Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 107600 |
| Name | oriT_pRmeGR4c  |
| Organism | Sinorhizobium meliloti GR4 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NC_019848 (951424..951452 [-], 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_pRmeGR4c
AGGGCGCAATATACGTCGCTGGCGCGACG
AGGGCGCAATATACGTCGCTGGCGCGACG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 5109 | GenBank | WP_015242396 |
| Name | traA_C770_RS39975_pRmeGR4c |
UniProt ID | _ |
| Length | 1539 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1539 a.a. Molecular weight: 169986.51 Da Isoelectric Point: 8.7359
>WP_015242396.1 Ti-type conjugative transfer relaxase TraA [Sinorhizobium meliloti]
MAIMFVRAQVIGRGAGRSIVSAAAYRHRTRMIDEQAGTSFSYRGGASELVHEELALPDDIPAWLKAAIDG
RSVAKASEALWNAVEAHETRADAQLARELIIALPEELTRAENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHLMTALRPLTEEGFGPKKVPVLGEDGEPLRVVTPDRPNGKIVYKLWAGDKETIKAWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGVAMYFAPADLARRQEMADRLLAEPELLLKQ
LGNERSTFDERDIARALHRYVDDPVDFANIRARLMASDELVLLKPQQVDAEAGEAKQPAVFTTREMLRLE
YAMARSAEVLSRRKGFGVSNARAAAAVRSIETADTEKPFRLDPEQVDAVRHVTRDNAIAAVVGLAGAGKS
TLLAAARVAWEGEGWRVIGAALAGKAAEGLEDSSGIRSRTLASWELAWESGREQLQRGDVLVIDEAGMVS
SQQMARVLKAVEDAGAKAVLVGDALQLQPIEAGAAFRAITERIGFAELAGVRRQRDAWARDASRLFARGK
VAEGLDAYAQQGRIVETETRAEIVDRIVADWANARRDLLQKSADGEHPGRLRGDELLVLAHTNDDVRKLN
EALRQVMTDEGALAGAREFQTARGLREFAAGDRIIFLENARFVEPRARRLGPQYVKNGMLGTIVSTGDRR
GDTLLSVRLDSGRDVVISQDSYRNVDHGYAATIHKSQGSTVDRTFVLATGMMDQHLTYVAMTRHRDRADL
YAAKEDFEAKPEWGCRPRVDHAAGVTGELVKEGMAKFRPNDEDADESPYADIRTDDGTVQRLWGVSLPKA
LKDAGVAEGDTITLRKDGVERVKVQVPIVDAQTGEKRFEERQVDRNVWSASQLETAAVRRERIERESHRP
QLFKQLVERLSRSGAKTTTLDFEDEAGYQAQARDFARRRGLYHLSLVAAGMEAEVLRRWAGIAEKREQVA
KLWERASVALGFAIERERRVSYNEERTETLSTGIPSDGKYLVPPTTTFSRSVAEDARLAQLSSQRWKERE
AIVHPVLAKVYRDPDGALSALNALASDAAIEPRKLAEDLGLAPDRLGRLRGSELVVDGRAARDERTAATV
ALSELLPLARAHATEFRRNAERFGIREQQRRAHMALSVPALSKTAMARLVEIEAVREQGGDDAYRTAFTY
AVEDRLLVQEVKAVNEALTARFGWSAFTAKADVIAERNIAERMPEDLAPERREKLTRLFAVIRRFAEEQH
LAERQDRSKIVAGASVELGKGTFAVLPMLAPVTEFKTTVDEEARERALAAPHYAHHRAALVETATRVWRD
PADAIGKIEDLIVKGFAAERIAAAVTNDPAAYGALRGSDRIMDKLLAAGRERKGALQAVPEAASRIRSLG
ASYASALDAETRSISEERRRMAVAIPGLSPAAEDALKRLAAQIKNKDGKLDVAAGSLDPHIAREFAKVSR
ALDERFGRNAILRGETDVINRVSPAQRRAFEAMRDRLTILQQAVRIQSSQEIISERQRRVIDRARGVTR
MAIMFVRAQVIGRGAGRSIVSAAAYRHRTRMIDEQAGTSFSYRGGASELVHEELALPDDIPAWLKAAIDG
RSVAKASEALWNAVEAHETRADAQLARELIIALPEELTRAENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHLMTALRPLTEEGFGPKKVPVLGEDGEPLRVVTPDRPNGKIVYKLWAGDKETIKAWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGVAMYFAPADLARRQEMADRLLAEPELLLKQ
LGNERSTFDERDIARALHRYVDDPVDFANIRARLMASDELVLLKPQQVDAEAGEAKQPAVFTTREMLRLE
YAMARSAEVLSRRKGFGVSNARAAAAVRSIETADTEKPFRLDPEQVDAVRHVTRDNAIAAVVGLAGAGKS
TLLAAARVAWEGEGWRVIGAALAGKAAEGLEDSSGIRSRTLASWELAWESGREQLQRGDVLVIDEAGMVS
SQQMARVLKAVEDAGAKAVLVGDALQLQPIEAGAAFRAITERIGFAELAGVRRQRDAWARDASRLFARGK
VAEGLDAYAQQGRIVETETRAEIVDRIVADWANARRDLLQKSADGEHPGRLRGDELLVLAHTNDDVRKLN
EALRQVMTDEGALAGAREFQTARGLREFAAGDRIIFLENARFVEPRARRLGPQYVKNGMLGTIVSTGDRR
GDTLLSVRLDSGRDVVISQDSYRNVDHGYAATIHKSQGSTVDRTFVLATGMMDQHLTYVAMTRHRDRADL
YAAKEDFEAKPEWGCRPRVDHAAGVTGELVKEGMAKFRPNDEDADESPYADIRTDDGTVQRLWGVSLPKA
LKDAGVAEGDTITLRKDGVERVKVQVPIVDAQTGEKRFEERQVDRNVWSASQLETAAVRRERIERESHRP
QLFKQLVERLSRSGAKTTTLDFEDEAGYQAQARDFARRRGLYHLSLVAAGMEAEVLRRWAGIAEKREQVA
KLWERASVALGFAIERERRVSYNEERTETLSTGIPSDGKYLVPPTTTFSRSVAEDARLAQLSSQRWKERE
AIVHPVLAKVYRDPDGALSALNALASDAAIEPRKLAEDLGLAPDRLGRLRGSELVVDGRAARDERTAATV
ALSELLPLARAHATEFRRNAERFGIREQQRRAHMALSVPALSKTAMARLVEIEAVREQGGDDAYRTAFTY
AVEDRLLVQEVKAVNEALTARFGWSAFTAKADVIAERNIAERMPEDLAPERREKLTRLFAVIRRFAEEQH
LAERQDRSKIVAGASVELGKGTFAVLPMLAPVTEFKTTVDEEARERALAAPHYAHHRAALVETATRVWRD
PADAIGKIEDLIVKGFAAERIAAAVTNDPAAYGALRGSDRIMDKLLAAGRERKGALQAVPEAASRIRSLG
ASYASALDAETRSISEERRRMAVAIPGLSPAAEDALKRLAAQIKNKDGKLDVAAGSLDPHIAREFAKVSR
ALDERFGRNAILRGETDVINRVSPAQRRAFEAMRDRLTILQQAVRIQSSQEIISERQRRVIDRARGVTR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 5333 | GenBank | WP_015242399 |
| Name | traG_C770_RS39990_pRmeGR4c |
UniProt ID | _ |
| Length | 639 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 639 a.a. Molecular weight: 70255.16 Da Isoelectric Point: 9.4585
>WP_015242399.1 Ti-type conjugative transfer system protein TraG [Sinorhizobium meliloti]
MALKAKPHPSLLAILFPVAVTAAAVYVVGWRWPGLAAGMSGKTAYWFLRAAPVPALLFGPLAGLLAVWAL
PLHRRRPVAMASLACFLTVAGFYALREFGRLSPSVESGALSWDRALSYLDMVAVVGAVVGFMAVAVSARI
STVVPEPVKRAKRGTFGDADWLPMAAAGKLFPPDGEIVIGERYRVDKDIVHELPFDPNDPATWGQGGKAP
LLTYRQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVVEHRTRVLSREVMVLDPT
NPIMGFNVLDGIEHSRQKEEDIVGIAHMLLSESVRFESSTGSYFQNQAHNLLTGLLTHVMLSPEYAGRRT
LRSLRQIVSEPEPSVLAMLRDIQEHSASAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKSSDIVSGKKDVFLNIPASILRSYPGIGRVIIGSLINAMIQADGSFKRRALFMLDEVDLLGYMRLL
EEARDRGRKYGISMMLLYQSLGQLERHFGRDGAVSWIDGCAFASYAAVKALDTARNISAQCGEMTVEVKG
SSRNIGWDTKNSASRKSENVNYQRRPLIIPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKDMNEAAK
ANRFVKAIP
MALKAKPHPSLLAILFPVAVTAAAVYVVGWRWPGLAAGMSGKTAYWFLRAAPVPALLFGPLAGLLAVWAL
PLHRRRPVAMASLACFLTVAGFYALREFGRLSPSVESGALSWDRALSYLDMVAVVGAVVGFMAVAVSARI
STVVPEPVKRAKRGTFGDADWLPMAAAGKLFPPDGEIVIGERYRVDKDIVHELPFDPNDPATWGQGGKAP
LLTYRQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVVEHRTRVLSREVMVLDPT
NPIMGFNVLDGIEHSRQKEEDIVGIAHMLLSESVRFESSTGSYFQNQAHNLLTGLLTHVMLSPEYAGRRT
LRSLRQIVSEPEPSVLAMLRDIQEHSASAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKSSDIVSGKKDVFLNIPASILRSYPGIGRVIIGSLINAMIQADGSFKRRALFMLDEVDLLGYMRLL
EEARDRGRKYGISMMLLYQSLGQLERHFGRDGAVSWIDGCAFASYAAVKALDTARNISAQCGEMTVEVKG
SSRNIGWDTKNSASRKSENVNYQRRPLIIPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKDMNEAAK
ANRFVKAIP
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 683405..691984
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| C770_RS38620 (C770_GR4pC0665) | 680287..681135 | + | 849 | WP_010967701 | alpha/beta fold hydrolase | - |
| C770_RS38625 (C770_GR4pC0666) | 681185..681832 | + | 648 | WP_010967700 | dihydrofolate reductase family protein | - |
| C770_RS38630 (C770_GR4pC0667) | 681906..682157 | + | 252 | WP_010967699 | hypothetical protein | - |
| C770_RS38635 (C770_GR4pC0668) | 682418..682786 | - | 369 | WP_010967698 | transcriptional regulator | - |
| C770_RS38640 (C770_GR4pC0669) | 682883..683401 | + | 519 | WP_010967697 | hypothetical protein | - |
| C770_RS38645 (C770_GR4pC0670) | 683405..684076 | + | 672 | WP_010967696 | lytic transglycosylase domain-containing protein | virB1 |
| C770_RS38650 (C770_GR4pC0671) | 684073..684372 | + | 300 | WP_010967695 | TrbC/VirB2 family protein | virB2 |
| C770_RS38655 (C770_GR4pC0672) | 684377..684718 | + | 342 | WP_014528661 | type IV secretion system protein VirB3 | virB3 |
| C770_RS38660 (C770_GR4pC0673) | 684693..687089 | + | 2397 | WP_015242209 | VirB4 family type IV secretion system protein | virb4 |
| C770_RS38665 (C770_GR4pC0674) | 687089..687790 | + | 702 | WP_010967692 | P-type DNA transfer protein VirB5 | virB5 |
| C770_RS38670 (C770_GR4pC0675) | 687787..688020 | + | 234 | WP_013845460 | EexN family lipoprotein | - |
| C770_RS38675 (C770_GR4pC0676) | 688026..688961 | + | 936 | WP_014528659 | type IV secretion system protein | virB6 |
| C770_RS38680 (C770_GR4pC0677) | 688958..689272 | + | 315 | WP_010967690 | hypothetical protein | - |
| C770_RS38685 (C770_GR4pC0678) | 689277..689948 | + | 672 | WP_010967689 | virB8 family protein | virB8 |
| C770_RS38690 (C770_GR4pC0679) | 689948..690802 | + | 855 | WP_014528658 | P-type conjugative transfer protein VirB9 | virB9 |
| C770_RS38695 (C770_GR4pC0680) | 690812..691984 | + | 1173 | WP_010967687 | type IV secretion system protein VirB10 | virB10 |
| C770_RS38700 (C770_GR4pC0681) | 691995..692983 | + | 989 | Protein_654 | P-type DNA transfer ATPase VirB11 | - |
| C770_RS38705 (C770_GR4pC0682) | 693295..694521 | - | 1227 | WP_010967685 | MFS transporter | - |
| C770_RS38710 (C770_GR4pC0683) | 694556..695167 | - | 612 | WP_010967684 | TetR/AcrR family transcriptional regulator | - |
| C770_RS38715 (C770_GR4pC0684) | 695419..696096 | + | 678 | WP_010967683 | YoaK family protein | - |
Host bacterium
| ID | 8035 | GenBank | NC_019848 |
| Plasmid name | pRmeGR4c | Incompatibility group | - |
| Plasmid size | 1417907 bp | Coordinate of oriT [Strand] | 951424..951452 [-] |
| Host baterium | Sinorhizobium meliloti GR4 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | htpB |
| Metal resistance gene | nia |
| 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 |
| Anti-CRISPR | AcrIIA9 |