Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118449
Name   oriT_F2/5|unnamed3 in_silico
Organism   Agrobacterium vitis strain F2/5
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP081841 (78387..78426 [+], 40 nt)
oriT length   40 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 40 nt

>oriT_F2/5|unnamed3
TCCAAGGGCGCAATTATACGTCGCTGACACGACGCCTTGC

Visualization of oriT structure



Relaxase

ID   11721 GenBank   WP_174113225
Name   traA_K4831_RS23200_F2/5|unnamed3 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: 123770.52 Da        Isoelectric Point: 9.9361

>WP_174113225.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [Agrobacterium]
MAIAHFSASIVSRGGGRSVVLSAAYRHCAKMEYEREARTIDYTRKQGLLHEEFVLPIDAPKWARAMIADR
SVSGAVEAFWNKVEDFEKRSDAQLARDLTIALPLELTPEQNIALVRDFVEKHIHAKGMVADWVYHNNPGN
PHIHLMTTLRPLTEDGFGAKKVAVTAKDGQPVRTKSGKILYELWAGSTDDFNVLRDGWFERLNHHLALGG
IDLRIDGRSYEKQGIDLEPAIHLGVGAKAIERKAQEQGFRPELERLELNEERRGENARRILRRPEIVLDL
IMREKSVFDERDVAKVLHRYIDDPAVFQQLMLRIILNPEVLRLQRDTIDFSTGEKVPARYSTRAMIRLEA
TMVRQATWLSGKDTHAVSAAVLDATLRRHERLSEEQKTAIERIAGPARIAAVVGRAGAGKTTMMKAVREA
WELAGYRVVGGALAGKAAEGLEKEAGIQSRTLASWELRWNRGRDVLDSKTIFVMDEAGMVASKQMAGFVD
TVVRAGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREDWMRKASLDLARGNVEKALTAYD
ANVRITGTRLKAEAVERLIGDWNHDYDHTKTTLILAHLRRDVRMLNQMAREKLVERGIVGEGHVFKTADG
IRQFDAGDQIVFLKNEGSLGVKNGMIAHIIEAAPNRIVAVIGEGDQRRRVIVEQRFYSNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYYGRRSFAFNGGLSKVLSRKNAKETTLDYERGSLY
REALRYAENRGLNIVQVARTLLRDQLDWTLRQKTRLDELGQRLAVFAERLGLHHPPKTQTMKEAAPMVAG
IKTFPGSVADTVGDRLGTDPALKRQWEEVSTRFAYVFADPETAFRAMNFDAVLADKDSALQVLQKLEAEP
ASIGPLKGKTGILASKTDREDRRIAELNVPALKRDLEQYLRMRENAAQRLQTDEQALRQRVSIDIPALSP
AARVVLERVRDAIDRNDLPAALGYVLSNRETKLEIDGFSKAVTERFGERTLLTNAARQPSGPLFDKLSNG
MRPAQKEQLKEAWPVMRTAQQIAAHERTTQTLKQAEELRLTQRQSPVMKQ

  Protein domains


Predicted by InterproScan.

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

(855-951)

MobA/MobL family (MobA_MobL)

(17-243)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-736)

AAA domain (AAA_30)

(382-567)


  Protein structure



No available structure.




T4CP

ID   13727 GenBank   WP_153517022
Name   traG_K4831_RS23185_F2/5|unnamed3 insolico UniProt ID   _
Length   641 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 641 a.a.        Molecular weight: 69244.33 Da        Isoelectric Point: 9.4596

>WP_153517022.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Agrobacterium]
MTVNRLLLLILPAIIMLAAMFATSGTEQRLAAFGTSPQAKLMLGRAGLALPYIAAVAIGLIGLFAANGSA
NIKAAGLSVLAGNGVVITIATLREVIRLNSITSRVPAEQSVLAYADPVTMIGVGIAFISGMFALRVAIKG
NAAFATTAPKRIGGKRAVHGEADWMKIQEAAKLFPEPGGIVIGERYRVDRDSVATMPFRADDRQSWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGGLVVLDPSSEVAPMVYEHRRQAGRKVIVLD
PTAGGVGFNALDWIGRHGSTKEEDIVAVATWIMTDNPRTASARDDFFRASAMQLLTALIADVCLSGHTEA
EDQTLRRVRANLSEPEPKLRARLTKIYEGSESDFVKENVSVFVNMTPETFSGVYANAVKETHWLSYPNYA
GLVSGDSFSTDDLADGGTDIFIALDLKVLEAHPGLARVVIGSLLNAIYNRNGDVKGRTLFLLDEVARLGY
LRILETARDAGRKYGTTLTMIFQSIGQMREAYGGRDATSKWFESASWISFAAINDPDTADYISKRCGDTT
VEVDQTNRSSGMKGSSRSRSRQLSRRPLILPHEVLRMRADEQIVFTSGNPPLRCGRAIWFRRDDMKACVG
TNRFHREEKAP

  Protein domains


Predicted by InterproScan.

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

(163-635)

  Protein structure



No available structure.



ID   13728 GenBank   WP_060716498
Name   t4cp2_K4831_RS23725_F2/5|unnamed3 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: 92090.79 Da        Isoelectric Point: 5.4919

>WP_060716498.1 MULTISPECIES: conjugal transfer protein TrbE [Rhizobium/Agrobacterium group]
MVALNLFRHSGPSFADLVPYAGLVDNGVILLKDGSLMAGWYFAGPDSESSTDAERNEVSRQINMIMSRLG
SGWMIQVEALRVPTIDYPADDACHFADPVTRAIDTERRTHFERESGHFESRHALILTWRPPEPRRSGLAR
YVYSDTASRSATYADTALESFRTSIREVEQYLANVVSIRRMVTRETEERGGFRIARYDELFQFIRFCITG
ENHPVRLPDIPMYLDWLVTAELQHGLTPTVESRFLGVVAIDGLAAESWPGILNSLDLMPLTYRWSSRFVF
LDEQEARQKLERTRKKWQQKVRPFFDQLFQTQSRSLDQDAMMMVAETEDAIAEASSQLVAYGYYTPVIVL
FDEQQERLQEKCEAIRRLIQAEGFGARIETLNATDAFLGSLPGVSYANIREPLVNTRNLADLIPLNSVWS
GSPVAPCPFYPPGSPPLMQVASGSTPFRLNLHVDDVGHTLVFGPTGSGKSTLLSLIAAQFRRYADAQIFA
FDKGRSMLPLTLAIGGDHYEIGGDAAEGGERDSPRLAFCPLAELASDGDRAWAAEWIETLVALQGVTVTP
DYRNAISRQLALMAESRGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEQDGLALGAFQCFEVEEL
MNLGERNLVPVLLYMFRRVEKRLTGAPSLIILDEAWLMLGHPTFRNKIREWLKVVRKANCAVVLATQSIS
DAERSGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVATALPKREYYVASPEGRRLFDM
SLGPVALSFVGASGKEDLKRIRALHFEHGADWPKHWLQQRGIAHAETLFQAA

  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: 187560..197236

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
K4831_RS23675 (K4831_23675) 183197..183982 + 786 WP_060716474 amino acid ABC transporter ATP-binding protein -
K4831_RS23680 (K4831_23680) 184128..185465 + 1338 WP_202037108 MmgE/PrpD family protein -
K4831_RS23685 (K4831_23685) 185641..187506 + 1866 WP_060716476 LysR family transcriptional regulator -
K4831_RS23690 (K4831_23690) 187560..188870 - 1311 WP_153517050 IncP-type conjugal transfer protein TrbI virB10
K4831_RS23695 (K4831_23695) 188883..189362 - 480 WP_071208209 conjugal transfer protein TrbH -
K4831_RS23700 (K4831_23700) 189362..190216 - 855 WP_071208371 P-type conjugative transfer protein TrbG virB9
K4831_RS23705 (K4831_23705) 190234..190896 - 663 WP_153517051 conjugal transfer protein TrbF virB8
K4831_RS23710 (K4831_23710) 190911..192107 - 1197 WP_153517052 P-type conjugative transfer protein TrbL virB6
K4831_RS23715 (K4831_23715) 192101..192319 - 219 WP_060716496 entry exclusion protein TrbK -
K4831_RS23720 (K4831_23720) 192316..193125 - 810 WP_153517054 P-type conjugative transfer protein TrbJ virB5
K4831_RS23725 (K4831_23725) 193097..195565 - 2469 WP_060716498 conjugal transfer protein TrbE virb4
K4831_RS23730 (K4831_23730) 195576..195875 - 300 WP_045023373 conjugal transfer protein TrbD virB3
K4831_RS23735 (K4831_23735) 195868..196275 - 408 WP_060716499 conjugal transfer pilin TrbC virB2
K4831_RS23740 (K4831_23740) 196265..197236 - 972 WP_060716500 P-type conjugative transfer ATPase TrbB virB11
K4831_RS23745 (K4831_23745) 197233..197868 - 636 WP_060716501 acyl-homoserine-lactone synthase -
K4831_RS23750 (K4831_23750) 198233..199450 + 1218 WP_060716600 plasmid partitioning protein RepA -
K4831_RS23755 (K4831_23755) 199680..200690 + 1011 WP_060716502 plasmid partitioning protein RepB -

Host bacterium

ID   18882 GenBank   NZ_CP081841
Plasmid name   F2/5|unnamed3 Incompatibility group   -
Plasmid size   200742 bp Coordinate of oriT [Strand]   78387..78426 [+]
Host baterium   Agrobacterium vitis strain F2/5

Cargo genes

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