Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 103847 |
| Name | oriT_KH46|psymA  |
| Organism | Sinorhizobium meliloti strain KH46 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP021824 (882681..882709 [-], 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_KH46|psymA
AGGGCGCAATATACGTCGCTGGCGCGACG
AGGGCGCAATATACGTCGCTGGCGCGACG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 2857 | GenBank | WP_088200105 |
| Name | traA_CDO24_RS31120_KH46|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: 169869.65 Da Isoelectric Point: 9.6594
>WP_088200105.1 Ti-type conjugative transfer relaxase TraA [Sinorhizobium meliloti]
MAIMFVRAQVIGRGAGRSIVSAAAYRHRTRMIDEQAGTSFSYRGGASELVHEELALPDDIPAWLKAAIDG
RSVAKASEALWNAVEAHETRADAQLARELIIALPEELTRAENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHLMTALRPLTEEGFGPKKVPVLGEDGEPLRVVTPDRPNGKIVYKLWAGDKETIKAWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGVAMYFAPADLARRQEMADRLLAEPGLLLKQ
LGNERSTFDERDIARALHRYVDDPVDFANIRARLMASDELVLLKPQQVDAETGKAKQPAVFTTREMLRLE
YAMARSAEVLSRRKGFGVSNARAAAAVRSIETADTEKPFRLDPEQVDAVRHVTRDNAIAAVVGLAGAGKS
TLLAAARVAWEGEGRRVIGAALAGKAAEGLEDSSGIRSRTLASWELAWESGREQLQRGDVLVIDEAGMVS
SQQMARVLKAVEDAGAKAVLVGDAMQLQPIEAGAAFRAITERIGFAELAGVRRQRDAWARDASRLFARGK
VEEGLDAYAQQGRIVETETRAEIVGRIVADWANARRDLLQKSADGEHPGRLRGDELLVLAHTNDDVRKLN
EALRQVMIGEGALTGAREFQTARGLREFAAGDRIIFLENARFVEPRARRLGPQYVKNGMLGTVVSTGDRR
GDTLLSVRLDSGRDVVISEDSYRNVDHGYAATIHKSQGSTVDRTFVLATGMMDQHLTYVAMTRHRDRADL
YAAKEDFEAKPEWGRKPRVDHAAGVTGELVKEGMAKFRPNDEDADESPYADIRTDDGTVQRLWGVSLPKA
LKDAGVAEGDTITLRKDGVERVKVQVPIVDAQTGEKRFEERQVDRNVWSASQLETAAARRERIERESHRP
QLFKQLVERLSRSGAKTTTLDFEGEAGYQAQARDFARRRGLYHLSLVAAGMEAEVLRRWAGIAEKREQVA
KLWERASVALGFAIERERRVSYNEERTEALSTGIPSDGKYLIPPTTTFSRSVAEDARLAQLSSQRWKERE
AILHPVLAKIYRDPDGALSALNALASDAAIEPRKLADDLGKAPDRLGRLRGSELVVDGRAARDERTAATV
ALSELLPLARAHATEFRRNAERFGIREQQRRAHMALSVPALSKTAMARLVEIEAVRKQGGDDAYRTAFAF
AVEDRLLVQEVKAVNEALTARFGWSAFTAKADVIAERNMSERMPEDLAPERREKLTRLFAVIRRFAEEQH
LAERQDRSKIVAGASVELGKGTFAVLPMLAPVTEFKTTVDEEARERALAAPHYAHHRAALVETATRVWRD
PADAIGKIEDLIVKGFAAERIAAAVTNDPAAYGALRGSDRIMDKLLAVGRERKGALQAVPEAASRIRSLG
ASYASALDAETRGITEERRRMAVAIPGLSPAAEDALKRLAAQIKNKDGKLDVAAGSLDPHIAREFAKVSR
ALDERFGRNAILRGETDVINRVSPAQRRAFEAMRDRLTILQQAVRVQSSQEIISERQRRVIDRARSVTR
MAIMFVRAQVIGRGAGRSIVSAAAYRHRTRMIDEQAGTSFSYRGGASELVHEELALPDDIPAWLKAAIDG
RSVAKASEALWNAVEAHETRADAQLARELIIALPEELTRAENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHLMTALRPLTEEGFGPKKVPVLGEDGEPLRVVTPDRPNGKIVYKLWAGDKETIKAWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGVAMYFAPADLARRQEMADRLLAEPGLLLKQ
LGNERSTFDERDIARALHRYVDDPVDFANIRARLMASDELVLLKPQQVDAETGKAKQPAVFTTREMLRLE
YAMARSAEVLSRRKGFGVSNARAAAAVRSIETADTEKPFRLDPEQVDAVRHVTRDNAIAAVVGLAGAGKS
TLLAAARVAWEGEGRRVIGAALAGKAAEGLEDSSGIRSRTLASWELAWESGREQLQRGDVLVIDEAGMVS
SQQMARVLKAVEDAGAKAVLVGDAMQLQPIEAGAAFRAITERIGFAELAGVRRQRDAWARDASRLFARGK
VEEGLDAYAQQGRIVETETRAEIVGRIVADWANARRDLLQKSADGEHPGRLRGDELLVLAHTNDDVRKLN
EALRQVMIGEGALTGAREFQTARGLREFAAGDRIIFLENARFVEPRARRLGPQYVKNGMLGTVVSTGDRR
GDTLLSVRLDSGRDVVISEDSYRNVDHGYAATIHKSQGSTVDRTFVLATGMMDQHLTYVAMTRHRDRADL
YAAKEDFEAKPEWGRKPRVDHAAGVTGELVKEGMAKFRPNDEDADESPYADIRTDDGTVQRLWGVSLPKA
LKDAGVAEGDTITLRKDGVERVKVQVPIVDAQTGEKRFEERQVDRNVWSASQLETAAARRERIERESHRP
QLFKQLVERLSRSGAKTTTLDFEGEAGYQAQARDFARRRGLYHLSLVAAGMEAEVLRRWAGIAEKREQVA
KLWERASVALGFAIERERRVSYNEERTEALSTGIPSDGKYLIPPTTTFSRSVAEDARLAQLSSQRWKERE
AILHPVLAKIYRDPDGALSALNALASDAAIEPRKLADDLGKAPDRLGRLRGSELVVDGRAARDERTAATV
ALSELLPLARAHATEFRRNAERFGIREQQRRAHMALSVPALSKTAMARLVEIEAVRKQGGDDAYRTAFAF
AVEDRLLVQEVKAVNEALTARFGWSAFTAKADVIAERNMSERMPEDLAPERREKLTRLFAVIRRFAEEQH
LAERQDRSKIVAGASVELGKGTFAVLPMLAPVTEFKTTVDEEARERALAAPHYAHHRAALVETATRVWRD
PADAIGKIEDLIVKGFAAERIAAAVTNDPAAYGALRGSDRIMDKLLAVGRERKGALQAVPEAASRIRSLG
ASYASALDAETRGITEERRRMAVAIPGLSPAAEDALKRLAAQIKNKDGKLDVAAGSLDPHIAREFAKVSR
ALDERFGRNAILRGETDVINRVSPAQRRAFEAMRDRLTILQQAVRVQSSQEIISERQRRVIDRARSVTR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 2688 | GenBank | WP_014528597 |
| Name | traG_CDO24_RS31135_KH46|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: 70213.22 Da Isoelectric Point: 9.3518
>WP_014528597.1 Ti-type conjugative transfer system protein TraG [Sinorhizobium meliloti]
MALKAKPHPSLLVILFPVAVTAAAVYVVGWRWPGLAAGMSGKTAYWFLRAAPVPALLFGPLAGLLAVWAL
PLHRRKPVAMASLACFLTVAGFYALREFGRLSPSVESGALSWDRALSYLDMVAVVGAVVGFMAVAVSARI
STVVPEPVKRAKRGTFGDADWLPMAAAGKLFPPDGEIVIGERYRVDKDIVHELPFDPNDPATWGQGGKVP
LLTYRQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVVEHRTRVLGREVMVLDPT
NPIMGFNVLDGIEHSRQKEEDIVGIAHMLLSESVRFESSIGSYFQNQAHNLLTGLLAHVMLSPEYAGRRT
LRSLRQIVSEPEPSVLAMLRDIQEHSASAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKSSDIVSGKKDVFLNIPASILRSYPGIGRVIIGSLINAMIEADGSFKRRALFMLDEVDLLGYMRLL
EEARDRGRKYGISMMLLYQSLGQLERHFGRDGAVSWIDGCAFASYAAVKALDTARSISAQCGEMTVEVKG
SSRNIGWDTKNSASRKSENVNYQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKDMNEAAK
ANRFVKAVP
MALKAKPHPSLLVILFPVAVTAAAVYVVGWRWPGLAAGMSGKTAYWFLRAAPVPALLFGPLAGLLAVWAL
PLHRRKPVAMASLACFLTVAGFYALREFGRLSPSVESGALSWDRALSYLDMVAVVGAVVGFMAVAVSARI
STVVPEPVKRAKRGTFGDADWLPMAAAGKLFPPDGEIVIGERYRVDKDIVHELPFDPNDPATWGQGGKVP
LLTYRQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVVEHRTRVLGREVMVLDPT
NPIMGFNVLDGIEHSRQKEEDIVGIAHMLLSESVRFESSIGSYFQNQAHNLLTGLLAHVMLSPEYAGRRT
LRSLRQIVSEPEPSVLAMLRDIQEHSASAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKSSDIVSGKKDVFLNIPASILRSYPGIGRVIIGSLINAMIEADGSFKRRALFMLDEVDLLGYMRLL
EEARDRGRKYGISMMLLYQSLGQLERHFGRDGAVSWIDGCAFASYAAVKALDTARSISAQCGEMTVEVKG
SSRNIGWDTKNSASRKSENVNYQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKDMNEAAK
ANRFVKAVP
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 2689 | GenBank | WP_014528528 |
| Name | virD4_CDO24_RS31750_KH46|psymA |
UniProt ID | _ |
| Length | 563 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 563 a.a. Molecular weight: 63018.38 Da Isoelectric Point: 9.3803
>WP_014528528.1 type IV secretion system ATPase VirD4 [Sinorhizobium meliloti]
MISSKTRPLSIAGSIMCSLAVGFCGASAYSTFRFGFDGRALMTFDILAFWYETPFYLGYTTLFFYRGLAV
VVLTSGAILLFQQMVSVRDRQHHGTARWARVDEMRRAGYLQRYSRISGPVFGKTSGPFWSDYYLTNSEQP
HSLIVAPTRAGKGVGIVIPTLLTYEGSVIALDVKGELFDLTSRARKARGDSVFKLAPLDPERRTNCYNPL
LDILAMPSERQFTEARRLAANLIATKGQSAEGFINGARDLFVAGILACIERGTPTIGAVYDLFAQPGEKY
SLFARLAQETQNKEAQRIFDEMASNDTKILTSYTSVLGDGGLNLWADPLIKAATSRSDFSIYDLRRRRTC
IYLCVSPNDLEVVAPLMRLLFQQVVSILQRSLPGKDEKHEVLFLLDEFKHLGKLEAIETAITTIAGYKGR
FMFIIQSLSALTGTYDESGKQNFLSNTGVQVFMATADDETPVYISKAIGEYTFQARSTSYTQSLTFDRNI
QNSDQGAPLLRPEQVRLLPDKYQIVLIKGQPPLQLRKVRYYSDRALKRIFDSQTGRLPEPTPLMIADKRF
SHV
MISSKTRPLSIAGSIMCSLAVGFCGASAYSTFRFGFDGRALMTFDILAFWYETPFYLGYTTLFFYRGLAV
VVLTSGAILLFQQMVSVRDRQHHGTARWARVDEMRRAGYLQRYSRISGPVFGKTSGPFWSDYYLTNSEQP
HSLIVAPTRAGKGVGIVIPTLLTYEGSVIALDVKGELFDLTSRARKARGDSVFKLAPLDPERRTNCYNPL
LDILAMPSERQFTEARRLAANLIATKGQSAEGFINGARDLFVAGILACIERGTPTIGAVYDLFAQPGEKY
SLFARLAQETQNKEAQRIFDEMASNDTKILTSYTSVLGDGGLNLWADPLIKAATSRSDFSIYDLRRRRTC
IYLCVSPNDLEVVAPLMRLLFQQVVSILQRSLPGKDEKHEVLFLLDEFKHLGKLEAIETAITTIAGYKGR
FMFIIQSLSALTGTYDESGKQNFLSNTGVQVFMATADDETPVYISKAIGEYTFQARSTSYTQSLTFDRNI
QNSDQGAPLLRPEQVRLLPDKYQIVLIKGQPPLQLRKVRYYSDRALKRIFDSQTGRLPEPTPLMIADKRF
SHV
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 758139..767718
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| CDO24_RS30425 (CDO24_30390) | 755021..755869 | + | 849 | WP_088200095 | alpha/beta fold hydrolase | - |
| CDO24_RS30430 (CDO24_30395) | 755919..756566 | + | 648 | WP_010967700 | dihydrofolate reductase family protein | - |
| CDO24_RS30435 (CDO24_30400) | 756640..756891 | + | 252 | WP_010967699 | hypothetical protein | - |
| CDO24_RS30440 (CDO24_30405) | 757152..757520 | - | 369 | WP_088200096 | MarR family transcriptional regulator | - |
| CDO24_RS30445 (CDO24_30410) | 757617..758135 | + | 519 | WP_010967697 | hypothetical protein | - |
| CDO24_RS30450 (CDO24_30415) | 758139..758810 | + | 672 | WP_010967696 | lytic transglycosylase domain-containing protein | virB1 |
| CDO24_RS30455 (CDO24_30420) | 758807..759106 | + | 300 | WP_010967695 | TrbC/VirB2 family protein | virB2 |
| CDO24_RS30460 (CDO24_30425) | 759111..759452 | + | 342 | WP_014528661 | type IV secretion system protein VirB3 | virB3 |
| CDO24_RS30465 (CDO24_30430) | 759427..761823 | + | 2397 | WP_192925148 | VirB4 family type IV secretion system protein | virb4 |
| CDO24_RS30470 (CDO24_30435) | 761823..762524 | + | 702 | WP_010967692 | P-type DNA transfer protein VirB5 | virB5 |
| CDO24_RS30475 (CDO24_30440) | 762521..762754 | + | 234 | WP_013845460 | EexN family lipoprotein | - |
| CDO24_RS30480 (CDO24_30445) | 762760..763695 | + | 936 | WP_014528659 | type IV secretion system protein | virB6 |
| CDO24_RS30485 (CDO24_30450) | 763692..764006 | + | 315 | WP_010967690 | hypothetical protein | - |
| CDO24_RS30490 (CDO24_30455) | 764011..764682 | + | 672 | WP_010967689 | virB8 family protein | virB8 |
| CDO24_RS30495 (CDO24_30460) | 764682..765536 | + | 855 | WP_014528658 | P-type conjugative transfer protein VirB9 | virB9 |
| CDO24_RS30500 (CDO24_30465) | 765546..766718 | + | 1173 | WP_010967687 | type IV secretion system protein VirB10 | virB10 |
| CDO24_RS30505 (CDO24_30470) | 766729..767718 | + | 990 | WP_010967686 | P-type DNA transfer ATPase VirB11 | virB11 |
| CDO24_RS30510 (CDO24_30475) | 768030..769256 | - | 1227 | WP_010967685 | MFS transporter | - |
| CDO24_RS30515 (CDO24_30480) | 769291..769902 | - | 612 | WP_010967684 | TetR/AcrR family transcriptional regulator | - |
| CDO24_RS30520 (CDO24_30485) | 770154..770831 | + | 678 | WP_010967683 | YoaK family protein | - |
| CDO24_RS30525 (CDO24_30490) | 771079..772101 | + | 1023 | WP_010967682 | alcohol dehydrogenase AdhP | - |
Region 2: 1000616..1010029
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| CDO24_RS31755 (CDO24_31725) | 995859..996584 | - | 726 | WP_014528527 | response regulator | - |
| CDO24_RS36675 (CDO24_31740) | 997603..997908 | - | 306 | WP_011971014 | hypothetical protein | - |
| CDO24_RS31775 (CDO24_31745) | 997908..999473 | - | 1566 | WP_088200107 | IS66 family transposase | - |
| CDO24_RS31780 (CDO24_31750) | 999545..999892 | - | 348 | WP_011971016 | IS66 family insertion sequence element accessory protein TnpB | - |
| CDO24_RS31785 (CDO24_31755) | 999889..1000272 | - | 384 | WP_011971017 | transposase | - |
| CDO24_RS31790 (CDO24_31760) | 1000616..1001656 | - | 1041 | WP_014528525 | P-type DNA transfer ATPase VirB11 | virB11 |
| CDO24_RS31795 (CDO24_31765) | 1001696..1002814 | - | 1119 | WP_014528524 | type IV secretion system protein VirB10 | virB10 |
| CDO24_RS31800 (CDO24_31770) | 1002811..1003692 | - | 882 | WP_014528523 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| CDO24_RS31805 (CDO24_31775) | 1003689..1004402 | - | 714 | WP_014528522 | type IV secretion system protein VirB8 | virB8 |
| CDO24_RS31810 (CDO24_31780) | 1004389..1004556 | - | 168 | WP_011970875 | type IV secretion system lipoprotein VirB7 | - |
| CDO24_RS31815 (CDO24_31785) | 1004589..1005476 | - | 888 | WP_088200108 | type IV secretion system protein | virB6 |
| CDO24_RS31820 (CDO24_31790) | 1005557..1006240 | - | 684 | WP_014528520 | pilin minor subunit VirB5 | traI |
| CDO24_RS31825 (CDO24_31795) | 1006254..1008623 | - | 2370 | WP_014528519 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| CDO24_RS31830 (CDO24_31800) | 1008623..1008949 | - | 327 | WP_003537077 | type IV secretion system protein VirB3 | virB3 |
| CDO24_RS31835 (CDO24_31805) | 1008946..1009308 | - | 363 | WP_014528518 | pilin major subunit VirB2 | virB2 |
| CDO24_RS31840 (CDO24_31810) | 1009322..1010029 | - | 708 | WP_014528517 | type IV secretion system lytic transglycosylase VirB1 | virB1 |
| CDO24_RS36060 | 1010241..1010396 | + | 156 | WP_017267408 | hypothetical protein | - |
| CDO24_RS31850 (CDO24_31820) | 1010548..1010739 | - | 192 | Protein_1002 | Lrp/AsnC ligand binding domain-containing protein | - |
| CDO24_RS31855 (CDO24_31825) | 1010723..1011289 | + | 567 | WP_041867817 | type IV secretory system conjugative DNA transfer family protein | - |
| CDO24_RS31860 (CDO24_31830) | 1011379..1012491 | + | 1113 | Protein_1004 | IS256-like element ISRm5 family transposase | - |
| CDO24_RS31865 (CDO24_31835) | 1012511..1012779 | + | 269 | Protein_1005 | hypothetical protein | - |
| CDO24_RS31870 (CDO24_31840) | 1013110..1014567 | - | 1458 | WP_014528515 | PLP-dependent aminotransferase family protein | - |
Host bacterium
| ID | 4287 | GenBank | NZ_CP021824 |
| Plasmid name | KH46|psymA | Incompatibility group | - |
| Plasmid size | 1597380 bp | Coordinate of oriT [Strand] | 882681..882709 [-] |
| Host baterium | Sinorhizobium meliloti strain KH46 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | htpB |
| Metal resistance gene | arsC, arsH, ncrA |
| Degradation gene | - |
| Symbiosis gene | fixA, fixB, fixN, fixO, fixG, fixS, nodM, nifN, nodD, nodA, nodB, nodC, nodI, nodJ, nodE, nodF, nodH, nifX, nifE, nifK, nifD, nifH, fixC, fixX, nifB, fixU, nifT |
| Anti-CRISPR | AcrIIA9 |