Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100634 |
| Name | oriT_pTi  |
| Organism | Agrobacterium tumefaciens LBA4213 (Ach5) |
| Sequence Completeness | core |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP007228 (30724..30760 [+], 37 nt) |
| oriT length | 37 nt |
| IRs (inverted repeats) | 18..23, 27..32 (CGTCGT..ACGACG) |
| Location of nic site | 7..8 |
| Conserved sequence flanking the nic site |
_ |
| Note | predicted by the oriTfinder |
oriT sequence
Download Length: 37 nt
>oriT_pTi
CCAAGGGCGCAATTATACGTCGTGATACGACGCGTTG
CCAAGGGCGCAATTATACGTCGTGATACGACGCGTTG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 706 | GenBank | WP_040132237 |
| Name | TraA_pTi |
UniProt ID | W8FIM2 |
| Length | 1100 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 1100 a.a. Molecular weight: 123801.43 Da Isoelectric Point: 9.9320
>WP_040132237.1 Ti-type conjugative transfer relaxase TraA [Agrobacterium tumefaciens]
MAIAHFSASIVSRGSGRSVVLSAAYRHCAKMEYEREARTIDYTRKQGLLHEEFVLPADAPKWVRSLIADR
SVSGASEAFWNKVEAFEKRADAQLARDLTIALPLELSAEQNIALVRDFVENHILAKGMVADWVYHENPGN
PHIHLMTTLRPLSDESFGSKKVAVIGEDGQPVRTKSGKILYELWAGSTDDFNVLRDGWFERLNHHLALGG
IDLKIDGRSYEKQGINLEPTIHLGVGAKAIERKAEQRGVRPELERVELNEQRRSENTRRILNNPAIVLDL
ITREKSVFDERDVAKVLHRYIDDPALFQQLMVKIILNPDVLRLQRETIDFSTGEKLPARYATRAMIRLEA
TMARQATWLSNREGRGVSPTALDATLRRHKRLSDEQKAAIEHVAGPARIAAVVGRAGAGKTTMMKAAREA
WELAGYHVVGGALAGKAAEGLEKEAGIQSRTLASWELRWKRGRDLLDDKTIFIMDEAGMVASKQMEAFVD
AAVRAGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREEWMRKASLDLARGNVENALSAYR
ANVRITGERLKAEAVERLIADWNHDYDQTKTILILAHLRRDVRMLNVMAREKLVERGMVGEGHLFRTADG
ERRFDAGDQIVFLKNERSLGVKNGMIGHVVEAAANRIVATVGEGDRRRQVIVEQRFYNNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYYGTRSFSFNGGLAKVLSRRQAKETTLDYEHGQFY
REALRFAETRGLHVVQVARTMVRDRLDWTLRQKAKLVDLSRRLAAFAAHLGITQSPKTQTMKETAPMVAG
IKTFSGSVSDIVGDRLGTDPSLKRQWEEVSARFAYVFADPETAFRAMNFDALLADKEVAKQILQKLEAEP
GSIGPLKGKTGILASKPEREARRVAEVNVPALKRDLEQYLRMRETVTQRLQTDEQSLRQRVSIDIPALSP
AARVVLERVRDAIDRNDLPAAIAYALSNRETKLEIDGFNQAVTERFGERTLLSNAAREPSGKLYEKLSEG
MKPEQKEELKQAWPVMRTAQQLVAHERTVHSLKLAEEHRLTQRQTPVLKQ
MAIAHFSASIVSRGSGRSVVLSAAYRHCAKMEYEREARTIDYTRKQGLLHEEFVLPADAPKWVRSLIADR
SVSGASEAFWNKVEAFEKRADAQLARDLTIALPLELSAEQNIALVRDFVENHILAKGMVADWVYHENPGN
PHIHLMTTLRPLSDESFGSKKVAVIGEDGQPVRTKSGKILYELWAGSTDDFNVLRDGWFERLNHHLALGG
IDLKIDGRSYEKQGINLEPTIHLGVGAKAIERKAEQRGVRPELERVELNEQRRSENTRRILNNPAIVLDL
ITREKSVFDERDVAKVLHRYIDDPALFQQLMVKIILNPDVLRLQRETIDFSTGEKLPARYATRAMIRLEA
TMARQATWLSNREGRGVSPTALDATLRRHKRLSDEQKAAIEHVAGPARIAAVVGRAGAGKTTMMKAAREA
WELAGYHVVGGALAGKAAEGLEKEAGIQSRTLASWELRWKRGRDLLDDKTIFIMDEAGMVASKQMEAFVD
AAVRAGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREEWMRKASLDLARGNVENALSAYR
ANVRITGERLKAEAVERLIADWNHDYDQTKTILILAHLRRDVRMLNVMAREKLVERGMVGEGHLFRTADG
ERRFDAGDQIVFLKNERSLGVKNGMIGHVVEAAANRIVATVGEGDRRRQVIVEQRFYNNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYYGTRSFSFNGGLAKVLSRRQAKETTLDYEHGQFY
REALRFAETRGLHVVQVARTMVRDRLDWTLRQKAKLVDLSRRLAAFAAHLGITQSPKTQTMKETAPMVAG
IKTFSGSVSDIVGDRLGTDPSLKRQWEEVSARFAYVFADPETAFRAMNFDALLADKEVAKQILQKLEAEP
GSIGPLKGKTGILASKPEREARRVAEVNVPALKRDLEQYLRMRETVTQRLQTDEQSLRQRVSIDIPALSP
AARVVLERVRDAIDRNDLPAAIAYALSNRETKLEIDGFNQAVTERFGERTLLSNAAREPSGKLYEKLSEG
MKPEQKEELKQAWPVMRTAQQLVAHERTVHSLKLAEEHRLTQRQTPVLKQ
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 96672..106323
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| X971_RS25895 (X971_5392) | 92108..92989 | + | 882 | WP_010892435 | ABC transporter permease | - |
| X971_RS25900 (X971_5393) | 92989..94755 | + | 1767 | WP_010892436 | ABC transporter ATP-binding protein | - |
| X971_RS25905 (X971_5394) | 94871..96439 | + | 1569 | WP_010892437 | ABC transporter substrate-binding protein | - |
| X971_RS25910 (X971_5396) | 96672..97973 | - | 1302 | WP_010892438 | IncP-type conjugal transfer protein TrbI | virB10 |
| X971_RS25915 (X971_5397) | 97983..98459 | - | 477 | WP_046205713 | conjugal transfer protein TrbH | - |
| X971_RS25920 (X971_5398) | 98459..99313 | - | 855 | WP_040132265 | P-type conjugative transfer protein TrbG | virB9 |
| X971_RS25925 (X971_5399) | 99330..99992 | - | 663 | WP_010892441 | conjugal transfer protein TrbF | virB8 |
| X971_RS25930 (X971_5400) | 100007..101194 | - | 1188 | WP_010892442 | P-type conjugative transfer protein TrbL | virB6 |
| X971_RS25935 (X971_5401) | 101188..101415 | - | 228 | WP_010892443 | entry exclusion protein TrbK | - |
| X971_RS25940 (X971_5402) | 101412..102221 | - | 810 | WP_010892444 | P-type conjugative transfer protein TrbJ | virB5 |
| X971_RS25945 (X971_5403) | 102193..104655 | - | 2463 | WP_040132267 | conjugal transfer protein TrbE | virb4 |
| X971_RS25950 (X971_5404) | 104666..104965 | - | 300 | WP_010892446 | conjugal transfer protein TrbD | virB3 |
| X971_RS25955 (X971_5405) | 104958..105362 | - | 405 | WP_010892447 | conjugal transfer pilin TrbC | virB2 |
| X971_RS25960 (X971_5406) | 105352..106323 | - | 972 | WP_010892448 | P-type conjugative transfer ATPase TrbB | virB11 |
| X971_RS25965 (X971_5407) | 106320..106958 | - | 639 | WP_040132351 | acyl-homoserine-lactone synthase | - |
| X971_RS25970 (X971_5408) | 107319..108536 | + | 1218 | WP_010892450 | plasmid partitioning protein RepA | - |
| X971_RS25975 (X971_5409) | 108766..109776 | + | 1011 | WP_040132353 | plasmid partitioning protein RepB | - |
| X971_RS25980 (X971_5410) | 109983..111302 | + | 1320 | WP_010892452 | plasmid replication protein RepC | - |
Region 2: 151355..160790
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| X971_RS26145 (X971_5441) | 148885..149652 | + | 768 | WP_010892486 | AcvB/VirJ family lysyl-phosphatidylglycerol hydrolase | - |
| X971_RS27245 | 150214..150978 | + | 765 | Protein_133 | IS5 family transposase | - |
| X971_RS26150 (X971_5442) | 151355..152074 | + | 720 | WP_010892487 | type IV secretion system lytic transglycosylase VirB1 | virB1 |
| X971_RS26155 (X971_5443) | 152089..152454 | + | 366 | WP_010892488 | pilin major subunit VirB2 | virB2 |
| X971_RS26160 (X971_5444) | 152454..152780 | + | 327 | WP_010892489 | type IV secretion system protein VirB3 | virB3 |
| X971_RS26165 (X971_5445) | 152780..155149 | + | 2370 | WP_010892490 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| X971_RS26170 (X971_5446) | 155164..155826 | + | 663 | WP_010892491 | pilin minor subunit VirB5 | - |
| X971_RS26175 (X971_5447) | 155923..156810 | + | 888 | WP_010892492 | type IV secretion system protein | virB6 |
| X971_RS26180 (X971_5448) | 156844..157011 | + | 168 | WP_010892493 | type IV secretion system lipoprotein VirB7 | - |
| X971_RS26185 (X971_5449) | 156998..157711 | + | 714 | WP_032489857 | type IV secretion system protein VirB8 | virB8 |
| X971_RS26190 (X971_5450) | 157708..158589 | + | 882 | WP_010892495 | P-type conjugative transfer protein VirB9 | virB9 |
| X971_RS26195 (X971_5451) | 158586..159719 | + | 1134 | WP_010892496 | type IV secretion system protein VirB10 | virB10 |
| X971_RS26200 (X971_5452) | 159759..160790 | + | 1032 | WP_010892497 | P-type DNA transfer ATPase VirB11 | virB11 |
| X971_RS26205 (X971_5453) | 160922..161725 | + | 804 | WP_032488325 | response regulator | - |
| X971_RS27990 | 161784..162167 | + | 384 | WP_153463909 | hypothetical protein | - |
| X971_RS26215 (X971_5455) | 162223..162522 | - | 300 | Protein_147 | transposase domain-containing protein | - |
| X971_RS26220 (X971_5456) | 162550..164205 | - | 1656 | WP_040132295 | IS66-like element IS66 family transposase | - |
| X971_RS26225 (X971_5457) | 164251..164598 | - | 348 | WP_040132297 | IS66 family insertion sequence element accessory protein TnpB | - |
| X971_RS26230 (X971_5458) | 164595..165002 | - | 408 | WP_040132299 | transposase | - |
Host bacterium
| ID | 1094 | GenBank | NZ_CP007228 |
| Plasmid name | pTi | Incompatibility group | _ |
| Plasmid size | 205997 bp | Coordinate of oriT [Strand] | 30724..30760 [+] |
| Host baterium | Agrobacterium tumefaciens LBA4213 (Ach5) |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | mercury resistance |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |