Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104023
Name   oriT_FDAARGOS_1048|unnamed1 in_silico
Organism   Agrobacterium tumefaciens strain FDAARGOS_1048
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP066273 (769303..769344 [-], 42 nt)
oriT length   42 nt
IRs (inverted repeats)      22..27, 31..36  (CGTCGT..ACGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 42 nt

>oriT_FDAARGOS_1048|unnamed1
GGCTCCAAGGGCGCAATTATACGTCGTGATACGACGCGTTGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2981 GenBank   WP_121668140
Name   traA_I6I05_RS03465_FDAARGOS_1048|unnamed1 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: 123849.41 Da        Isoelectric Point: 10.0236

>WP_121668140.1 Ti-type conjugative transfer relaxase TraA [Agrobacterium tumefaciens]
MAIAHFSASIVSRGSGRSVVLSAAYRHCAKMEFEREARTIDYTRKQGLLHEEFVLPANAPEWARSLIADR
SVSGAVEAFWNKVETFEKRADAQLARDLTIALPLELSAEQNIALVRDFVENHILAKGMVADWVYHENPGN
PHIHLMTTLRPLSDESFGSKKVAVIGEDGQPVRTKSGKILYELWAGSTDDFNVLRDGWFERLNHHLALGG
IDLKIDGRSYEKQGINLEPTIHLGVGAKAIERKAEQRGVRPELERVELNEQRRSENTRRILNNPAIVLDL
ITREKSVFDERDVAKVLHRYIDDPALFQQLMLKIILNPDVLRLQRETIDFSTGEKLPARYATRAMIRLEA
TMARQATWLSNREGRGVSPTALDATLRRHKRLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKAAREA
WELAGYHVVGGALAGKAAEGLEKEAGIQSRTLASWELRWKRGRDLLDDKTIFIMDEAGMVASKQMEAFVD
AAVRAGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREEWMRKASLDLARGNVENALSAYR
ANVRITGERLKAEAVERLIADWNHDYDQTKTILILAHLRRDVRMLNVMAREKLVERGMVGEGHLFRTADG
ERRFDAGDQIVFLKNERSLGVKNGMIGHVVEAAANRIVATVGEGDRRRQVIVEQRFYNNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYYGTRSFSFNGGLAKVLSRRQAKETTLDYEHGQFY
REALRFAETRGLHVVQVARTMVRDRLDWTLRQKAKLVDLSRRLAAFAAHLGITQSPKTQTMKETAPMVAG
IKTFSGSVSDIVGDRLGTDPSLKRQWEEVSARFAYVFADPETAFRAMNFDALLADKEVAKQILQKLEAEP
GSIGPLKGKTGILASKPEREARRVAEVNVPALKRDLEQYLRMRETVTQRLQTDEQSLRQRVSIDIPALSP
AARVVLERVRDAIDRNDLPAAMAYAISNRETKLEIDGFNRAVTERFGERTLLSNSAREPSGKLYEKLSES
MKPEQKGQLKQAWSVMRTAQQLAAHERTVQSLRQAEEQRLTQRQTPVLKQ

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-243)

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

(855-951)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-736)

AAA domain (AAA_30)

(382-566)


  Protein structure



No available structure.




T4CP

ID   2841 GenBank   WP_080863898
Name   t4cp2_I6I05_RS02830_FDAARGOS_1048|unnamed1 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: 91854.74 Da        Isoelectric Point: 5.8866

>WP_080863898.1 conjugal transfer protein TrbE [Agrobacterium tumefaciens]
MVALKSFRHFGPSFADLVPYAGLVDNGVILLKDGSLMAGWYFAGPDSESSTDAERNEVSRQINAILSRLG
SGWMIQVEAVRVPTGDYPTEEASHFPDPVTRAIDAERRAHFQKERGHYESRHALILTWRPPEPRRSGLTR
YVYSDVGSRSATYADKALESFLTSIREVEQYLANVVSIRRMMTRETPERGGHRVARYDELFQFIRFCITG
ENHPVRLPEIPMYLDWLVTAELQHGLTPLVENRFLGVVAIDGLPAESWPGILNSLDLMPLTYRWSSRFVF
LDAEEARARLERTRKKWQQKVRPFFDQLFQTQSRSLDQDAMLMVAETEDAIAEASSQLVAYGYYTPVVIL
FDDDQPSLKEKCEAVRRLIQAEGFGARIETINATDAFLGSLPGVSYANIREPLINTRNLADLIPLNSVWS
GSPVAPCPFYPAGSPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLSLIAAQFRRYAGAQIFA
FDKGGSMLPLTLGLDGDHYQIGGDFGPSANGETRALSFCPLAELSTDGDRAFASEWIEMLVALQGVTITP
DYRNAISRQIGLMVESRGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEQDGLALGAFQCFEIEEL
MNMGERNLVPVLTYLFRRIEKRLTGAPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSIS
DAERSGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIIATAIPKRDYYVVSPEGRRLFDM
ALGPVALSFIGATGRQDLKRIRSLHSEYGAAWPLHWLQQRGIAHADTLFPTE

  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.



ID   2842 GenBank   WP_038496882
Name   traG_I6I05_RS03480_FDAARGOS_1048|unnamed1 insolico UniProt ID   _
Length   645 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 645 a.a.        Molecular weight: 69298.32 Da        Isoelectric Point: 9.3471

>WP_038496882.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Rhizobium/Agrobacterium group]
MTANRLLLAILPAAIMIAVMILTSGLEHRLAALGTTAPAKLVLGRAGLALPYVAATAIGVVALFAANGST
NIKAAGLSVLVGSAVVIIIAVAREAIRLAGIAGNVPAGQSVLAYADPATLIGAGIAFLGSVFALRVSIMG
SAAFATAAPKRIGGRRAVHGEADWMKMQEAAKLFPEHGGIVIGERYRVDRDSIATMQFRADEPQSWGAGG
RSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGGLVVLDPSSEVAPMVSEHRRQAGRKVIVLD
PTASGVGFNALDWIGRHGNTKEEDIVAVATWIMTDNARTASARDDFFRASAMQLLTALIADVCLSGHTDE
KDQTLRQVRANLSEPEPKLRARLTKIYEGSDSDFVKENVSVFVNMTPETFFGVYANAVKETHWLSYPNYA
GLVSGDSFSTDDLANGGTDIFIALDLKVLEAHPGFARVVIGSLLNAIYNRKGDVKDRTLFLLDEVARLGY
LRILETARDAGRKYGITLTMIFQSLGQMREAYGRRDATSKWFESASWISFAAINDPDTADYISKRCGDTT
VEVDQTNRSSGMKGSSRSRSKQLNRRPLILPHEVLRMRADEQIVFTSGNAPLRCGRAVWFRREDMKACVG
ENRFHKNSSGTDNPL

  Protein domains


Predicted by InterproScan.

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

(163-638)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 626815..636486

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
I6I05_RS02795 (I6I05_02795) 622442..623674 + 1233 WP_080863892 CapA family protein -
I6I05_RS02800 (I6I05_02800) 623791..625086 + 1296 WP_080863893 peptidase T -
I6I05_RS02805 (I6I05_02805) 625091..626014 + 924 WP_121556230 citrulline utilization hydrolase CtlX -
I6I05_RS02810 (I6I05_02810) 626180..626818 + 639 WP_080863894 acyl-homoserine-lactone synthase TraI -
I6I05_RS02815 (I6I05_02815) 626815..627786 + 972 WP_080863895 P-type conjugative transfer ATPase TrbB virB11
I6I05_RS02820 (I6I05_02820) 627776..628180 + 405 WP_080863896 conjugal transfer pilin TrbC virB2
I6I05_RS02825 (I6I05_02825) 628173..628472 + 300 WP_080863897 conjugal transfer protein TrbD virB3
I6I05_RS02830 (I6I05_02830) 628484..630952 + 2469 WP_080863898 conjugal transfer protein TrbE virb4
I6I05_RS02835 (I6I05_02835) 630924..631733 + 810 WP_080863899 P-type conjugative transfer protein TrbJ virB5
I6I05_RS02840 (I6I05_02840) 631730..631957 + 228 WP_080863900 entry exclusion protein TrbK -
I6I05_RS02845 (I6I05_02845) 631951..633141 + 1191 WP_080863901 P-type conjugative transfer protein TrbL virB6
I6I05_RS02850 (I6I05_02850) 633157..633819 + 663 WP_080863902 conjugal transfer protein TrbF virB8
I6I05_RS02855 (I6I05_02855) 633837..634688 + 852 WP_080863994 P-type conjugative transfer protein TrbG virB9
I6I05_RS02860 (I6I05_02860) 634688..635167 + 480 WP_080863903 conjugal transfer protein TrbH -
I6I05_RS02865 (I6I05_02865) 635179..636486 + 1308 WP_080863904 IncP-type conjugal transfer protein TrbI virB10
I6I05_RS02870 (I6I05_02870) 636770..636943 + 174 Protein_587 integrase core domain-containing protein -
I6I05_RS02875 (I6I05_02875) 637052..637462 - 411 WP_080863906 helix-turn-helix domain-containing protein -
I6I05_RS02880 (I6I05_02880) 637799..638866 - 1068 WP_080863907 alkene reductase -
I6I05_RS02885 (I6I05_02885) 639795..640553 + 759 WP_080863908 ABC transporter permease -

Host bacterium

ID   4463 GenBank   NZ_CP066273
Plasmid name   FDAARGOS_1048|unnamed1 Incompatibility group   -
Plasmid size   815865 bp Coordinate of oriT [Strand]   769303..769344 [-]
Host baterium   Agrobacterium tumefaciens strain FDAARGOS_1048

Cargo genes

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