Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 121138 |
| Name | oriT_pRRI128_2  |
| Organism | Sinorhizobium meliloti strain RRI128 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP088115 (648677..648705 [+], 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_pRRI128_2
AGGGCGCAATATACGTCGCTGGCGCGACG
AGGGCGCAATATACGTCGCTGGCGCGACG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 13345 | GenBank | WP_231198602 |
| Name | traA_SmelRRI128_RS28510_pRRI128_2 |
UniProt ID | _ |
| Length | 1539 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1539 a.a. Molecular weight: 170264.05 Da Isoelectric Point: 9.4333
>WP_231198602.1 Ti-type conjugative transfer relaxase TraA [Sinorhizobium meliloti]
MAIMFVRAQVIGRGAGRSIVSAAAYRHRTRMIDEQAGTSFSYRGGASELVHEELVLPDDIPAWLKAAIDG
RSVAKASEALWNAVEAHETRADAQLARELIIALPEELTRAENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHLMTALRPLTEEGFGPKKVPVLGEDGEPLRVVTPDRPNGKIVYKLWAGDKETIKAWKIAWAEIANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGIAMYFAPADLARRQEMADRLLAEPELLLKQ
LGNERSTFDERDIARALHRYVDDPVDFANIRARLMASDELVLLKPQQIDAETGKAKQPAVFTTREMLRLE
YAMARSAEVLSRRKGFGVSNARAAAAVRSIETADTEKPFRLDPEQVDAVRHVTRDNAIAAVVGLAGAGKS
TLLAAARVAWEGEGRRVIGAALAGKAAEGLEDSSGIRSRTLASWELAWESGREQLNRGDVLVIDEAGMVS
SQQMARILKAVEDAGAKAVLVGDAMQLQPIEAGAAFRAITERIGFAELAGVRRQRDAWARDASRLFARGK
VEEGLDAYAQQGRIVETETRAEIVGRIVADWANARRDLLQKSADGEHPGRLRGDELLVLAHTNDDVRKLN
TSLRQVMTGEGALAGAREFQTARGLREFAAGDRIIFLENARFIEPRARRLGPQYVKNGMLGTVVSTGDRR
GDTLLSVRLDSGREVVISEDSYRNVDHGYAATIHKSQGSTVDRTFVLATGMMDQHLTYVAMTRHRDRADL
YAAKEDFEAKPEWGRKPRVDHAAGVTGELVKEGMAKFRPNDEDADESPYADIRTDDGTVQRLWGVSLPKA
LKDAGVAEGDTITLRKDGVERVKVQVPIVDEQTGEKRFEERQVDRNVWSASQLETAAARRERIERESHRP
QLFKQLVERLSRSGAKTTTLDFEDEAGYQAQARDFARRRGLYHLSLVAAGMEEEVLRRWAGIAEKREQVA
KLWERASVALGFAIERERRVSYNEERTETLSTGIPSDGKYLVPPTTTFSRSVAEDARLAQLSSQRWKERE
AIVHPVLAKIYRDPDGALSALNALASDAAIEPRKLAEDLGLAPDRLGRLRGSELVVDGRAARDERTAATV
ALSELLPLARAHATEFRRNAERFGIREQQRRAHMALSVPALSKTAMARLVEIEAVRKQGGDDAYRTAFAF
AVEDRLLVQEVKAVNEALTARFGWSAFTAKADVIAERNIAERMPEDLAPERREKLTRLFAVIRRFAEEQR
LAERQDRSKIIAGASVELGKETFAVLPMLAPVTEFKTTVDEEARERALAAPHYAHHRAALVETATRVWRD
PADAIGKIEDLIVKGFAGERIAAAVSNDPAAYGALRGSDRIMDKLLAVGRERKGALQAVPEAASRIRSLG
ASYASALDAETRSITEERRRMAFAIPGLSPAAEDALKRLAAQIKNKDGKLDVAAGSLDPHIAREFAKVSR
ALDERFGRNAILRGETDVINRVSPAQRRAFEAMRDRLTILQQAVRIQSSQEIISERQRRVIDRARGVTR
MAIMFVRAQVIGRGAGRSIVSAAAYRHRTRMIDEQAGTSFSYRGGASELVHEELVLPDDIPAWLKAAIDG
RSVAKASEALWNAVEAHETRADAQLARELIIALPEELTRAENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHLMTALRPLTEEGFGPKKVPVLGEDGEPLRVVTPDRPNGKIVYKLWAGDKETIKAWKIAWAEIANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGIAMYFAPADLARRQEMADRLLAEPELLLKQ
LGNERSTFDERDIARALHRYVDDPVDFANIRARLMASDELVLLKPQQIDAETGKAKQPAVFTTREMLRLE
YAMARSAEVLSRRKGFGVSNARAAAAVRSIETADTEKPFRLDPEQVDAVRHVTRDNAIAAVVGLAGAGKS
TLLAAARVAWEGEGRRVIGAALAGKAAEGLEDSSGIRSRTLASWELAWESGREQLNRGDVLVIDEAGMVS
SQQMARILKAVEDAGAKAVLVGDAMQLQPIEAGAAFRAITERIGFAELAGVRRQRDAWARDASRLFARGK
VEEGLDAYAQQGRIVETETRAEIVGRIVADWANARRDLLQKSADGEHPGRLRGDELLVLAHTNDDVRKLN
TSLRQVMTGEGALAGAREFQTARGLREFAAGDRIIFLENARFIEPRARRLGPQYVKNGMLGTVVSTGDRR
GDTLLSVRLDSGREVVISEDSYRNVDHGYAATIHKSQGSTVDRTFVLATGMMDQHLTYVAMTRHRDRADL
YAAKEDFEAKPEWGRKPRVDHAAGVTGELVKEGMAKFRPNDEDADESPYADIRTDDGTVQRLWGVSLPKA
LKDAGVAEGDTITLRKDGVERVKVQVPIVDEQTGEKRFEERQVDRNVWSASQLETAAARRERIERESHRP
QLFKQLVERLSRSGAKTTTLDFEDEAGYQAQARDFARRRGLYHLSLVAAGMEEEVLRRWAGIAEKREQVA
KLWERASVALGFAIERERRVSYNEERTETLSTGIPSDGKYLVPPTTTFSRSVAEDARLAQLSSQRWKERE
AIVHPVLAKIYRDPDGALSALNALASDAAIEPRKLAEDLGLAPDRLGRLRGSELVVDGRAARDERTAATV
ALSELLPLARAHATEFRRNAERFGIREQQRRAHMALSVPALSKTAMARLVEIEAVRKQGGDDAYRTAFAF
AVEDRLLVQEVKAVNEALTARFGWSAFTAKADVIAERNIAERMPEDLAPERREKLTRLFAVIRRFAEEQR
LAERQDRSKIIAGASVELGKETFAVLPMLAPVTEFKTTVDEEARERALAAPHYAHHRAALVETATRVWRD
PADAIGKIEDLIVKGFAGERIAAAVSNDPAAYGALRGSDRIMDKLLAVGRERKGALQAVPEAASRIRSLG
ASYASALDAETRSITEERRRMAFAIPGLSPAAEDALKRLAAQIKNKDGKLDVAAGSLDPHIAREFAKVSR
ALDERFGRNAILRGETDVINRVSPAQRRAFEAMRDRLTILQQAVRIQSSQEIISERQRRVIDRARGVTR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 15633 | GenBank | WP_027991006 |
| Name | traG_SmelRRI128_RS28495_pRRI128_2 |
UniProt ID | _ |
| Length | 639 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 639 a.a. Molecular weight: 70399.34 Da Isoelectric Point: 9.2422
>WP_027991006.1 Ti-type conjugative transfer system protein TraG [Sinorhizobium meliloti]
MALKAKPHPSLLLILLPVAVTAFAIYVVGWRWPGLAAGMSGNTAYWFLRASPVPALLFGPLAGLLAVWAL
PLHRRRPVAMASLACFLTVAGFYALREFGRLSPSVESGLLSWDRALSYLDMVAVVGAVVGFMAVAVSARI
STVVPEPVKRAKRGTFGDADWLPMSAAGKLFPPDGEIVVGERYRVDKDIVHELPFDPDDPATWGKGGKAP
LLTYSQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVLEHRTRVLGREVMVLDPT
NPIMGFNVLDGIEHSRQKEEDIVGIAHMLLSESVRFESSSGAYFQNQAHNLLTGLLAHVMLSPEYAGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSQSAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFRSTDIVTGKKDVFLNIPASILRSYPGIGRVIIGSLINAMIQADGSFKRRALFMLDEVDLLGYMRLL
EEARDRGRKYGISMMLLYQSLGQLERHFGRDGAVSWIDGCAFASYAAVKALDTARNISAQCGEMTVEVKG
SSRNIGWDTKNSASRKSENVNYQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKDMNEAAK
ANRFVKAIP
MALKAKPHPSLLLILLPVAVTAFAIYVVGWRWPGLAAGMSGNTAYWFLRASPVPALLFGPLAGLLAVWAL
PLHRRRPVAMASLACFLTVAGFYALREFGRLSPSVESGLLSWDRALSYLDMVAVVGAVVGFMAVAVSARI
STVVPEPVKRAKRGTFGDADWLPMSAAGKLFPPDGEIVVGERYRVDKDIVHELPFDPDDPATWGKGGKAP
LLTYSQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVLEHRTRVLGREVMVLDPT
NPIMGFNVLDGIEHSRQKEEDIVGIAHMLLSESVRFESSSGAYFQNQAHNLLTGLLAHVMLSPEYAGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSQSAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFRSTDIVTGKKDVFLNIPASILRSYPGIGRVIIGSLINAMIQADGSFKRRALFMLDEVDLLGYMRLL
EEARDRGRKYGISMMLLYQSLGQLERHFGRDGAVSWIDGCAFASYAAVKALDTARNISAQCGEMTVEVKG
SSRNIGWDTKNSASRKSENVNYQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKDMNEAAK
ANRFVKAIP
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 758915..768493
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| SmelRRI128_RS29040 (SmelRRI128_29040) | 754532..755554 | - | 1023 | WP_010967682 | alcohol dehydrogenase AdhP | - |
| SmelRRI128_RS29045 (SmelRRI128_29045) | 755802..756479 | - | 678 | WP_010967683 | YoaK family protein | - |
| SmelRRI128_RS29050 (SmelRRI128_29050) | 756731..757342 | + | 612 | WP_010967684 | TetR/AcrR family transcriptional regulator | - |
| SmelRRI128_RS29055 (SmelRRI128_29055) | 757377..758603 | + | 1227 | WP_010967685 | MFS transporter | - |
| SmelRRI128_RS29060 (SmelRRI128_29060) | 758915..759904 | - | 990 | WP_010967686 | P-type DNA transfer ATPase VirB11 | virB11 |
| SmelRRI128_RS29065 (SmelRRI128_29065) | 759915..761087 | - | 1173 | WP_010967687 | type IV secretion system protein VirB10 | virB10 |
| SmelRRI128_RS29070 (SmelRRI128_29070) | 761097..761951 | - | 855 | WP_014528658 | P-type conjugative transfer protein VirB9 | virB9 |
| SmelRRI128_RS29075 (SmelRRI128_29075) | 761951..762622 | - | 672 | WP_010967689 | virB8 family protein | virB8 |
| SmelRRI128_RS29080 (SmelRRI128_29080) | 762627..762941 | - | 315 | WP_010967690 | hypothetical protein | - |
| SmelRRI128_RS29085 (SmelRRI128_29085) | 762938..763873 | - | 936 | WP_014528659 | type IV secretion system protein | virB6 |
| SmelRRI128_RS29090 (SmelRRI128_29090) | 763878..764111 | - | 234 | WP_013845460 | EexN family lipoprotein | - |
| SmelRRI128_RS29095 (SmelRRI128_29095) | 764108..764809 | - | 702 | WP_010967692 | P-type DNA transfer protein VirB5 | virB5 |
| SmelRRI128_RS29100 (SmelRRI128_29100) | 764809..767205 | - | 2397 | WP_014528660 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| SmelRRI128_RS29105 (SmelRRI128_29105) | 767180..767521 | - | 342 | WP_014528661 | type IV secretion system protein VirB3 | virB3 |
| SmelRRI128_RS29110 (SmelRRI128_29110) | 767526..767825 | - | 300 | WP_010967695 | TrbC/VirB2 family protein | virB2 |
| SmelRRI128_RS29115 (SmelRRI128_29115) | 767822..768493 | - | 672 | WP_010967696 | lytic transglycosylase domain-containing protein | virB1 |
| SmelRRI128_RS29120 (SmelRRI128_29120) | 768497..769015 | - | 519 | WP_010967697 | hypothetical protein | - |
| SmelRRI128_RS29125 (SmelRRI128_29125) | 769112..769480 | + | 369 | WP_010967698 | transcriptional regulator | - |
| SmelRRI128_RS29130 (SmelRRI128_29130) | 769741..769992 | - | 252 | WP_010967699 | hypothetical protein | - |
| SmelRRI128_RS29135 (SmelRRI128_29135) | 770066..770713 | - | 648 | WP_010967700 | dihydrofolate reductase family protein | - |
| SmelRRI128_RS29140 (SmelRRI128_29140) | 770763..771611 | - | 849 | WP_010967701 | alpha/beta fold hydrolase | - |
Host bacterium
| ID | 21566 | GenBank | NZ_CP088115 |
| Plasmid name | pRRI128_2 | Incompatibility group | - |
| Plasmid size | 1289339 bp | Coordinate of oriT [Strand] | 648677..648705 [+] |
| Host baterium | Sinorhizobium meliloti strain RRI128 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | htpB |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | nodD, fixN, fixO, fixU, nifB, fixX, fixC, fixB, fixA, nifH, nifD, nifK, nifE, nifX, nodH, nodF, nodE, nodJ, nodI, nodC, nodB, nodA, nifN, nodM, fixG |
| Anti-CRISPR | AcrIIA9 |