Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107633
Name   oriT_BLR175|p3 in_silico
Organism   Rhizobium bangladeshense strain BLR175
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP071615 (251060..251093 [+], 34 nt)
oriT length   34 nt
IRs (inverted repeats)      19..24, 29..34  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 34 nt

>oriT_BLR175|p3
TCCAAGGGCGCAATTATACGTCGCTGGCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5128 GenBank   WP_207603830
Name   traA_J2J98_RS27130_BLR175|p3 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: 123147.73 Da        Isoelectric Point: 9.9555

>WP_207603830.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [Rhizobium]
MAVPHFSVSVVARGSGRSAVLSAAYRHCAKMEFEREARTIDYTRKQGLLHEEFVIPTDAPEWVRSMIADR
SVAGASEAFWNKVEGFEKRSDAQLAKDVTIGLPLELTAEQNIALVRDFVACHITAKGMVADWVYHDAPGN
PHVHLMTTLRPLTEDGFGSKKVAVLAPDGKPIRNDAGKIVYQLWAGSTEDFNAFRDGWFACQNKHLALAG
LDIRIDGRSFEKQGIDLEPTIHLGVGAKAIERKAEQSDHKSETSTPKLERVELQEERRRENARRIQRRPE
IVLDLITREKSVFDERDVAKVLYRYIDDVLLFQSLMVRILQSPEALRLERERINFATGIRTPAKYTTREM
IRLEAEMANRAIWLSGRASHGVREVVLQATFTRHSRLSDEQRTAIEHVAGTTRIAAVIGRAGAGKTTMMK
AAREAWETAGYRVVGGALAGKAAEGLEKEAGIVSRTLSSWELRWNQGRNQLDDKTVFVLDEAGMVSSRQM
ALLVEAVTKAGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAELETIYRQRQQWMRDASLDLARGNVRKA
VDAYTAHGRMIGLRLKDEAVESLIAAWDRDYDPSKTSLILAHLRRDARMLNDIARAKLVERGVVADGFAF
KTEDGTRMFAAGDQIVFLKNEGSLGVKNGMLAKVVEAAPGRIVAEIGEREHRRQVTIEQRFYNNLDHGYA
TTIHKSQGATVDRVKVLASLSLDRHLTYVAMTRHREDLAIYYGSRSFAKSGGLIPILSRRNAKETSLDYE
KSALYRQALRFAEARGLHLMNVARTIAHDRLQWAVRQKKKLADLGARLAAIGAALGLVRGSNKHSIPDTI
KEAKPMVSGITTFPKSLDQAVEDKLAADPGLKKQWEDVSTRLQLIYAKPEAAFKAINVDTMLKDQSVAQS
TLARIAGEPESFGALKGKTGLLASRGDKQDREKALANVPALARNLERYLRERAEAEFKHETEERAVRLKV
SVDIPALSPAAKQTLERVREAIDRNDLPAGLEYALADKMVKAELEGFAKAVSERFGERTFLPLAAKDTDG
KTFETVTAGMTVVQKAEVQSAWKSMRTVQQLGAHERTTEALKQAETLRQTKSQGLSLK

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-243)

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

(864-960)

AAA domain (AAA_30)

(387-570)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(697-741)


  Protein structure



No available structure.




T4CP

ID   5363 GenBank   WP_207603827
Name   traG_J2J98_RS27115_BLR175|p3 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: 69478.82 Da        Isoelectric Point: 9.1308

>WP_207603827.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Rhizobium]
MTINRIALVIVPAALMIPVVIGMTGIEQWLSGFGKTETARLAWGRAGIALPYLASAAVGILFLFATAGAI
NIKQAGWGVVAGCSGMILIAALRETIRLSAFMKTVPADKTVLAFLDPATSIGASAALLCACFALRVALIG
NAAFARAEPKRIQGKRALHGEADWMKLTEAAKLFPDTGGIVIGERYRVDRDSVGSQAFRADSAETWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGTLIVLDPSNEVAPMVSAHRGGAGRDVFVLD
PRKPDIGFNVLDWVGCFGGTKEEDIASVASWIMSDSGGARGVRDDFFRASALQLLTALIADVCLSGHTDE
KEQTLRQVRMNLSEPEPTLRKRLQDIYDNSGSDFVKENVAAFVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGKKFSTSQIAAGNTDVFINIDLKTLETHSGLARVIIGSFLNAIYNRDGQIKGRALFLLDEVARLGY
MRILETARDAGRKYGITLTMIYQSIGQMRETYGGRDAASKWFESASWISFAAINDPETADYISKRCGMTT
VEIDQVSRSFQAKGSSRTRSKQLAARPLIQPHEVLRMRADEQIVFTAGNAPLRCGRAIWFRRDDMKACVG
ANRFHMIGDAPRPA

  Protein domains


Predicted by InterproScan.

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

(163-634)

  Protein structure



No available structure.



ID   5364 GenBank   WP_207603842
Name   t4cp2_J2J98_RS27210_BLR175|p3 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: 91699.43 Da        Isoelectric Point: 5.5845

>WP_207603842.1 MULTISPECIES: conjugal transfer protein TrbE [Rhizobium]
MVALKRFRVTGPSFADLVPYAGLVDNGVLLLKDGSLMAGWYFAGPDSESAIDLERNELSRQINAVLSRLG
SGWMIQVEAIRIPTVDYPSEDRCHFPDPVTRAIDAERRAHFAREQGHFESKHALILTHRPLESKKTALSK
YIYSDEESRKKSYADTVLFVFKNAVRELEQYLANTLSIRRMETRETVERGGERIARYDELLQFARYCTTG
ESHPIRLPDVPMYLDWIATAELEHGLTPKVENLFLGVVAIDGLPAESWPGILNSLDLMPLTYRWSSRFIF
LDAEEARQKLERTRKKWQQKVRPFFDQIFQTQSRSVDQDAMTMVVETEDAIAQASSQLVAYGYYTPVVVL
FDSDREALQEKAEAIRRLIQAEGFGARIETLNATDAYLGSLPGNWYCNIREPLINTSNLADLIPLNSVWS
GNPVAPCPFYPPNSPPLMQVASGSTAFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYENAQIFA
FDKGSSLLPLTLAAGGDHYEIGGDNAEEGRALAFCPLSELKSDADRAWATEWVEMLVGLQGVTITPDHRN
AISRQIGLMASASGRSLSDFVSGVQLREIKDALHHYTVDGPMGQLLDAEEDGLTLGAFQTFEIEQLMNMG
ERSLVPVLTYLFRRIEKRLDGSPSLIVLDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSISDAER
SGIIDVLKESCPTKICLPNGAARETGTREFYERIGFNERQLEIVATAIPKREYYVATPEGRRLFDMSLGP
VALSFVGASGKEDLKRIRALKSEHGHEWPIHWLETRGVHDAASLLRFE

  Protein domains


Predicted by InterproScan.

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

(192-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 256229..270219

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
J2J98_RS27135 (J2J98_27135) 254523..255059 + 537 WP_246569464 conjugative transfer signal peptidase TraF -
J2J98_RS27140 (J2J98_27140) 255049..256212 + 1164 WP_207603832 conjugal transfer protein TraB -
J2J98_RS27145 (J2J98_27145) 256229..256837 + 609 WP_207603833 TraH family protein virB1
J2J98_RS27150 (J2J98_27150) 257063..257931 - 869 Protein_222 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
J2J98_RS27155 (J2J98_27155) 257924..258541 - 618 WP_127431473 type IV toxin-antitoxin system AbiEi family antitoxin domain-containing protein -
J2J98_RS30540 258588..258805 - 218 Protein_224 hypothetical protein -
J2J98_RS27160 (J2J98_27160) 258887..259129 - 243 WP_087002841 helix-turn-helix transcriptional regulator -
J2J98_RS27165 (J2J98_27165) 259354..259677 + 324 WP_207603834 transcriptional repressor TraM -
J2J98_RS27170 (J2J98_27170) 259681..260385 - 705 WP_207603835 autoinducer binding domain-containing protein -
J2J98_RS27175 (J2J98_27175) 260696..261994 - 1299 WP_207603836 IncP-type conjugal transfer protein TrbI virB10
J2J98_RS27180 (J2J98_27180) 262006..262446 - 441 WP_207603837 conjugal transfer protein TrbH -
J2J98_RS27185 (J2J98_27185) 262450..263262 - 813 WP_207603838 P-type conjugative transfer protein TrbG virB9
J2J98_RS27190 (J2J98_27190) 263280..263942 - 663 WP_207603839 conjugal transfer protein TrbF virB8
J2J98_RS27195 (J2J98_27195) 263963..265144 - 1182 WP_207603840 P-type conjugative transfer protein TrbL virB6
J2J98_RS27200 (J2J98_27200) 265138..265338 - 201 WP_207603981 entry exclusion protein TrbK -
J2J98_RS27205 (J2J98_27205) 265335..266138 - 804 WP_207603841 P-type conjugative transfer protein TrbJ virB5
J2J98_RS27210 (J2J98_27210) 266110..268566 - 2457 WP_207603842 conjugal transfer protein TrbE virb4
J2J98_RS27215 (J2J98_27215) 268577..268876 - 300 WP_207603843 conjugal transfer protein TrbD virB3
J2J98_RS27220 (J2J98_27220) 268869..269252 - 384 WP_207603844 TrbC/VirB2 family protein virB2
J2J98_RS27225 (J2J98_27225) 269242..270219 - 978 WP_207603845 P-type conjugative transfer ATPase TrbB virB11
J2J98_RS27230 (J2J98_27230) 270216..270854 - 639 WP_207603846 acyl-homoserine-lactone synthase -
J2J98_RS27235 (J2J98_27235) 271191..272453 + 1263 WP_207603982 plasmid partitioning protein RepA -
J2J98_RS27240 (J2J98_27240) 272450..273487 + 1038 WP_207603847 plasmid partitioning protein RepB -
J2J98_RS27245 (J2J98_27245) 273679..274893 + 1215 WP_207603848 plasmid replication protein RepC -

Host bacterium

ID   8068 GenBank   NZ_CP071615
Plasmid name   BLR175|p3 Incompatibility group   -
Plasmid size   369739 bp Coordinate of oriT [Strand]   251060..251093 [+]
Host baterium   Rhizobium bangladeshense strain BLR175

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   nifN, nifE, nifK, nifD, nifH, fixA, fixB, fixC, fixX, nifB, nodJ, nodI, nodC, nodA, nodD, nodF, nodE, nodM, fixO, fixN
Anti-CRISPR   -