Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 103946 |
| Name | oriT_pSymA  |
| Organism | Sinorhizobium meliloti strain AK21 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP026526 (856920..856948 [+], 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_pSymA
AGGGCGCAATATACGTCGCTGGCGCGACG
AGGGCGCAATATACGTCGCTGGCGCGACG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 2937 | GenBank | WP_158528694 |
| Name | traA_C3L21_RS23055_pSymA |
UniProt ID | _ |
| Length | 1539 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1539 a.a. Molecular weight: 169952.42 Da Isoelectric Point: 7.9446
>WP_158528694.1 Ti-type conjugative transfer relaxase TraA [Sinorhizobium meliloti]
MAIMFVRAQVIGRGAGRSIVSAAAYRHRTRMIDEQAGTSFSYRGGASELVHEELALPDDIPAWLKAAIDG
QSVAKASEALWNAVEAHETRADAQLARELIIALPEELTRAENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHLMTALRPLTEQGFGPKKVPVLGEDGEPLRVVTPDRPNGKIVYKLWAGDKETIKAWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGIAMYFAPADLARRQEMADRLLAEPELLLKQ
LGNERSTFDERDIARALHRYVDDPVDFANIRARLMASDDLVLLKPQQVDAETGKAKQPAVFTTREMLRLE
YAMAQSAEVLSRRKGFGVSNARAAAAVRSIETADTEKPFRLDPEQVDAVRHVTRDNAIAAVVGLAGAGKS
TLLAAARVAWEGEGRRVIGAALAGKAAEGLEDSSGIRSRTLASWELAWESGRDLLQRGDVLVIDEAGMVS
SQQMARILKAVEDAGAKAVLVGDAMQLQPIEAGAAFRAITERIGFAELAGVRRQRDAWARDASRLFARGK
VEEGLDAYAQQGRIVETETRAEIVDRIVADWANARRDLLQKSADGEHPGRLRGDELLVLAHTNDDVRKLN
EALRNVMIGEGALAGAREFQTARGLREFAAGDRIIFLENARFIEPRARRLGLQYVKNGMLGTVVSTGDRR
GDTLLSVRLDSGRDVVISQDSYRNVDHGYAATIHKSQGSTVDRTFVLATGMMDQHLTYVAMTRHRDRADL
YAAKEDFEAKPEWGRKPRVDHAAGVTGELVEEGMAKFRPNDEDADESPYADIRTDDGTVHRLWGVSLPKA
LKDAGAAEGDTITLRKDGVERVKVQVPIVDEQTGEKRFEERQVDRNVWSASQLETAAARQERIERESHRP
QLFAALVERLSRSGAKTTTLDFEDEAGYQAQARDFARRRGLYHLSLVAAGMEAEVLRRWAGIAEKREQVA
KLWERASVALGFAIERERRVSYNEEWTETLSTGIPSDGKYLVPPTTTFSRSVAEDARLAQLSSQRWKERE
AIVHPVLAKIYRDPDGALSALNALASDAAIEPRKLAEDLGLAPERLGRLRGSELVVDGRAARDERTAATA
ALSELLPLARAHATEFRRNAERFGIREQQRRAHMALSVPALSKTAMARLVEIEAVREQGGDDAYRTAFAY
AVEDRLLVQEVKAVNEALTARFGWSAFTAKADVIAERNMSERMPEDLAPERREKLTRLFAVIRRFAEEQH
LAERQDRSKIVAGASVELGKETFAVLPMLAAVTEFKTTVDEEARERALAAPHYAHHRAALVETATRVWRD
PADAIGKIEDLIVKGFAGERIAAAVTNDPAAYGALRGSDRIMDKLLAVGRERKGALQAVPEAASRIRSLG
ASYASALDAETRSITEERRRMAVAIPGLSPAAEDALKRLAAQIKNKDGKLDVAAGSLDPRIAREFAKVSR
ALDDRFGRNAILRGETDVINRVSPAQRRAFEAMRDRLQVLQQAVRVQSSQEIISERQRRVIDRARGVTR
MAIMFVRAQVIGRGAGRSIVSAAAYRHRTRMIDEQAGTSFSYRGGASELVHEELALPDDIPAWLKAAIDG
QSVAKASEALWNAVEAHETRADAQLARELIIALPEELTRAENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHLMTALRPLTEQGFGPKKVPVLGEDGEPLRVVTPDRPNGKIVYKLWAGDKETIKAWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGIAMYFAPADLARRQEMADRLLAEPELLLKQ
LGNERSTFDERDIARALHRYVDDPVDFANIRARLMASDDLVLLKPQQVDAETGKAKQPAVFTTREMLRLE
YAMAQSAEVLSRRKGFGVSNARAAAAVRSIETADTEKPFRLDPEQVDAVRHVTRDNAIAAVVGLAGAGKS
TLLAAARVAWEGEGRRVIGAALAGKAAEGLEDSSGIRSRTLASWELAWESGRDLLQRGDVLVIDEAGMVS
SQQMARILKAVEDAGAKAVLVGDAMQLQPIEAGAAFRAITERIGFAELAGVRRQRDAWARDASRLFARGK
VEEGLDAYAQQGRIVETETRAEIVDRIVADWANARRDLLQKSADGEHPGRLRGDELLVLAHTNDDVRKLN
EALRNVMIGEGALAGAREFQTARGLREFAAGDRIIFLENARFIEPRARRLGLQYVKNGMLGTVVSTGDRR
GDTLLSVRLDSGRDVVISQDSYRNVDHGYAATIHKSQGSTVDRTFVLATGMMDQHLTYVAMTRHRDRADL
YAAKEDFEAKPEWGRKPRVDHAAGVTGELVEEGMAKFRPNDEDADESPYADIRTDDGTVHRLWGVSLPKA
LKDAGAAEGDTITLRKDGVERVKVQVPIVDEQTGEKRFEERQVDRNVWSASQLETAAARQERIERESHRP
QLFAALVERLSRSGAKTTTLDFEDEAGYQAQARDFARRRGLYHLSLVAAGMEAEVLRRWAGIAEKREQVA
KLWERASVALGFAIERERRVSYNEEWTETLSTGIPSDGKYLVPPTTTFSRSVAEDARLAQLSSQRWKERE
AIVHPVLAKIYRDPDGALSALNALASDAAIEPRKLAEDLGLAPERLGRLRGSELVVDGRAARDERTAATA
ALSELLPLARAHATEFRRNAERFGIREQQRRAHMALSVPALSKTAMARLVEIEAVREQGGDDAYRTAFAY
AVEDRLLVQEVKAVNEALTARFGWSAFTAKADVIAERNMSERMPEDLAPERREKLTRLFAVIRRFAEEQH
LAERQDRSKIVAGASVELGKETFAVLPMLAAVTEFKTTVDEEARERALAAPHYAHHRAALVETATRVWRD
PADAIGKIEDLIVKGFAGERIAAAVTNDPAAYGALRGSDRIMDKLLAVGRERKGALQAVPEAASRIRSLG
ASYASALDAETRSITEERRRMAVAIPGLSPAAEDALKRLAAQIKNKDGKLDVAAGSLDPRIAREFAKVSR
ALDDRFGRNAILRGETDVINRVSPAQRRAFEAMRDRLQVLQQAVRVQSSQEIISERQRRVIDRARGVTR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 2792 | GenBank | WP_158528693 |
| Name | traG_C3L21_RS23040_pSymA |
UniProt ID | _ |
| Length | 639 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 639 a.a. Molecular weight: 70244.23 Da Isoelectric Point: 9.4769
>WP_158528693.1 Ti-type conjugative transfer system protein TraG [Sinorhizobium meliloti]
MALKAKPHPSLLVILFPVAVTTAAVYVVGWRWPGLAAGMSGKTAYWFLRAAPVPALLFGPLAGLLAVWAL
PLHRRRPVAMASLACFLTVAGFYALREFGRLSPSVESGALSWDRALSYLDMVAVVGAVVGFMAVAVSARI
STVVPEPVKRAKRGTFGDADWLPMAAAGKLFPPDGEIVIGERYRVDKDIVHELPFEPNDPATWGQGGKAL
LLTYRQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVIEHRTRVLGREVMVLDPT
NPIMGFNVLDGIEHSRQKEEDIVGIAHMLLSESVRFESSTGSYFQNQAHNLLTGLLAHVMLSPDYAGRRT
LRSLRQIVSEPEPSVLAMLRDIQEHSASAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKSSDIVSGKKDVFLNIPASILRSYPGIGRVIIGSLINAMIQADGSFKRRALFMLDEVDLLGYMRLL
EEARDRGRKYGISMMLLYQSLGQLERHFGRDGAVSWIDGCAFASYAAVKALDTARNISAQCGEMTVEVKG
SSRNIGWDTKNSASRKSESVNFQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKDMNEAAK
ANRFVKAVP
MALKAKPHPSLLVILFPVAVTTAAVYVVGWRWPGLAAGMSGKTAYWFLRAAPVPALLFGPLAGLLAVWAL
PLHRRRPVAMASLACFLTVAGFYALREFGRLSPSVESGALSWDRALSYLDMVAVVGAVVGFMAVAVSARI
STVVPEPVKRAKRGTFGDADWLPMAAAGKLFPPDGEIVIGERYRVDKDIVHELPFEPNDPATWGQGGKAL
LLTYRQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVIEHRTRVLGREVMVLDPT
NPIMGFNVLDGIEHSRQKEEDIVGIAHMLLSESVRFESSTGSYFQNQAHNLLTGLLAHVMLSPDYAGRRT
LRSLRQIVSEPEPSVLAMLRDIQEHSASAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKSSDIVSGKKDVFLNIPASILRSYPGIGRVIIGSLINAMIQADGSFKRRALFMLDEVDLLGYMRLL
EEARDRGRKYGISMMLLYQSLGQLERHFGRDGAVSWIDGCAFASYAAVKALDTARNISAQCGEMTVEVKG
SSRNIGWDTKNSASRKSESVNFQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKDMNEAAK
ANRFVKAVP
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 995675..1005253
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| C3L21_RS23720 (C3L21_24430) | 991294..992316 | - | 1023 | WP_010967682 | alcohol dehydrogenase AdhP | - |
| C3L21_RS23725 (C3L21_24435) | 992564..993241 | - | 678 | WP_127514439 | YoaK family protein | - |
| C3L21_RS23730 (C3L21_24440) | 993493..994104 | + | 612 | WP_017276198 | TetR/AcrR family transcriptional regulator | - |
| C3L21_RS23735 (C3L21_24445) | 994141..995364 | + | 1224 | WP_127514437 | MFS transporter | - |
| C3L21_RS23740 (C3L21_24450) | 995675..996664 | - | 990 | WP_013845454 | P-type DNA transfer ATPase VirB11 | virB11 |
| C3L21_RS23745 (C3L21_24455) | 996675..997847 | - | 1173 | WP_013845455 | type IV secretion system protein VirB10 | virB10 |
| C3L21_RS23750 (C3L21_24460) | 997857..998711 | - | 855 | WP_014531548 | P-type conjugative transfer protein VirB9 | virB9 |
| C3L21_RS23755 (C3L21_24465) | 998711..999382 | - | 672 | WP_127514435 | virB8 family protein | virB8 |
| C3L21_RS23760 (C3L21_24470) | 999387..999701 | - | 315 | WP_013845458 | hypothetical protein | - |
| C3L21_RS23765 (C3L21_24475) | 999698..1000633 | - | 936 | WP_014531546 | type IV secretion system protein | virB6 |
| C3L21_RS23770 (C3L21_24480) | 1000656..1000871 | - | 216 | WP_014531545 | EexN family lipoprotein | - |
| C3L21_RS23775 (C3L21_24485) | 1000868..1001569 | - | 702 | WP_014531544 | P-type DNA transfer protein VirB5 | virB5 |
| C3L21_RS23780 (C3L21_24490) | 1001569..1003965 | - | 2397 | WP_194966945 | VirB4 family type IV secretion system protein | virb4 |
| C3L21_RS23785 (C3L21_24495) | 1003940..1004281 | - | 342 | WP_003526740 | type IV secretion system protein VirB3 | virB3 |
| C3L21_RS23790 (C3L21_24500) | 1004286..1004585 | - | 300 | WP_003526741 | TrbC/VirB2 family protein | virB2 |
| C3L21_RS23795 (C3L21_24505) | 1004582..1005253 | - | 672 | WP_010967696 | lytic transglycosylase domain-containing protein | virB1 |
| C3L21_RS23800 (C3L21_24510) | 1005257..1005775 | - | 519 | WP_017277528 | hypothetical protein | - |
| C3L21_RS23805 (C3L21_24515) | 1005872..1006240 | + | 369 | WP_010967698 | transcriptional regulator | - |
| C3L21_RS23810 (C3L21_24520) | 1006501..1006752 | - | 252 | WP_127514429 | hypothetical protein | - |
| C3L21_RS23815 (C3L21_24525) | 1006826..1007473 | - | 648 | WP_010967700 | dihydrofolate reductase family protein | - |
| C3L21_RS23820 (C3L21_24530) | 1007523..1008371 | - | 849 | WP_127514427 | alpha/beta fold hydrolase | - |
Host bacterium
| ID | 4386 | GenBank | NZ_CP026526 |
| Plasmid name | pSymA | Incompatibility group | - |
| Plasmid size | 1506823 bp | Coordinate of oriT [Strand] | 856920..856948 [+] |
| Host baterium | Sinorhizobium meliloti strain AK21 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | htpB |
| Metal resistance gene | nia, ncrA |
| 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, fixS, fixG |
| Anti-CRISPR | - |