Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 102521 |
| Name | oriT_pSM152B_Rh03  |
| Organism | Rhizobium leguminosarum strain SM152B |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_SIPV01000004 (285367..285395 [-], 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_pSM152B_Rh03
AGGGCGCAATATACGTCGCTGTGGCGACG
AGGGCGCAATATACGTCGCTGTGGCGACG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1872 | GenBank | WP_130671197 |
| Name | traA_ELI22_RS29765_pSM152B_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: 170776.89 Da Isoelectric Point: 7.1939
>WP_130671197.1 Ti-type conjugative transfer relaxase TraA [Rhizobium leguminosarum]
MAIMFVRAQVISRGAGRSIVSAAAYRHRARMMDEQAGTSFSYRGGASELVHEELSLPDQLPAWLRSAIEG
RSVAGASEALWNAVDAFEKRADAQLARELIIAVPEELTRGENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHVMTTLRPMTQEGFGPKKVAVTGEDGNSLRVVTPDRPNGKIVYKLWAGDKETMKVWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQRHLGPEKAALSRRGAEMYFAPADLARRQEMADRLLADPELLLKQ
LGNERSTFDERDIAKALHRYVDDPAVFANIRARLMVSDDLVLLKPQQVDAETAKVAEPAVFTTRELLRIE
YDMARSAQVLSEHKGFAVSDRAVAAAIRHVETGDPEKSFRLDPEQVDAVRHVTRDNGIAAVVGLAGTGKS
TLLAAARVAWESGGSRVIGAALAGKAAEGLEDSSGIRSRTLASWELIWANGHETLHRGDVVVVDEAGMVS
SQQMARVLDIVEQAGAKVVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQRQPWAREASRLFARGE
IEKGLDAYAQQGHLIEAGTRAETIDRIVADWSEARKRAIETAALKGNDGRLRGDELLVLAHTNQDVKRLN
EALRTVMTGEGALGENRSFQTERGGRDFAAGDRIIFLENARFLEPRAPRLGPQYVKNGMLGTVVSTGDKR
GDTLLSVRLDNGRDVVISENSYRNVDHGYAATIHKSQGSTVERTLVLATGMMDQHLTYVSMTRHRDRADL
YAAKEDFEARPEWGRKPRVDHAAGVTGELVETGQAKFRPNDEDADDSPYADVKTEDGSVHRLWGVSLPKA
LEEGGVSQGDTVTLRKDGVERVKVQVPIVDEQTGQKRYEEREVDRNVWTAKRIETAAERLERIELESHRP
ELFKQLVERLSRSGAKTTTLDFESEAGYRQYADDFARRRGLDHLSQTAAGMEEGVSRRWAAIAEKREQLA
ELWERASVALGLAIERERRASYNEERIETQTVPDADAGRARYLIPSTTEFARSAEEDARLAQLGSPAWKD
REAILRPLLEKIYRDPDAALVALNALASDNTIEPRRLADDLAVAPDRLGRVRGSDLMVDGRAARDERSIA
IAALTELIPLVRAHATEFRRNAERFGVREQQRRAHMPLPIPALSKAAMARLVEIEAVRRQGGDDAYKTAF
ALATEDRSLVQEVKAVSEALTARFGWSAFTPNADALAERNMVERMPEDLASTRREKLTRLFEAVKHFAEE
QHLAERRDRSKIVAGASADQGMEAGKENAAVLPMLAAVTEFKTPIDEEARSRALATPLYRHQRAALAAVA
STIWRDPAGAIGKIEELLQKGFAGDRIAAAVTNDPSAYSALRGSDRLMDRMLAAGRERKDAVQALPEAAA
RLRALGSAYVNVLAAERHAIAEERRRMAVAIPGLSKAAEEALMRLTAEAKNNGRKRNASAVSLDPTIRQE
FAAVSRALDARFGRSAILRDEKDIINRIPPAQRRAFEAMQERFKVLQQTVRFESSEQIMSERRQRAVSRG
HGIDL
MAIMFVRAQVISRGAGRSIVSAAAYRHRARMMDEQAGTSFSYRGGASELVHEELSLPDQLPAWLRSAIEG
RSVAGASEALWNAVDAFEKRADAQLARELIIAVPEELTRGENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHVMTTLRPMTQEGFGPKKVAVTGEDGNSLRVVTPDRPNGKIVYKLWAGDKETMKVWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQRHLGPEKAALSRRGAEMYFAPADLARRQEMADRLLADPELLLKQ
LGNERSTFDERDIAKALHRYVDDPAVFANIRARLMVSDDLVLLKPQQVDAETAKVAEPAVFTTRELLRIE
YDMARSAQVLSEHKGFAVSDRAVAAAIRHVETGDPEKSFRLDPEQVDAVRHVTRDNGIAAVVGLAGTGKS
TLLAAARVAWESGGSRVIGAALAGKAAEGLEDSSGIRSRTLASWELIWANGHETLHRGDVVVVDEAGMVS
SQQMARVLDIVEQAGAKVVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQRQPWAREASRLFARGE
IEKGLDAYAQQGHLIEAGTRAETIDRIVADWSEARKRAIETAALKGNDGRLRGDELLVLAHTNQDVKRLN
EALRTVMTGEGALGENRSFQTERGGRDFAAGDRIIFLENARFLEPRAPRLGPQYVKNGMLGTVVSTGDKR
GDTLLSVRLDNGRDVVISENSYRNVDHGYAATIHKSQGSTVERTLVLATGMMDQHLTYVSMTRHRDRADL
YAAKEDFEARPEWGRKPRVDHAAGVTGELVETGQAKFRPNDEDADDSPYADVKTEDGSVHRLWGVSLPKA
LEEGGVSQGDTVTLRKDGVERVKVQVPIVDEQTGQKRYEEREVDRNVWTAKRIETAAERLERIELESHRP
ELFKQLVERLSRSGAKTTTLDFESEAGYRQYADDFARRRGLDHLSQTAAGMEEGVSRRWAAIAEKREQLA
ELWERASVALGLAIERERRASYNEERIETQTVPDADAGRARYLIPSTTEFARSAEEDARLAQLGSPAWKD
REAILRPLLEKIYRDPDAALVALNALASDNTIEPRRLADDLAVAPDRLGRVRGSDLMVDGRAARDERSIA
IAALTELIPLVRAHATEFRRNAERFGVREQQRRAHMPLPIPALSKAAMARLVEIEAVRRQGGDDAYKTAF
ALATEDRSLVQEVKAVSEALTARFGWSAFTPNADALAERNMVERMPEDLASTRREKLTRLFEAVKHFAEE
QHLAERRDRSKIVAGASADQGMEAGKENAAVLPMLAAVTEFKTPIDEEARSRALATPLYRHQRAALAAVA
STIWRDPAGAIGKIEELLQKGFAGDRIAAAVTNDPSAYSALRGSDRLMDRMLAAGRERKDAVQALPEAAA
RLRALGSAYVNVLAAERHAIAEERRRMAVAIPGLSKAAEEALMRLTAEAKNNGRKRNASAVSLDPTIRQE
FAAVSRALDARFGRSAILRDEKDIINRIPPAQRRAFEAMQERFKVLQQTVRFESSEQIMSERRQRAVSRG
HGIDL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 1471 | GenBank | WP_130671194 |
| Name | traG_ELI22_RS29780_pSM152B_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: 2884..12487
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ELI22_RS28380 (ELI22_28375) | 1..1451 | - | 1451 | WP_130671373 | ShlB/FhaC/HecB family hemolysin secretion/activation protein | - |
| ELI22_RS28385 (ELI22_28380) | 1464..2099 | - | 636 | WP_130671372 | invasion associated locus B family protein | - |
| ELI22_RS35690 | 2573..2741 | + | 169 | Protein_2 | nucleotidyltransferase | - |
| ELI22_RS28390 (ELI22_28385) | 2884..3924 | - | 1041 | WP_130671371 | P-type DNA transfer ATPase VirB11 | virB11 |
| ELI22_RS28395 (ELI22_28390) | 3931..5103 | - | 1173 | WP_130671370 | type IV secretion system protein VirB10 | virB10 |
| ELI22_RS28400 (ELI22_28395) | 5113..5967 | - | 855 | WP_130671369 | P-type conjugative transfer protein VirB9 | virB9 |
| ELI22_RS28405 (ELI22_28400) | 5964..6635 | - | 672 | WP_130671368 | virB8 family protein | virB8 |
| ELI22_RS28410 (ELI22_28405) | 6637..6921 | - | 285 | WP_130671367 | hypothetical protein | - |
| ELI22_RS28415 (ELI22_28410) | 6974..7894 | - | 921 | WP_130671366 | type IV secretion system protein | virB6 |
| ELI22_RS28420 (ELI22_28415) | 7898..8131 | - | 234 | WP_130671365 | EexN family lipoprotein | - |
| ELI22_RS28425 (ELI22_28420) | 8128..8793 | - | 666 | WP_245487114 | P-type DNA transfer protein VirB5 | virB5 |
| ELI22_RS28430 (ELI22_28425) | 8826..11192 | - | 2367 | WP_130671363 | VirB4 family type IV secretion system protein | virb4 |
| ELI22_RS28435 (ELI22_28430) | 11185..11523 | - | 339 | WP_130671362 | type IV secretion system protein VirB3 | virB3 |
| ELI22_RS28440 (ELI22_28435) | 11529..11828 | - | 300 | WP_130671361 | TrbC/VirB2 family protein | virB2 |
| ELI22_RS28445 (ELI22_28440) | 11825..12487 | - | 663 | WP_130671360 | lytic transglycosylase domain-containing protein | virB1 |
| ELI22_RS28450 (ELI22_28445) | 12491..13030 | - | 540 | WP_130671359 | hypothetical protein | - |
| ELI22_RS28455 (ELI22_28450) | 13122..13475 | + | 354 | WP_130671358 | MarR family transcriptional regulator | - |
| ELI22_RS28465 (ELI22_28460) | 13939..14914 | + | 976 | Protein_17 | UbiA prenyltransferase family protein | - |
| ELI22_RS28470 (ELI22_28465) | 14911..15615 | + | 705 | WP_130671357 | HAD family hydrolase | - |
| ELI22_RS28475 (ELI22_28470) | 15612..15977 | + | 366 | WP_130671356 | GtrA family protein | - |
| ELI22_RS28480 (ELI22_28475) | 16131..16632 | + | 502 | Protein_20 | transposase | - |
Host bacterium
| ID | 2965 | GenBank | NZ_SIPV01000004 |
| Plasmid name | pSM152B_Rh03 | Incompatibility group | - |
| Plasmid size | 313078 bp | Coordinate of oriT [Strand] | 285367..285395 [-] |
| Host baterium | Rhizobium leguminosarum strain SM152B |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |