Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 102574 |
| Name | oriT_pSM138B_Rh03  |
| Organism | Rhizobium leguminosarum strain SM138B |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_SIOU01000004 (168928..168956 [-], 29 nt) |
| oriT length | 29 nt |
| IRs (inverted repeats) | 14..19, 24..29 (CGTCGC..GCGACG) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 29 nt
>oriT_pSM138B_Rh03
AGGGCGCAATATACGTCGCTGTGGCGACG
AGGGCGCAATATACGTCGCTGTGGCGACG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1922 | GenBank | WP_130747778 |
| Name | traA_ELH95_RS28545_pSM138B_Rh03 |
UniProt ID | _ |
| Length | 1545 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1545 a.a. Molecular weight: 170857.84 Da Isoelectric Point: 6.9776
>WP_130747778.1 Ti-type conjugative transfer relaxase TraA [Rhizobium leguminosarum]
MAIMFVRAQVISRGAGRSIVSAAAYRHRARMMDEQAGTSFSYRGGASELVHEELSLPDQLPAWLRSAIEG
RSVAGASEALWNAVDAFEKRADAQLARELIIAVPEELTRGENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHVMTTLRPMTQEGFGPKKVAVTGEDGNSLRVVTPDRPNGKIVYKLWAGDKETMKVWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQRHLGPEKAALSRRGAEMYFAPADLARRQEMADRLLADPELLLKQ
LGNERSTFDERDIAKALHRYVDDPAVFANIRARLMVSDDLVLLKPQQVDAETAKVAEPAVFTTRELLRIE
YDMARSAQVLSEHKGFAVSDRAVAAAIRHVETGDPEKSFRLDPEQVDAVRHVTRDNGIAAVVGLAGTGKS
TLLAAARVAWESGGSRVIGAALAGKAAEGLEDSSGIRSRTLASWELIWANGHETLHRGDVVVVDEAGMVS
SQQMARVLDIVEQAGAKVVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQRQPWAREASRLFARGE
IEKGLDAYAQQGHLIEAGTRAETIDRIVADWSEARKRAIETAALKGNDGRLRGDELLVLAHTNQDVKRLN
EALRTVMTGEGALGENRSFQTERGGRDFAAGDRIIFLENARFLEPRAPRLGPQYVKNGMLGTVVSTGDKR
GDTLLSVRLDNGRDVVISENSYRNVDHGYAATIHKSQGSTVERTLVLATGMMDQHLTYVSMTRHRDRADL
YAAKEDFEARPEWGRKPRVDHAAGVTGELVETGQAKFRPNDEDADDSPYADVKTEDGSVHRLWGVSLPKA
LEEGGVSQGDTVTLRKDGVERVKVQVPIVDEQTGQKRYEEREVDRNVWTAKRIETAAERLERIELESHRP
ELFKQLVERLSRSGAKTTTLDFESEAGYRQYADDFARRRGLDHLSQTAAGMEEGVSRRWAAIAEKREQLA
ELWERASVALGFAIERERRVAYSEERTETQTVTGADIAGGRYLLPSTTGFTRSVEEDARLAQLASPDWKE
REAILRPLLEKIYRDQDAALVALNALASDLKIEPRRLADDLVVAPDRLSRLRGSDLIVDGRAARDERSVA
TAALLELVPLARAQATEFRRNAERFDLREQQRRAHMSLPIPALSKTAMARLVEIEAVRRQGGDDAYKTAF
ALATEDRSLVQEVKAVSEALSARFGWSAFTPNADALAERNMVERMPEDLASTRREKLTRLFEAVKHFADE
QHLAERRDRSKIVAGASADQGMEAGKENAAVLPMLAAVTEFKTPIDEEARSRTLATPLYRQQRTALAAVA
STIWRDPAGAVGKIEDLLAKGFAGDRIAAAVTNDPAAYGALRGSDRLMDRMLASGRERKEAVQAVPEAAA
RLRALGSAYVNVLDGERQAVAEERRRMAVAIPGLSKAAEDVLMRLTTGAKNNGRKKNASAASLDPDIRRE
FEAVSRALDERFGRSAILRDEKDIINRIPPAQRRAFEAMQERFKVLQQTVRFESSEQIMSERRQRAVSRG
HGIDL
MAIMFVRAQVISRGAGRSIVSAAAYRHRARMMDEQAGTSFSYRGGASELVHEELSLPDQLPAWLRSAIEG
RSVAGASEALWNAVDAFEKRADAQLARELIIAVPEELTRGENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHVMTTLRPMTQEGFGPKKVAVTGEDGNSLRVVTPDRPNGKIVYKLWAGDKETMKVWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQRHLGPEKAALSRRGAEMYFAPADLARRQEMADRLLADPELLLKQ
LGNERSTFDERDIAKALHRYVDDPAVFANIRARLMVSDDLVLLKPQQVDAETAKVAEPAVFTTRELLRIE
YDMARSAQVLSEHKGFAVSDRAVAAAIRHVETGDPEKSFRLDPEQVDAVRHVTRDNGIAAVVGLAGTGKS
TLLAAARVAWESGGSRVIGAALAGKAAEGLEDSSGIRSRTLASWELIWANGHETLHRGDVVVVDEAGMVS
SQQMARVLDIVEQAGAKVVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQRQPWAREASRLFARGE
IEKGLDAYAQQGHLIEAGTRAETIDRIVADWSEARKRAIETAALKGNDGRLRGDELLVLAHTNQDVKRLN
EALRTVMTGEGALGENRSFQTERGGRDFAAGDRIIFLENARFLEPRAPRLGPQYVKNGMLGTVVSTGDKR
GDTLLSVRLDNGRDVVISENSYRNVDHGYAATIHKSQGSTVERTLVLATGMMDQHLTYVSMTRHRDRADL
YAAKEDFEARPEWGRKPRVDHAAGVTGELVETGQAKFRPNDEDADDSPYADVKTEDGSVHRLWGVSLPKA
LEEGGVSQGDTVTLRKDGVERVKVQVPIVDEQTGQKRYEEREVDRNVWTAKRIETAAERLERIELESHRP
ELFKQLVERLSRSGAKTTTLDFESEAGYRQYADDFARRRGLDHLSQTAAGMEEGVSRRWAAIAEKREQLA
ELWERASVALGFAIERERRVAYSEERTETQTVTGADIAGGRYLLPSTTGFTRSVEEDARLAQLASPDWKE
REAILRPLLEKIYRDQDAALVALNALASDLKIEPRRLADDLVVAPDRLSRLRGSDLIVDGRAARDERSVA
TAALLELVPLARAQATEFRRNAERFDLREQQRRAHMSLPIPALSKTAMARLVEIEAVRRQGGDDAYKTAF
ALATEDRSLVQEVKAVSEALSARFGWSAFTPNADALAERNMVERMPEDLASTRREKLTRLFEAVKHFADE
QHLAERRDRSKIVAGASADQGMEAGKENAAVLPMLAAVTEFKTPIDEEARSRTLATPLYRQQRTALAAVA
STIWRDPAGAVGKIEDLLAKGFAGDRIAAAVTNDPAAYGALRGSDRLMDRMLASGRERKEAVQAVPEAAA
RLRALGSAYVNVLDGERQAVAEERRRMAVAIPGLSKAAEDVLMRLTTGAKNNGRKKNASAASLDPDIRRE
FEAVSRALDERFGRSAILRDEKDIINRIPPAQRRAFEAMQERFKVLQQTVRFESSEQIMSERRQRAVSRG
HGIDL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 1547 | GenBank | WP_130671194 |
| Name | traG_ELH95_RS28560_pSM138B_Rh03 |
UniProt ID | _ |
| Length | 637 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 637 a.a. Molecular weight: 70381.05 Da Isoelectric Point: 8.7930
>WP_130671194.1 Ti-type conjugative transfer system protein TraG [Rhizobium leguminosarum]
MALKGRLYPSLLLVFVPIALTAIAVYITGWRWPALAHGLSGKTEYWFLRVAPVPALLFGPLAGLLTVWAL
PLHRRRPVAMASLFCFLLVAGFYTLREYGRLAPSVERGAVTWDHALSYLDFVAVIGALAGFIAVAAAARI
SVVVPEPVKRAKGGAFGDADWLSMSAAARLFPPDGEIVVGERYRVDKEVVHELPFDPNDRSTWGQGGKAP
LLTYSQDFDSTHMLFFAGSGGYKTTSNVLPTALRYTGPLICLDPSTEVAPMVVEHRTRVLGREVMVLDPT
NPITGFNVLDGIEHSQRKEEDIVGIAHMLLSESLRFESSTGSYFQNQAHNLLTGLLAHVMLSPEYAGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSESAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKSSDIVSDKKDVFLNIPASILRSYPGIGRVIIGSLINAMVQADGGFSRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLLYQSVGQLERHFGKDGATSWIDGCAFASYAAIKALDTARNISAQCGEMTVEVQG
RSRNIGWDTKGGGTRKSESVNFQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKEMDAQAK
ANRFVRT
MALKGRLYPSLLLVFVPIALTAIAVYITGWRWPALAHGLSGKTEYWFLRVAPVPALLFGPLAGLLTVWAL
PLHRRRPVAMASLFCFLLVAGFYTLREYGRLAPSVERGAVTWDHALSYLDFVAVIGALAGFIAVAAAARI
SVVVPEPVKRAKGGAFGDADWLSMSAAARLFPPDGEIVVGERYRVDKEVVHELPFDPNDRSTWGQGGKAP
LLTYSQDFDSTHMLFFAGSGGYKTTSNVLPTALRYTGPLICLDPSTEVAPMVVEHRTRVLGREVMVLDPT
NPITGFNVLDGIEHSQRKEEDIVGIAHMLLSESLRFESSTGSYFQNQAHNLLTGLLAHVMLSPEYAGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSESAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKSSDIVSDKKDVFLNIPASILRSYPGIGRVIIGSLINAMVQADGGFSRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLLYQSVGQLERHFGKDGATSWIDGCAFASYAAIKALDTARNISAQCGEMTVEVQG
RSRNIGWDTKGGGTRKSESVNFQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKEMDAQAK
ANRFVRT
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 199519..209122
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ELH95_RS28665 (ELH95_28670) | 196365..198086 | - | 1722 | WP_130747779 | ShlB/FhaC/HecB family hemolysin secretion/activation protein | - |
| ELH95_RS28670 (ELH95_28675) | 198099..198734 | - | 636 | WP_130680325 | invasion associated locus B family protein | - |
| ELH95_RS35880 | 199208..199376 | + | 169 | Protein_181 | nucleotidyltransferase | - |
| ELH95_RS28675 (ELH95_28680) | 199519..200559 | - | 1041 | WP_130671371 | P-type DNA transfer ATPase VirB11 | virB11 |
| ELH95_RS28680 (ELH95_28685) | 200566..201738 | - | 1173 | WP_130671370 | type IV secretion system protein VirB10 | virB10 |
| ELH95_RS28685 (ELH95_28690) | 201748..202602 | - | 855 | WP_130680326 | P-type conjugative transfer protein VirB9 | virB9 |
| ELH95_RS28690 (ELH95_28695) | 202599..203270 | - | 672 | WP_130680327 | virB8 family protein | virB8 |
| ELH95_RS28695 (ELH95_28700) | 203272..203556 | - | 285 | WP_130671367 | hypothetical protein | - |
| ELH95_RS28700 (ELH95_28705) | 203597..204529 | - | 933 | WP_130680328 | type IV secretion system protein | virB6 |
| ELH95_RS28705 (ELH95_28710) | 204533..204766 | - | 234 | WP_130680329 | EexN family lipoprotein | - |
| ELH95_RS28710 (ELH95_28715) | 204763..205461 | - | 699 | WP_130680330 | P-type DNA transfer protein VirB5 | virB5 |
| ELH95_RS28715 (ELH95_28720) | 205461..207827 | - | 2367 | WP_130680331 | VirB4 family type IV secretion system protein | virb4 |
| ELH95_RS28720 (ELH95_28725) | 207820..208158 | - | 339 | WP_130680332 | type IV secretion system protein VirB3 | virB3 |
| ELH95_RS28725 (ELH95_28730) | 208164..208463 | - | 300 | WP_130680333 | TrbC/VirB2 family protein | virB2 |
| ELH95_RS28730 (ELH95_28735) | 208460..209122 | - | 663 | WP_130680334 | lytic transglycosylase domain-containing protein | virB1 |
| ELH95_RS28735 (ELH95_28740) | 209126..209665 | - | 540 | WP_130680335 | hypothetical protein | - |
| ELH95_RS28740 (ELH95_28745) | 209757..210110 | + | 354 | WP_130671358 | MarR family transcriptional regulator | - |
| ELH95_RS28750 (ELH95_28755) | 210574..211549 | + | 976 | Protein_196 | UbiA prenyltransferase family protein | - |
| ELH95_RS28755 (ELH95_28760) | 211546..212250 | + | 705 | WP_130671357 | HAD family hydrolase | - |
| ELH95_RS28760 (ELH95_28765) | 212247..212612 | + | 366 | WP_130671356 | GtrA family protein | - |
| ELH95_RS28765 (ELH95_28770) | 212766..213267 | + | 502 | Protein_199 | transposase | - |
Host bacterium
| ID | 3018 | GenBank | NZ_SIOU01000004 |
| Plasmid name | pSM138B_Rh03 | Incompatibility group | - |
| Plasmid size | 314509 bp | Coordinate of oriT [Strand] | 168928..168956 [-] |
| Host baterium | Rhizobium leguminosarum strain SM138B |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |