Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115480
Name   oriT_C16/80|unnamed1 in_silico
Organism   Rhizobium rhizogenes strain C16/80
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP118251 (156589..156638 [+], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      18..24, 29..35  (ACGTCGC..GCGACGT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_C16/80|unnamed1
TCCAAGGGCGCAATTATACGTCGCTGACGCGACGTGTTGCTAAGGGAGCC

Visualization of oriT structure



Relaxase

ID   9913 GenBank   WP_174168219
Name   traA_G6L54_RS00675_C16/80|unnamed1 insolico UniProt ID   _
Length   1108 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1108 a.a.        Molecular weight: 122668.77 Da        Isoelectric Point: 9.7536

>WP_174168219.1 Ti-type conjugative transfer relaxase TraA [Rhizobium rhizogenes]
MAVPHFSVSIVARGSGRSAVLSAAYRHCAKMEFEREARTIDYTRKQGLLHEEFVVPADAPEWVRSMIADR
SVAGASEAFWNTVEGFEKRSDAQLAKDVTIALPLELTAEQNIALMRDFVAGHITAQGMVADWVYHDAPGN
PHVHLMTTLRPLTEDGFGSKKVAVLGPDGKPVRNDAGKIVYQLWAGSTDDFNAFREGWFACQNKHLALAG
LDIRIDGRSFEKQGIDLEPTIHLGVGAKAIERKAEQSDQKPETPTPKLERIELQEERRSENARRIQRRPE
IVLDLITREKSVFDERDVAKVLYRYIDDVALFQSLMVRILQSPEALRLERERINFATGIRTPAKHTTREM
IRLEAEMANRAIWLSRRASHGVREAVLQATFARHSRLSDEQRTAIEHIAGAPRIAAVIGRAGAGKTTMMK
AAREAWEAAGYRVVGGALAGKAAEGLEKEAGIGSRTLSSWELRWNQGRNQLDHKTVFVLDEAGMVSSRQM
ALLVEAVTKAGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAELETIYRQRQQWMRDASLDLARGNIRRA
VDAYTAHGRMIGLRLKDDAVESLIAAWDRDYDPSKTSLILAHLRRDVRMLNDMARAKLVERGVVAEGLPF
KTEDGTRMFATGDQIVFLKNEGSLGVKNGMLAKVLEAAPGRIVAEVGEGEHRRQVMIEQRFYNNLDHGYA
TTIHKSQGATVDRVKVLASLSLDRHLTYVAMTRHREDLAVYYGSRSFAKSGGLISILSRRNAKETTLDYE
KASFYGQALRFAEARGLHLVNVARTIAHDRLQWAVRQKQKLADLGARLAAIGAALGLVRGSSKHSIPDTI
KEAKPMVSGITTYPKSLDQAVEDKLAADPGLKTQWEDVSTRFQLVYAQPEAAFKAINVDAMVKDQSVAQS
TLARIAGEPESFGALKGKTGLLASRGDKQDREKAIANAPALARNLERYLRERAEAEFKHETEERAVRLKV
SVDIPALSPSAKQTLERVRDAIDRNDLPAGLEYALADKMVKAELEGFAKAVSERFGERTFLPLAAKDTDG
KTFETATAGMTAGQKAEVQSAWNSMRTVQQLAAHERTTEALKQAETLRQTKSQGLSLK

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-243)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(697-740)

AAA domain (AAA_30)

(387-570)

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

(864-960)


  Protein structure



No available structure.




T4CP

ID   11556 GenBank   WP_280957027
Name   traG_G6L54_RS00660_C16/80|unnamed1 insolico UniProt ID   _
Length   644 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 644 a.a.        Molecular weight: 69430.45 Da        Isoelectric Point: 8.4548

>WP_280957027.1 Ti-type conjugative transfer system protein TraG [Rhizobium rhizogenes]
MTINRIALVVVPGTLMILVVVGMTGIEQWLSGFGKTEAARLAWGRVGIALPYGASAAIGILFLFSSAGSI
NIRQAGWGVVAGSSGTISIAALRETVRLSAFMKAMPTDNTVLAYLDPATAIGAGVLLMCACFALRVVLIG
NAAFARAEPKRIQGKRALHGEADWMKLTEAAKLFPDTGGIVIGEHYRVDKDSVASQAFRSDNAETWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGSTLIVLDPSNEVAPMVSAHRGGAGRDVFVLD
PKKPDIGFNVLDWVGRFGGTKEEDIASVASWIMSDSGGARGVRDDFFRASALQLLTALIADVCLSGHTDE
TEQSLRQVRMNLSEPEPTLRKRLQDIYDNSGSDFVKENVAAFVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGKKFSTSDIAAGNTDVFINIDLKTLETHSGLARVIIGSFLNAIYNCDGQLNGRALFLLDEVARLGY
MRIIETARDAGRKYGITLTMIYQSIGQMRETYGGRDAASKWFESASWISFAAINDPETADYISKRCGMTT
VEIDQVSRSFQAKGSSRTRSKQLAARPLIQPHEVLRLRADEQIVFTAGNAPLRCGRAIWFRRDDMKACVG
TNRFHMIGDAPKPA

  Protein domains


Predicted by InterproScan.

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

(163-634)

  Protein structure



No available structure.



ID   11557 GenBank   WP_015084523
Name   t4cp2_G6L54_RS00750_C16/80|unnamed1 insolico UniProt ID   _
Length   818 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 818 a.a.        Molecular weight: 92031.73 Da        Isoelectric Point: 5.7791

>WP_015084523.1 MULTISPECIES: conjugal transfer protein TrbE [Rhizobium/Agrobacterium group]
MVALKRFREAGPSFADLVPYAGLVDNGVLLLKDGSLMAGWYFAGPDSESATDLERNELSRQINAVLSRLG
SGWMIQVEAIRIPTVDYPSEDRCHFPDPVTRAIDAERRSHFAREQGHFESKHALILTYRPLESKRTSLSK
YIYSDEESRKKSYADTVLFVFKSAVRELEQYFANTLSIRRMETRETLERGGERVARYDELLQFARFCITG
ESHPIRLPDVPMYLDWIATAELEHGLTPKVENRFLGVVAIDGLPSESWPGILNSLDLMPLTYRWSSRFIF
LDAEEARQKLERTRKKWQQKVRPFFDQIFQTQSRSVDQDAMTMVAETEDAIAQASSQLLAYGYYTPVIVL
FDSDRETLQEKAEAIRRLIQAEGFGARIETLNATDAYLGSLPGNWYCNIREPLINTSNLADLIPLNSVWS
GNPVAPCPFYPPNSPPLMQVASGSTAFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYEHAQIFA
FDKGSSLLPLTLAAGGDHYEIGGDNAEEGRVLAFCPLSELKSDADRAWATEWIEMLVGLQGVAITPDHRN
AISRQIRLMASASGRSLSDFVSGVQLREIKDALHHYTVDGPMGQLLDAEEDGLTLGAFQTFEIEQLMNMG
ERNLVPVLTYLFRRIEKRLDGSPSLIVLDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSISDAER
SGIIDVLKESCPTKICLPNGAARESGTREFYERIGFNERQIEIVATAMPKREYYVATPEGRRLFNMSLGP
VALSFVGASGKDDLKRIRALKSEHGHDWPIHWLETRGVHDATSLLRFE

  Protein domains


Predicted by InterproScan.

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

(190-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 161758..175556

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
G6L54_RS00680 (G6L54_034070) 160025..160588 + 564 WP_015084509 conjugative transfer signal peptidase TraF -
G6L54_RS00685 (G6L54_034075) 160578..161741 + 1164 WP_015084510 conjugal transfer protein TraB -
G6L54_RS00690 (G6L54_034080) 161758..162372 + 615 WP_015084511 TraH family protein virB1
G6L54_RS00695 (G6L54_034085) 162578..164158 + 1581 WP_174168220 Fic family protein -
G6L54_RS00700 (G6L54_034090) 164204..164434 - 231 WP_015084513 helix-turn-helix domain-containing protein -
G6L54_RS00705 (G6L54_034095) 164647..164970 + 324 WP_174168221 transcriptional repressor TraM -
G6L54_RS00710 (G6L54_034100) 164973..165677 - 705 WP_015084515 autoinducer binding domain-containing protein -
G6L54_RS00715 (G6L54_034105) 166027..167325 - 1299 WP_015084516 IncP-type conjugal transfer protein TrbI virB10
G6L54_RS00720 (G6L54_034110) 167337..167783 - 447 WP_015084517 conjugal transfer protein TrbH -
G6L54_RS00725 (G6L54_034115) 167787..168599 - 813 WP_280957012 P-type conjugative transfer protein TrbG virB9
G6L54_RS00730 (G6L54_034120) 168617..169279 - 663 WP_280957028 conjugal transfer protein TrbF virB8
G6L54_RS00735 (G6L54_034125) 169300..170481 - 1182 WP_015084520 P-type conjugative transfer protein TrbL virB6
G6L54_RS00740 (G6L54_034130) 170475..170675 - 201 WP_034523088 entry exclusion protein TrbK -
G6L54_RS00745 (G6L54_034135) 170672..171475 - 804 WP_015084522 P-type conjugative transfer protein TrbJ virB5
G6L54_RS00750 (G6L54_034140) 171447..173903 - 2457 WP_015084523 conjugal transfer protein TrbE virb4
G6L54_RS00755 (G6L54_034145) 173914..174213 - 300 WP_015084524 conjugal transfer protein TrbD virB3
G6L54_RS00760 (G6L54_034150) 174206..174589 - 384 WP_015084525 TrbC/VirB2 family protein virB2
G6L54_RS00765 (G6L54_034155) 174579..175556 - 978 WP_015084526 P-type conjugative transfer ATPase TrbB virB11
G6L54_RS00770 (G6L54_034160) 175568..176191 - 624 WP_015084527 acyl-homoserine-lactone synthase -

Host bacterium

ID   15913 GenBank   NZ_CP118251
Plasmid name   C16/80|unnamed1 Incompatibility group   -
Plasmid size   176580 bp Coordinate of oriT [Strand]   156589..156638 [+]
Host baterium   Rhizobium rhizogenes strain C16/80

Cargo genes

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