Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 102579 |
| Name | oriT_pSM79_Rh01  |
| Organism | Rhizobium leguminosarum strain SM79 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_SIME01000002 (804653..804681 [-], 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_pSM79_Rh01
AGGGCGCAATATACGTCGCTATCGCGACG
AGGGCGCAATATACGTCGCTATCGCGACG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1927 | GenBank | WP_130766950 |
| Name | traA_ELH27_RS27355_pSM79_Rh01 |
UniProt ID | _ |
| Length | 1532 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1532 a.a. Molecular weight: 169407.06 Da Isoelectric Point: 7.2051
>WP_130766950.1 Ti-type conjugative transfer relaxase TraA [Rhizobium leguminosarum]
MAIMFVRAQVISRGAGRSIVSAAAYRHRTRMMDEQAGTSFSYRGGASELVHEELALPDQMPTWLRTAIDG
RSVAGASEALWNAVDAFEKRADAQLARELIIALPEELTRAENIALVREFVRDNFTSKGMVADWVYHDRDG
NPHIHLMTTLRPLTEEGFGQKKVAVTGDDGAPLRVVTPDRPKGRIVYRLWAGDKETMKAWKIAWADTANR
HLALAGHEVRLDGRSYAEQGLDGIAQTHLGPEKAALVRKGRELHFAPADLARRQEMADRLLADPTLLLKQ
LSNERSTFDERDIAKALHRHVDDPAVFANIRGRLMASDDLIMLKPQQIDAETGKASEPAIFTTREILRSE
YDMARSAQVLSEHRGFAVSDRVVAAAISNVETRDPQKSFHLDPEQVDAVRHVTRDNGIAAVVGLAGAGKS
TLLAAARVAWESDGRRVIGAALAGKAAEGLEDSSGIRSRTLAAWELTWASGRELLERGNVLVIDEAGMVS
SQQMARVLDIAEQAEAKVVLVGDGMQLQPIQAGAAFRAITERIGFAELAGVRRQRQQWAREASRLFARGE
VEQGLDAYARHGHLVEAGTRDEVIARIVGDWSEARKLAIETSVRQGNDGRLRGDELLVLAHTNEDVKRLN
EALRSVMSQEGALSENRTFRTERGARDFAAGDRIIFLENARFIEPRAPRLGPQHVKNGMLGTVVSTGDKL
LSVRLDNGRDVVISEDSYRNVDHGYAATIHKSQGATVDRTFVLATGMMDQHLTYVSMTRHRDRADLYAAK
EDFEAKPEWGRKPHVDHAAGVTGALVETGQAKFRPSDEDADDSPYADVRTDDGTIHRLWGVSLPKALEEG
GVSEGDTVTLRKDGVERVTIKVPVVDEQTGQKRFEEREVDRNVWTAKRIETSEERRQRIEQESHRPDLFK
QLVERLSRSGAKTTTLDFESEAGYCAQAQDFARRRGLDHLSLAAAGVEESLSRRWAGIAERRKQLAKLWE
RAGVALGFTIERERRVAYSEERAEPQPVVEADAARVRYLIPPATGFARSAEEDARLAQLASPAWKEREAL
LRPLLETIYRDPDAALVALNALSSDTSIEPRRLADDLANAPDRLGRLRGSDLIVDGRAARDERNAAITAL
TDLLPLARAHATEFRRNGERFDLGEQRRRTHMSLPIPALSEKAMARLTEIEAVRRQGGDDAYKTAFALAT
EDRSIVQEVKAVSEALSARFGWSAFTAKADAVAERNMIERMPEDLTSISGEKLTRLFEAVKRFADEQHLV
ERRDRSKIVAAASADPQKENVPMLAAVTEFKTAVDEEARSRALATPLYRHQRAALAAVASTIWRDPAGAV
GKIEELLQKGFAGERIAAAVTNDPAAYGALRGSDRLVDRMLAAGRERKEVVQAVPEAGARLRALGSAYVN
LLDAERQATTEERRRMAVAIPGLSTAAEDVLMRLTAEAKKNGRKLSGSAASLGPDIRREFAAVSSALDER
FGRSAIIRGEKDLSNRVPPAQHRAFEVMQEKLKVLQQTVRRESSEQIISERRQRTTNRSIDL
MAIMFVRAQVISRGAGRSIVSAAAYRHRTRMMDEQAGTSFSYRGGASELVHEELALPDQMPTWLRTAIDG
RSVAGASEALWNAVDAFEKRADAQLARELIIALPEELTRAENIALVREFVRDNFTSKGMVADWVYHDRDG
NPHIHLMTTLRPLTEEGFGQKKVAVTGDDGAPLRVVTPDRPKGRIVYRLWAGDKETMKAWKIAWADTANR
HLALAGHEVRLDGRSYAEQGLDGIAQTHLGPEKAALVRKGRELHFAPADLARRQEMADRLLADPTLLLKQ
LSNERSTFDERDIAKALHRHVDDPAVFANIRGRLMASDDLIMLKPQQIDAETGKASEPAIFTTREILRSE
YDMARSAQVLSEHRGFAVSDRVVAAAISNVETRDPQKSFHLDPEQVDAVRHVTRDNGIAAVVGLAGAGKS
TLLAAARVAWESDGRRVIGAALAGKAAEGLEDSSGIRSRTLAAWELTWASGRELLERGNVLVIDEAGMVS
SQQMARVLDIAEQAEAKVVLVGDGMQLQPIQAGAAFRAITERIGFAELAGVRRQRQQWAREASRLFARGE
VEQGLDAYARHGHLVEAGTRDEVIARIVGDWSEARKLAIETSVRQGNDGRLRGDELLVLAHTNEDVKRLN
EALRSVMSQEGALSENRTFRTERGARDFAAGDRIIFLENARFIEPRAPRLGPQHVKNGMLGTVVSTGDKL
LSVRLDNGRDVVISEDSYRNVDHGYAATIHKSQGATVDRTFVLATGMMDQHLTYVSMTRHRDRADLYAAK
EDFEAKPEWGRKPHVDHAAGVTGALVETGQAKFRPSDEDADDSPYADVRTDDGTIHRLWGVSLPKALEEG
GVSEGDTVTLRKDGVERVTIKVPVVDEQTGQKRFEEREVDRNVWTAKRIETSEERRQRIEQESHRPDLFK
QLVERLSRSGAKTTTLDFESEAGYCAQAQDFARRRGLDHLSLAAAGVEESLSRRWAGIAERRKQLAKLWE
RAGVALGFTIERERRVAYSEERAEPQPVVEADAARVRYLIPPATGFARSAEEDARLAQLASPAWKEREAL
LRPLLETIYRDPDAALVALNALSSDTSIEPRRLADDLANAPDRLGRLRGSDLIVDGRAARDERNAAITAL
TDLLPLARAHATEFRRNGERFDLGEQRRRTHMSLPIPALSEKAMARLTEIEAVRRQGGDDAYKTAFALAT
EDRSIVQEVKAVSEALSARFGWSAFTAKADAVAERNMIERMPEDLTSISGEKLTRLFEAVKRFADEQHLV
ERRDRSKIVAAASADPQKENVPMLAAVTEFKTAVDEEARSRALATPLYRHQRAALAAVASTIWRDPAGAV
GKIEELLQKGFAGERIAAAVTNDPAAYGALRGSDRLVDRMLAAGRERKEVVQAVPEAGARLRALGSAYVN
LLDAERQATTEERRRMAVAIPGLSTAAEDVLMRLTAEAKKNGRKLSGSAASLGPDIRREFAAVSSALDER
FGRSAIIRGEKDLSNRVPPAQHRAFEVMQEKLKVLQQTVRRESSEQIISERRQRTTNRSIDL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 1555 | GenBank | WP_128410164 |
| Name | traG_ELH27_RS27370_pSM79_Rh01 |
UniProt ID | _ |
| Length | 637 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 637 a.a. Molecular weight: 70390.14 Da Isoelectric Point: 9.2899
>WP_128410164.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Rhizobium]
MALKGRLHPSLLLVFVPIAVTAITVYITGWRWTALAHGLSGKTEYWFLRAAPVPALLSGPLAGLLTVWAL
PLHRRRPIAIASFLCFLVVTGFYTLREYGRLVPSVERGVVTWNQALSYLDFIAVIGALAGFMAVAVAARI
SVVVPEAVKRARGGTFGDADWLSMAAAAKLFPRDGEIVVGERYRVDKETVHEAPFDPKDRSTWGQGGQAP
LLTYNQDFDSTHMLFFAGSGGYKTTSNVLPTALRYTGPLICLDPSTEVAPMVVEHRTRILGREVMVLDPA
NPIMGFNVLDGIEHSKRKEEDIVGIAHMLLSESLRFESSTGSYFQNQAHNLLTGLLAHVMLSPECSGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSETAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFRSSDIVTGKTDVFLNIPASILRSYPGIGRVIIGSLINAMVQADGGFSRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLLYQSVGQLERHFGKDGATSWIDGCAFASYAAIKALDTARNVSAQCGEMTVEVQG
RSRNIGWDTKGGGTRKSESVNFQRRPLIMPHEITQSMRKDEQIIIVPGHSPIRCGRAIYFRRKDMDAQAK
ANRFVRR
MALKGRLHPSLLLVFVPIAVTAITVYITGWRWTALAHGLSGKTEYWFLRAAPVPALLSGPLAGLLTVWAL
PLHRRRPIAIASFLCFLVVTGFYTLREYGRLVPSVERGVVTWNQALSYLDFIAVIGALAGFMAVAVAARI
SVVVPEAVKRARGGTFGDADWLSMAAAAKLFPRDGEIVVGERYRVDKETVHEAPFDPKDRSTWGQGGQAP
LLTYNQDFDSTHMLFFAGSGGYKTTSNVLPTALRYTGPLICLDPSTEVAPMVVEHRTRILGREVMVLDPA
NPIMGFNVLDGIEHSKRKEEDIVGIAHMLLSESLRFESSTGSYFQNQAHNLLTGLLAHVMLSPECSGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSETAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFRSSDIVTGKTDVFLNIPASILRSYPGIGRVIIGSLINAMVQADGGFSRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLLYQSVGQLERHFGKDGATSWIDGCAFASYAAIKALDTARNVSAQCGEMTVEVQG
RSRNIGWDTKGGGTRKSESVNFQRRPLIMPHEITQSMRKDEQIIIVPGHSPIRCGRAIYFRRKDMDAQAK
ANRFVRR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 8692..18252
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ELH27_RS23685 (ELH27_23685) | 5201..5617 | - | 417 | WP_130660238 | UPF0158 family protein | - |
| ELH27_RS23690 (ELH27_23690) | 5961..6869 | + | 909 | WP_130766952 | nucleotidyltransferase and HEPN domain-containing protein | - |
| ELH27_RS38230 (ELH27_23695) | 7089..7175 | - | 87 | Protein_6 | SDR family oxidoreductase | - |
| ELH27_RS23700 (ELH27_23700) | 7182..7514 | + | 333 | Protein_7 | LysR substrate-binding domain-containing protein | - |
| ELH27_RS23705 (ELH27_23705) | 7762..7977 | + | 216 | WP_130766736 | DUF3072 domain-containing protein | - |
| ELH27_RS23715 (ELH27_23715) | 8692..9687 | - | 996 | WP_130766737 | P-type DNA transfer ATPase VirB11 | virB11 |
| ELH27_RS23720 (ELH27_23720) | 9696..10868 | - | 1173 | WP_130766738 | type IV secretion system protein VirB10 | virB10 |
| ELH27_RS23725 (ELH27_23725) | 10878..11732 | - | 855 | WP_130766739 | P-type conjugative transfer protein VirB9 | virB9 |
| ELH27_RS23730 (ELH27_23730) | 11729..12400 | - | 672 | WP_130766740 | virB8 family protein | virB8 |
| ELH27_RS23735 (ELH27_23735) | 12402..12686 | - | 285 | WP_130666527 | hypothetical protein | - |
| ELH27_RS23740 (ELH27_23740) | 12739..13659 | - | 921 | WP_130766741 | type IV secretion system protein | virB6 |
| ELH27_RS23745 (ELH27_23745) | 13663..13896 | - | 234 | WP_130666525 | EexN family lipoprotein | - |
| ELH27_RS23750 (ELH27_23750) | 13893..14591 | - | 699 | WP_130766742 | P-type DNA transfer protein VirB5 | virB5 |
| ELH27_RS23755 (ELH27_23755) | 14591..16957 | - | 2367 | WP_130766743 | VirB4 family type IV secretion system protein | virb4 |
| ELH27_RS23760 (ELH27_23760) | 16950..17288 | - | 339 | WP_130766744 | type IV secretion system protein VirB3 | virB3 |
| ELH27_RS23765 (ELH27_23765) | 17294..17593 | - | 300 | WP_130766745 | TrbC/VirB2 family protein | virB2 |
| ELH27_RS23770 (ELH27_23770) | 17590..18252 | - | 663 | WP_130766746 | lytic transglycosylase domain-containing protein | virB1 |
| ELH27_RS38235 (ELH27_23775) | 18252..18791 | - | 540 | WP_130766747 | hypothetical protein | - |
| ELH27_RS23780 (ELH27_23780) | 18883..19236 | + | 354 | WP_128404288 | MarR family transcriptional regulator | - |
| ELH27_RS23785 (ELH27_23785) | 19412..21187 | - | 1776 | WP_245504888 | adenylate/guanylate cyclase domain-containing protein | - |
| ELH27_RS23790 (ELH27_23790) | 21171..22169 | - | 999 | WP_130766748 | ABC transporter substrate-binding protein | - |
Host bacterium
| ID | 3023 | GenBank | NZ_SIME01000002 |
| Plasmid name | pSM79_Rh01 | Incompatibility group | - |
| Plasmid size | 814162 bp | Coordinate of oriT [Strand] | 804653..804681 [-] |
| Host baterium | Rhizobium leguminosarum strain SM79 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | fixB, fixA |
| Anti-CRISPR | - |