Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100709
Name   oriT_pTi in_silico
Organism   Agrobacterium tumefaciens strain Ach5
Sequence Completeness      core
NCBI accession of oriT (coordinates [strand])   NZ_CP011249 (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

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   781 GenBank   WP_046205710
Name   TraA_pTi insolico UniProt ID   _
Length   1100 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1100 a.a.        Molecular weight: 123658.33 Da        Isoelectric Point: 9.9322

>WP_046205710.1 Ti-type conjugative transfer relaxase TraA [Agrobacterium tumefaciens]
MAIAHFSASIVSRGSGRSVVLSAAYRHCAKMEYEREARTIDYTRKQGLLHEEFVLPADAPKWVRSLIADR
SVSGASEAFWNKVEAFEKRADAQLARDLTIALPLELSAEQNIALVRDFVENHILAKGMVADWVYHENPGN
PHIHLMTTLRPLSDESFGSKKVAVIGEDGQPVRTKSGKILYELWAGSTDDFNVLRDGWFERLNHHLALGG
IDLKIDGRSYEKQGINLEPTIHLGVGAKAIERKAEQRGVRPELERVELNEQRRSENTRRILNNPAIVLDL
ITREKSVFDERDVAKVLHRYIDDPALFQQLMLKIILNPDVLRLQRETIDFSTGEKLPARYATRAMIRLEA
TMARQATWLSNREGRGVSPTALDATLRRHKRLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKAAREA
WELAGYHVVGGALAGKAAEGLEKEAGIQSRTLASWELRWKRGRDLLDDKTIFIMDEAGMVASKQMEAFVD
AAVRAGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREEWMRKASLDLARGNVENALSAYR
ANVRITGERLKAEAVERLIADWNHDYDQTKTILILAHLRRDVRMLNVMAREKLVERGMVGEGHLFRTADG
ERRFDAGDQIVFLKNEGSLGLKNGMIGHVVVAAANRIVATVGEGDQRRQVIVEQRFYNNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYYGTRSFSFNGGLAKVLSRRQAKETTLDYEHGQFY
REALRFAETRGLHVVQVARTMVRDRLDWTLRQKAKLVDLSRRLAAFAAHLGITQSPKTQTMKETAPMVAG
IKTFSGSVSDIVGDRLGTDPSLKRQWEEVSARFAYVFADPETAFRAMNFAALLADKEVAKQILQKLEAEP
GSIGPLKGKTGILASKPEREARRVAEVNVPALKRDLEQYLRMRETVTQRLQTDEQSLRQRVSIDIPALSP
AARVVLERVRDAIDRNDLPAAIAYALSNRETKLEIDGFNQAVTERFGERTLLSNAAREPSGKLYEKLSEG
MKPEQKEELKQAWPVMRTAQQLVAHERTVHSLKLAEEHRLTQRQTPVLKQ

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(382-566)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-736)

BID domain of Bartonella effector protein (Bep) (Bep_C_terminal)

(855-951)

MobA/MobL family (MobA_MobL)

(17-243)


  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
Ach5_RS26160 (Ach5_51970) 92108..92989 + 882 WP_010892435 ABC transporter permease -
Ach5_RS26165 (Ach5_51980) 92989..94755 + 1767 WP_010892436 ABC transporter ATP-binding protein -
Ach5_RS26170 (Ach5_51990) 94871..96439 + 1569 WP_010892437 ABC transporter substrate-binding protein -
Ach5_RS26175 (Ach5_52000) 96672..97973 - 1302 WP_010892438 IncP-type conjugal transfer protein TrbI virB10
Ach5_RS26180 (Ach5_52010) 97983..98459 - 477 WP_046205713 conjugal transfer protein TrbH -
Ach5_RS26185 (Ach5_52020) 98459..99313 - 855 WP_040132265 P-type conjugative transfer protein TrbG virB9
Ach5_RS26190 (Ach5_52030) 99330..99992 - 663 WP_010892441 conjugal transfer protein TrbF virB8
Ach5_RS26195 (Ach5_52040) 100007..101194 - 1188 WP_010892442 P-type conjugative transfer protein TrbL virB6
Ach5_RS26200 (Ach5_52050) 101188..101415 - 228 WP_010892443 entry exclusion protein TrbK -
Ach5_RS26205 (Ach5_52060) 101412..102221 - 810 WP_010892444 P-type conjugative transfer protein TrbJ virB5
Ach5_RS26210 (Ach5_52070) 102193..104655 - 2463 WP_040132267 conjugal transfer protein TrbE virb4
Ach5_RS26215 (Ach5_52080) 104666..104965 - 300 WP_010892446 conjugal transfer protein TrbD virB3
Ach5_RS26220 (Ach5_52090) 104958..105362 - 405 WP_010892447 conjugal transfer pilin TrbC virB2
Ach5_RS26225 (Ach5_52100) 105352..106323 - 972 WP_010892448 P-type conjugative transfer ATPase TrbB virB11
Ach5_RS26230 (Ach5_52110) 106320..106958 - 639 WP_040132351 acyl-homoserine-lactone synthase -
Ach5_RS26235 (Ach5_52120) 107319..108536 + 1218 WP_010892450 plasmid partitioning protein RepA -
Ach5_RS26240 (Ach5_52130) 108766..109776 + 1011 WP_040132353 plasmid partitioning protein RepB -
Ach5_RS26245 (Ach5_52140) 109983..111302 + 1320 WP_010892452 plasmid replication protein RepC -

Region 2: 151355..160790

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
Ach5_RS26410 (Ach5_52470) 148885..149652 + 768 WP_010892486 AcvB/VirJ family lysyl-phosphatidylglycerol hydrolase -
Ach5_RS27720 150214..150978 + 765 Protein_133 IS5 family transposase -
Ach5_RS26415 (Ach5_52480) 151355..152074 + 720 WP_010892487 type IV secretion system lytic transglycosylase VirB1 virB1
Ach5_RS26420 (Ach5_52490) 152089..152454 + 366 WP_010892488 pilin major subunit VirB2 virB2
Ach5_RS26425 (Ach5_52500) 152454..152780 + 327 WP_010892489 type IV secretion system protein VirB3 virB3
Ach5_RS26430 (Ach5_52510) 152780..155149 + 2370 WP_010892490 VirB4 family type IV secretion/conjugal transfer ATPase virb4
Ach5_RS26435 (Ach5_52520) 155164..155826 + 663 WP_010892491 pilin minor subunit VirB5 -
Ach5_RS26440 (Ach5_52530) 155923..156810 + 888 WP_010892492 type IV secretion system protein virB6
Ach5_RS26445 (Ach5_52540) 156844..157011 + 168 WP_010892493 type IV secretion system lipoprotein VirB7 -
Ach5_RS26450 (Ach5_52550) 156998..157711 + 714 WP_032489857 type IV secretion system protein VirB8 virB8
Ach5_RS26455 (Ach5_52560) 157708..158589 + 882 WP_010892495 P-type conjugative transfer protein VirB9 virB9
Ach5_RS26460 158586..159719 + 1134 WP_010892496 type IV secretion system protein VirB10 virB10
Ach5_RS26465 (Ach5_52580) 159759..160790 + 1032 WP_010892497 P-type DNA transfer ATPase VirB11 virB11
Ach5_RS26470 (Ach5_52590) 160922..161725 + 804 WP_032488325 response regulator -
Ach5_RS28400 (Ach5_52600) 161784..162167 + 384 WP_153463909 hypothetical protein -
Ach5_RS26480 (Ach5_52610) 162223..162522 - 300 Protein_147 transposase domain-containing protein -
Ach5_RS26485 (Ach5_52620) 162550..164205 - 1656 WP_046205714 IS66-like element IS66 family transposase -
Ach5_RS26490 (Ach5_52630) 164251..164598 - 348 WP_040132297 IS66 family insertion sequence element accessory protein TnpB -
Ach5_RS26495 (Ach5_52640) 164595..165002 - 408 WP_040132299 transposase -

Host bacterium

ID   1169 GenBank   NZ_CP011249
Plasmid name   pTi Incompatibility group   _
Plasmid size   194264 bp Coordinate of oriT [Strand]   30724..30760 [+]
Host baterium   Agrobacterium tumefaciens strain Ach5

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -