Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 121010 |
| Name | oriT_pSTN0717-27-1  |
| Organism | Citrobacter portucalensis strain STN0717-27 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_AP022487 (45493..45643 [+], 151 nt) |
| oriT length | 151 nt |
| IRs (inverted repeats) | 93..98, 106..111 (TGGCCT..AGGCCA) 12..17, 24..29 (AACCCT..AGGGTT) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 151 nt
>oriT_pSTN0717-27-1
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 13258 | GenBank | WP_001326173 |
| Name | mobH_JLF36_RS24070_pSTN0717-27-1 |
UniProt ID | F5BPR1 |
| Length | 990 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 990 a.a. Molecular weight: 109356.90 Da Isoelectric Point: 4.9395
>WP_001326173.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSVRVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEVDDDQEEDVSALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGSTESSKPD
AGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPFDA
FSASAETASTDATNSEIPDVAMPGKQEKQPKQDFVPQEQNSLQGDDFPMFGSSDEPPSWAIEPLPMLTDA
PEQTTPAPAMPPTDKPNLHEKDAKTLLVEMLAGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILY
PDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDA
FELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKPSPEQKAKGKDSQPQQKEKKVDVTSPVEEPQRQ
PVQEKQNVARLPKREVQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSGVT
PQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKKRQ
GKLYLEVNET
MLKALNKLFGGRSGVIETAPSVRVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEVDDDQEEDVSALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGSTESSKPD
AGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPFDA
FSASAETASTDATNSEIPDVAMPGKQEKQPKQDFVPQEQNSLQGDDFPMFGSSDEPPSWAIEPLPMLTDA
PEQTTPAPAMPPTDKPNLHEKDAKTLLVEMLAGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILY
PDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDA
FELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKPSPEQKAKGKDSQPQQKEKKVDVTSPVEEPQRQ
PVQEKQNVARLPKREVQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSGVT
PQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKKRQ
GKLYLEVNET
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | F5BPR1 |
T4CP
| ID | 15539 | GenBank | WP_000178857 |
| Name | traD_JLF36_RS24075_pSTN0717-27-1 |
UniProt ID | _ |
| Length | 621 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 621 a.a. Molecular weight: 69225.71 Da Isoelectric Point: 6.9403
>WP_000178857.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKVKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKVKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 15540 | GenBank | WP_200921652 |
| Name | traC_JLF36_RS24165_pSTN0717-27-1 |
UniProt ID | _ |
| Length | 815 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 815 a.a. Molecular weight: 92634.89 Da Isoelectric Point: 5.9216
>WP_200921652.1 type IV secretion system protein TraC [Citrobacter portucalensis]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSQGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAITENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRRQAA
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSQGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAITENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRRQAA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 43577..69952
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| JLF36_RS24060 | 39608..39841 | - | 234 | WP_001191890 | hypothetical protein | - |
| JLF36_RS24065 (STN0717CIT27_P10660) | 39823..40440 | - | 618 | WP_001249395 | hypothetical protein | - |
| JLF36_RS24070 (STN0717CIT27_P10670) | 40608..43580 | + | 2973 | WP_001326173 | MobH family relaxase | - |
| JLF36_RS24075 (STN0717CIT27_P10680) | 43577..45442 | + | 1866 | WP_000178857 | conjugative transfer system coupling protein TraD | virb4 |
| JLF36_RS24080 (STN0717CIT27_P10690) | 45492..46037 | + | 546 | WP_000228720 | hypothetical protein | - |
| JLF36_RS24085 (STN0717CIT27_P10700) | 45994..46623 | + | 630 | WP_000743449 | DUF4400 domain-containing protein | tfc7 |
| JLF36_RS24090 (STN0717CIT27_P10710) | 46633..47079 | + | 447 | WP_000122507 | hypothetical protein | - |
| JLF36_RS24095 (STN0717CIT27_P10720) | 47089..47466 | + | 378 | WP_000869297 | hypothetical protein | - |
| JLF36_RS24100 (STN0717CIT27_P10730) | 47466..48128 | + | 663 | WP_001231464 | hypothetical protein | - |
| JLF36_RS24105 (STN0717CIT27_P10740) | 48309..48452 | + | 144 | WP_001275801 | hypothetical protein | - |
| JLF36_RS24110 (STN0717CIT27_P10750) | 48464..48829 | + | 366 | WP_001052530 | hypothetical protein | - |
| JLF36_RS24115 (STN0717CIT27_P10760) | 48974..49255 | + | 282 | WP_000805625 | type IV conjugative transfer system protein TraL | traL |
| JLF36_RS24120 (STN0717CIT27_P10770) | 49252..49878 | + | 627 | WP_001049717 | TraE/TraK family type IV conjugative transfer system protein | traE |
| JLF36_RS24125 (STN0717CIT27_P10780) | 49862..50779 | + | 918 | WP_000794249 | type-F conjugative transfer system secretin TraK | traK |
| JLF36_RS24130 (STN0717CIT27_P10790) | 50779..52092 | + | 1314 | WP_024131605 | TraB/VirB10 family protein | traB |
| JLF36_RS24135 (STN0717CIT27_P10800) | 52089..52667 | + | 579 | WP_000793435 | type IV conjugative transfer system lipoprotein TraV | traV |
| JLF36_RS24140 (STN0717CIT27_P10810) | 52671..53063 | + | 393 | WP_000479535 | TraA family conjugative transfer protein | - |
| JLF36_RS24145 (STN0717CIT27_P10820) | 53264..54688 | + | 1425 | Protein_81 | DUF4165 domain-containing protein | - |
| JLF36_RS24150 (STN0717CIT27_P10840) | 54752..55899 | + | 1148 | WP_096755719 | IS3 family transposase | - |
| JLF36_RS24155 (STN0717CIT27_P10850) | 55915..59982 | + | 4068 | Protein_83 | Ig-like domain-containing protein | - |
| JLF36_RS24160 (STN0717CIT27_P10860) | 60131..60838 | + | 708 | WP_001259346 | DsbC family protein | - |
| JLF36_RS24165 (STN0717CIT27_P10870) | 60835..63282 | + | 2448 | WP_200921652 | type IV secretion system protein TraC | virb4 |
| JLF36_RS24170 (STN0717CIT27_P10880) | 63297..63614 | + | 318 | WP_000351984 | hypothetical protein | - |
| JLF36_RS24175 (STN0717CIT27_P10890) | 63611..64141 | + | 531 | WP_001010740 | S26 family signal peptidase | - |
| JLF36_RS24180 (STN0717CIT27_P10900) | 64104..65369 | + | 1266 | WP_001447719 | TrbC family F-type conjugative pilus assembly protein | traW |
| JLF36_RS24185 (STN0717CIT27_P10910) | 65366..66037 | + | 672 | WP_000575345 | EAL domain-containing protein | - |
| JLF36_RS24190 (STN0717CIT27_P10920) | 66037..67041 | + | 1005 | WP_005507569 | TraU family protein | traU |
| JLF36_RS24195 (STN0717CIT27_P10930) | 67157..69952 | + | 2796 | WP_001256484 | conjugal transfer mating pair stabilization protein TraN | traN |
| JLF36_RS24200 (STN0717CIT27_P10940) | 69991..70851 | - | 861 | WP_000709517 | hypothetical protein | - |
| JLF36_RS24205 (STN0717CIT27_P10950) | 70974..71615 | - | 642 | WP_000796664 | hypothetical protein | - |
| JLF36_RS24210 (STN0717CIT27_P10960) | 71910..72230 | + | 321 | WP_000547566 | hypothetical protein | - |
| JLF36_RS24215 (STN0717CIT27_P10970) | 72534..72719 | + | 186 | WP_001186917 | hypothetical protein | - |
| JLF36_RS24220 (STN0717CIT27_P10980) | 72939..73907 | + | 969 | WP_000085160 | AAA family ATPase | - |
| JLF36_RS24225 (STN0717CIT27_P10990) | 73918..74826 | + | 909 | WP_000739139 | hypothetical protein | - |
Host bacterium
| ID | 21439 | GenBank | NZ_AP022487 |
| Plasmid name | pSTN0717-27-1 | Incompatibility group | IncA/C2 |
| Plasmid size | 146978 bp | Coordinate of oriT [Strand] | 45493..45643 [+] |
| Host baterium | Citrobacter portucalensis strain STN0717-27 |
Cargo genes
| Drug resistance gene | aph(6)-Id, aph(3'')-Ib, aadA2 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |