTPVIVL
FDESSARLQEKAEAVRRLIQAEGFGARIETLNATEAFLGSLPGNWYANIREPLINTRNLADLIPLNSVWS
GNPTAPCPFYPPSSPPLMQVASGSTPFRLNLHVDDVGHTLVFGPTGSGKSTLPLTLAAGGDHYEIGGDDA
DGAAALAFCPLSDLSTDNDRAWAAEWVETLVAVQGVLITPDHRNAISRQIGLMAEARGRSLSDFVSGVQM
REIKDALHHYTVDGPMGQLLDAERDGLQLGSFQTFEIEQLMNMGERNLVPVLTYLFRRIEKRLTGSPSLI
ILDEAWLMLGHPVFRDKIREWLKVLRKANCAVLLATQSISDAERSGIIDVLKESCPTKICLPNGAAREPG
TREFYERIGFNERQIEIVAAASPKREYYVASPEGRRLFNMALGPVALSFVGASGKEDLKRILALKAAEAN
WPVHWLKERGIGHAETLLADL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 10703 | GenBank | WP_232674619 |
| Name | traG_QIH85_RS48725_pN03G-2 |
UniProt ID | _ |
| Length | 643 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 643 a.a. Molecular weight: 69692.74 Da Isoelectric Point: 9.6771
>WP_232674619.1 Ti-type conjugative transfer system protein TraG [Bradyrhizobium japonicum]
MRANKIALAIVPAVLMASLCLVLTGIEAWLSKFGTTPNARLVLGRVGIALPYVVAAAIGVVFLLAAAGAT
AIRSAGWSVVFGGLLVVAIAVSREIARPHSFANALLAGDRLLAYADPSTIIGATIAALVAVFGLRVAIKG
NAAFAAAAPRRIRGRRAIHGESDWMVMTEAARLFPETGGIVVGERYRVDRDAVTDRSFRADDAETWGAGG
KSPLLCFDASFGSSHGIVFAGSGGFKTTSVTVPTALKWGGGLVVLDPSYEVAPMVTGHRHGAGRQVFVLD
PRSSGVGFNVLDWIGQHGATKEEDIAAVASWIMTDNPRQGSARDDFFRASALQLLTALIGDVCLSGHTEK
KDQHLRQVRANLSEPEPKLRQRLQTIYDNSESGFVKENVAPFIAMTPETFSGVYANAVKETHWLSYANYA
VLVSGSSFTTAELAEGRTDVFINLDLKTLENHAGLARVVIGSLLNAIYNRNGEVTGRTLFLLDEVARLGY
LRILETARDAGRKYGITLLMLYQSIGQMREAYGGRDATSKWFESASWISFSAINDPETADYISKRCGDTT
VEVDQLSRSSQMSGSSRTRSKQLARRPLMLPHEVLRMRTDEQIIFTAGNPPLRCGRAIWFRRTDMRACVG
ENRFYRREAGQRS
MRANKIALAIVPAVLMASLCLVLTGIEAWLSKFGTTPNARLVLGRVGIALPYVVAAAIGVVFLLAAAGAT
AIRSAGWSVVFGGLLVVAIAVSREIARPHSFANALLAGDRLLAYADPSTIIGATIAALVAVFGLRVAIKG
NAAFAAAAPRRIRGRRAIHGESDWMVMTEAARLFPETGGIVVGERYRVDRDAVTDRSFRADDAETWGAGG
KSPLLCFDASFGSSHGIVFAGSGGFKTTSVTVPTALKWGGGLVVLDPSYEVAPMVTGHRHGAGRQVFVLD
PRSSGVGFNVLDWIGQHGATKEEDIAAVASWIMTDNPRQGSARDDFFRASALQLLTALIGDVCLSGHTEK
KDQHLRQVRANLSEPEPKLRQRLQTIYDNSESGFVKENVAPFIAMTPETFSGVYANAVKETHWLSYANYA
VLVSGSSFTTAELAEGRTDVFINLDLKTLENHAGLARVVIGSLLNAIYNRNGEVTGRTLFLLDEVARLGY
LRILETARDAGRKYGITLLMLYQSIGQMREAYGGRDATSKWFESASWISFSAINDPETADYISKRCGDTT
VEVDQLSRSSQMSGSSRTRSKQLARRPLMLPHEVLRMRTDEQIIFTAGNPPLRCGRAIWFRRTDMRACVG
ENRFYRREAGQRS
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 1046..10524
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| QIH85_RS47835 (QIH85_47835) | 414..1040 | + | 627 | WP_232674728 | acyl-homoserine-lactone synthase | - |
| QIH85_RS47840 (QIH85_47840) | 1046..2014 | + | 969 | WP_232674729 | P-type conjugative transfer ATPase TrbB | virB11 |
| QIH85_RS47845 (QIH85_47845) | 2004..2384 | + | 381 | WP_028152998 | TrbC/VirB2 family protein | virB2 |
| QIH85_RS47850 (QIH85_47850) | 2377..2676 | + | 300 | WP_232674730 | conjugal transfer protein TrbD | virB3 |
| QIH85_RS47855 (QIH85_47855) | 2686..5061 | + | 2376 | WP_232674731 | conjugal transfer protein TrbE | virb4 |
| QIH85_RS47860 (QIH85_47860) | 5033..5830 | + | 798 | WP_232674732 | P-type conjugative transfer protein TrbJ | virB5 |
| QIH85_RS47865 (QIH85_47865) | 6030..7187 | + | 1158 | WP_028152994 | P-type conjugative transfer protein TrbL | virB6 |
| QIH85_RS47870 (QIH85_47870) | 7231..7893 | + | 663 | WP_028152993 | conjugal transfer protein TrbF | virB8 |
| QIH85_RS47875 (QIH85_47875) | 7911..8750 | + | 840 | WP_038944961 | P-type conjugative transfer protein TrbG | virB9 |
| QIH85_RS47880 (QIH85_47880) | 8753..9205 | + | 453 | WP_028152991 | conjugal transfer protein TrbH | - |
| QIH85_RS47885 (QIH85_47885) | 9217..10524 | + | 1308 | WP_232674733 | IncP-type conjugal transfer protein TrbI | virB10 |
| QIH85_RS47890 (QIH85_47890) | 10526..11974 | - | 1449 | WP_232674895 | IS4 family transposase | - |
| QIH85_RS47895 (QIH85_47895) | 12782..13066 | - | 285 | WP_155258061 | hypothetical protein | - |
| QIH85_RS47900 (QIH85_47900) | 13192..13794 | - | 603 | WP_028152988 | hypothetical protein | - |
| QIH85_RS47905 (QIH85_47905) | 14052..15395 | - | 1344 | WP_253575149 | IS1380-like element ISBdi2 family transposase | - |
Host bacterium
| ID | 14855 | GenBank | NZ_CP126012 |
| Plasmid name | pN03G-2 | Incompatibility group | - |
| Plasmid size | 290258 bp | Coordinate of oriT [Strand] | 184225..184262 [-] |
| Host baterium | Bradyrhizobium japonicum strain N03G-Bj |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | wzt |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrID1 |