Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118450
Name   oriT_F2/5|unnamed4 in_silico
Organism   Agrobacterium vitis strain F2/5
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP081842 (156365..156401 [-], 37 nt)
oriT length   37 nt
IRs (inverted repeats)      22..27, 32..37  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 37 nt

>oriT_F2/5|unnamed4
GGCTCCAAGGGCGCAATTATACGTCGCTGATGCGACG

Visualization of oriT structure



Relaxase

ID   11722 GenBank   WP_174113424
Name   traA_K4831_RS24490_F2/5|unnamed4 insolico UniProt ID   _
Length   1100 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1100 a.a.        Molecular weight: 123939.67 Da        Isoelectric Point: 9.9753

>WP_174113424.1 Ti-type conjugative transfer relaxase TraA [Agrobacterium vitis]
MAIAHFSASIISRGDGRSAVLSAAYRHCAKMEYEREARTIDYTRKQGLLHQEFVLPADAPNWVRSLIADR
SVSGAVEAFWNKVEAFEKRSDAQLARDLTIALPLELTAEQNIALVRDFVEKHILAKGMVADWVYHDNPGN
PHIHLMTTLRPLSEDGFGAKKVAVIGEEGQPVRTKSGKIVYELWAGSTEDFNALRDGWFERLNHHLALRG
FDLRVDGRSYEKQGIDLEPTIHLGVGTKAIERKAKSKALRPELERIELNEQLRRDNARRILRKPGIVLDM
ITRERSVFDERDVAKVLHRYVDDPAVFQQLMLRIIQNPEVLRLQRDTIEFATGEKVPARYSTRAMIRLEA
TMVRQALWLSNRYGHDVSDSALNATFRRHERLSDEQKTAIELIARPSRIAAVVGRAGAGKTTMMKAAREA
WELAGYRVVGGALAGKAAEGLEKEAGIQSRTLASWELRWNRGRDVLDDRTVFVMDEAGMVASKQMAGFVD
AVVRAGAKIVLVGDPEQLQPIEAGAAFRALVDRIGYAELETIYRQREDWMRKASLDLARGNVEKALTAYD
ANVRITGTRLKAEAVERLIGDWNHDYDQTKTTLILAHLRRDVRMLNVMAREKLVERGIVGEGHVFKTADG
VRQFDVGDQIVFLKNETSLGVKNGMIAQVIEAAPNRIVAIIGEGDERRQVIVEQRFYSNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYYGRRSFAFNGGLAKVLSRKNAKETTLDYERGKLY
REALRFAESRGLNIVQVARTLVRDQLDWTLRQKTKLVDLGQRLASFAERLGLHHPPKTQTIKEAAPMVAG
IKTFSGSVADTVEHKLDTDPALRQQWEEVSTRFSYVFADPETAFRAMNFDAVLADKETAKLALQTLTTAP
VSIGPLRGKTGILASKADREHRRVAELNVPALKRDLEHYLRMRETAVQRLKADEQVLRQRISIDIPALSP
AAHVVLERVRYAIDRNDLPAAMANALSNRETKLEIDGFNQAVTQRFGERTLLTNAAREPSGKIFDTLSNG
MEPEQKERLKQAWPVMRAAQQLAAHERTVQSLKQSEELRLIQSQTSVLKQ

  Protein domains


Predicted by InterproScan.

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

(855-951)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-736)

MobA/MobL family (MobA_MobL)

(17-243)

AAA domain (AAA_30)

(382-567)


  Protein structure



No available structure.




T4CP

ID   13729 GenBank   WP_071585024
Name   traG_K4831_RS24505_F2/5|unnamed4 insolico UniProt ID   _
Length   655 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 655 a.a.        Molecular weight: 70556.77 Da        Isoelectric Point: 9.1709

>WP_071585024.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Rhizobium/Agrobacterium group]
MTANRLLLFVLLAAIMLAALVMTSGMEHRLAEFGSSTQAKLMLGRTGLALPYIAVAAIGAIALFAANGSA
DIKTVGVSVLAANSAAIVIAMIRETIRLTGIASSVPAGQSVLTYADPATAVGAGVAFISAMFALRVTIKG
NAAFAQTGPKRIGGKRAVHGEADWMKLQEAAKLFPEPGGIVIGERYRVDKDSVATMPFRADEPQSWGAGG
KSQLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGGLVVLDPSSEVAPMVVDHRRKAGRKVIVLD
PTLQGVGFNALDWIGRHGNTKEEDIVAVATWIMTDNARTASVRDDFFRASAMQLLTALIADVCLSGHTDA
KNQTLRRVRANLSEPEPKLRGRLTEIYEQSESDFVKENVAVFVNMTPETFSGVYANAVKETHWLSYPHYA
GLVSGDSFSTDDLANGGTDIFIALDLKVLEAHPGLARVVIGALLNAIYNRNGDVKGRTLFLLDEVARLGY
LRILETARDAGRKYGITLTLIFQSLGQMREAYGGRDATSKWFESASWISFAAINDPDTADYISKRCGDTT
VEVDQTNRSSGMKGSSRSRSKQLSRRPLILPHELLRMRSDEQIVFTAGNAPLRCGRAIWFRREDMKACVG
ENRFHHPHTTTTAITAPKVTKSDED

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(163-635)

  Protein structure



No available structure.



ID   13730 GenBank   WP_174113412
Name   t4cp2_K4831_RS24720_F2/5|unnamed4 insolico UniProt ID   _
Length   822 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 822 a.a.        Molecular weight: 91739.69 Da        Isoelectric Point: 5.3930

>WP_174113412.1 conjugal transfer protein TrbE [Agrobacterium vitis]
MVALKSFRHSGPSFADLVPYAGLVDNGVILLKDGSLMAGWYFAGPDSESSTDGERNEVSRQINAILSRLD
SGWMIQVDAVRVPTGDYPDEAESHFPDPVTRAIDDERRAHFQKERGHFESCHALILTWRPPEPRRSGLTR
YVYSDAASRSATYADTMLQSFLTSIREVEQYLANVVSIRRMMTRETTERGGFRIARYDELFQFIRFCITG
ENHPVRLPDIPMYLDWLVTAELQHGLTPLVENRVLGVVAIDGLPAESWPGILNTLDLMPLTYRWSSRFIF
LDAEEARARLERTRKKWQQKVRPFFDQLFQTQSRSVDQDAMLMVAETEDAIAEASSQLVAYGYYTPVIVI
FDEDAIQLQEKCEAIRRLIQAEGFGARIETLNATDAFLGSLPGVSYANIREPLINTRNLADLIPLNSVWS
GSPTAPCPFYPPASPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYSDAQIFA
FDKGGSMLPLTLGLGGDHYQIGGDITPSAGAEVRMLAFCPLAELSTDGDRAWASEWIETLVALQSVTITP
DYRNAISRQIALMADSRGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEEDGLALGAFQCFEIEEL
MNMGERNLVPVLLYLFRRIEKRLTGAPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSIS
DAERSGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVATAIPKREYYVVSPEGRRLFNM
ALGPVALSFVGATGKEDLKQIRSLHSKHGAAWPCPWLQQRGIAHAETLFPTS

  Protein domains


Predicted by InterproScan.

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(193-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 183145..201138

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
K4831_RS24610 (K4831_24610) 182407..183012 - 606 WP_156556168 DUF1419 domain-containing protein -
K4831_RS24615 (K4831_24615) 183145..184080 - 936 WP_156556169 DUF3991 and toprim domain-containing protein traP
K4831_RS24620 (K4831_24620) 184258..184437 - 180 WP_156556171 hypothetical protein -
K4831_RS24625 (K4831_24625) 184902..185300 + 399 WP_234625163 DUF6088 family protein -
K4831_RS24630 (K4831_24630) 185290..186201 + 912 WP_234644357 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
K4831_RS24635 (K4831_24635) 186362..186580 - 219 WP_156556175 hypothetical protein -
K4831_RS24640 (K4831_24640) 186570..187376 - 807 WP_174113417 exodeoxyribonuclease III -
K4831_RS24645 (K4831_24645) 187373..187543 - 171 WP_156556177 hypothetical protein -
K4831_RS26885 187603..187890 + 288 WP_234644355 hypothetical protein -
K4831_RS24655 (K4831_24655) 187894..188206 + 313 Protein_178 hypothetical protein -
K4831_RS24660 (K4831_24660) 188214..188858 - 645 WP_174113416 SOS response-associated peptidase -
K4831_RS24665 (K4831_24665) 188888..189486 - 599 Protein_180 DUF159 family protein -
K4831_RS24670 (K4831_24670) 189497..190000 - 504 Protein_181 OB-fold nucleic acid binding domain-containing protein -
K4831_RS24675 (K4831_24675) 190224..190940 + 717 WP_156619943 IS6 family transposase -
K4831_RS24680 (K4831_24680) 191008..191448 - 441 Protein_183 DUF1403 family protein -
K4831_RS24685 (K4831_24685) 191451..192773 - 1323 WP_156556200 IncP-type conjugal transfer protein TrbI virB10
K4831_RS24690 (K4831_24690) 192785..193261 - 477 WP_156556228 conjugal transfer protein TrbH -
K4831_RS24695 (K4831_24695) 193261..194127 - 867 WP_267966963 P-type conjugative transfer protein TrbG virB9
K4831_RS24700 (K4831_24700) 194133..194795 - 663 WP_156556196 conjugal transfer protein TrbF virB8
K4831_RS24705 (K4831_24705) 194813..196003 - 1191 WP_174113415 P-type conjugative transfer protein TrbL virB6
K4831_RS24710 (K4831_24710) 195997..196224 - 228 WP_174113414 entry exclusion protein TrbK -
K4831_RS24715 (K4831_24715) 196221..197030 - 810 WP_174113413 P-type conjugative transfer protein TrbJ virB5
K4831_RS24720 (K4831_24720) 197002..199470 - 2469 WP_174113412 conjugal transfer protein TrbE virb4
K4831_RS24725 (K4831_24725) 199481..199780 - 300 WP_174113411 conjugal transfer protein TrbD virB3
K4831_RS24730 (K4831_24730) 199773..200177 - 405 WP_174113410 conjugal transfer pilin TrbC virB2
K4831_RS24735 (K4831_24735) 200167..201138 - 972 WP_174113409 P-type conjugative transfer ATPase TrbB virB11
K4831_RS24740 (K4831_24740) 201135..201773 - 639 WP_174113408 acyl-homoserine-lactone synthase TraI -
K4831_RS24745 (K4831_24745) 202131..203339 + 1209 WP_174113407 plasmid partitioning protein RepA -
K4831_RS24750 (K4831_24750) 203443..204447 + 1005 WP_174113406 plasmid partitioning protein RepB -

Host bacterium

ID   18883 GenBank   NZ_CP081842
Plasmid name   F2/5|unnamed4 Incompatibility group   -
Plasmid size   204449 bp Coordinate of oriT [Strand]   156365..156401 [-]
Host baterium   Agrobacterium vitis strain F2/5

Cargo genes

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