Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107661
Name   oriT_BLR195|p4 in_silico
Organism   Rhizobium binae strain BLR195
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP071608 (290774..290804 [+], 31 nt)
oriT length   31 nt
IRs (inverted repeats)      16..21, 26..31  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 31 nt

>oriT_BLR195|p4
AAGGGCGCAATTATACGTCGCTGGCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5150 GenBank   WP_168301545
Name   traA_J2J99_RS30535_BLR195|p4 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: 123005.07 Da        Isoelectric Point: 9.7195

>WP_168301545.1 Ti-type conjugative transfer relaxase TraA [Rhizobium binae]
MAVPHFSVSVVARGSGRSAVLSAAYRHCAKMEYEREARVIDYTRKQGLLHEEFVIPADAPQWLRAMIADG
SVAGASEAFWNKVEGFEKRSDAQLAKDVTIALPLELTAAQNIALMRDFVERHITAKGMVADWVYHDAPGN
PHVHLMTTLRPLTEDGFGSKKVAVTGPDGKPIRNDAGKIVYELWAGSTEDFNAFRGGWFACQNTHLALAG
LDIRIDGRSFEKQGIDLEPTIHLGVGAKAIERKAEQSDHKSETSTPKLERIELQEERRSENARRIQRRPE
IVLDLITREKSVFDERDVAKVLYRYIDDVALFQSLMVRILQSPEALRLEREQINFATGIREPAKYTTREM
IRLEAEMTNRAIWLAGRASHGVREAVRQATFARHSRLSDEQRTAIEHVVGGERIAAVIGRAGAGKTTMMK
AARKAWETAGYRVVGGALAGKAAEGLEKEAGIVSRTLSSWELRWNQGRNLIDDNTVFVLDEAGMVSSRQM
ALLVEAVTKAGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAELETIYRQRQQWMRDASLDLARGNVRKA
VDAYTAHGRMIGLRLKDEAVESLIAAWDRDYDPSKTSLILAHLRRDVRKLNDMARAKLVERGIVADGFAF
KTEDGNRMFATGDQIVFLKNEGSLGVKNGMLAKVLEAAPGRIIAEVGEGEYRRQVTVEQRFYSNLDHGYA
TTIHKSQGATVDRVKVLASLSLDKHLIYVAMTRHREDLAVYYGRRSFAKSGGLVPILSRQNAKETTLDYE
KGSFYGQALRFAEARGLHLVNVARTIAHDRLQWAVRQKQKLSDLRARLVAIGATLGLVRSSNEQSIPDTI
KEAKPMVSGITTFPKSFDQAVEDKLAADPGLKKQWEDVSTRFQLVYAQPEAAFKAIDVNTMVKDQSVAQS
TLARIAGEPESIGALKGKTGLLASRADKQDRERASANVPALGRNLERYLRERTEAELKHETEERAVRLKV
SVDVPALSPSAKQTLERVRDAIDRNDLSASLEYVLADKMVKAELEGFAKAVSERFGERTFLPLAAKDTDG
KTFETVTAGMTAGQKAEVRNAWDAMRAVQQLAAHERTTEALKQAETLRQTRSQGLSLK

  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   5389 GenBank   WP_207601003
Name   traG_J2J99_RS30520_BLR195|p4 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: 69361.58 Da        Isoelectric Point: 9.3663

>WP_207601003.1 Ti-type conjugative transfer system protein TraG [Rhizobium binae]
MTINRFALVVVPGTLMILVVIGMTGIEQWLSGFGKTEAARLAWGRAGIALPYVAGATIGVLLLFSSAGSI
SIKQAGWGVVAGSSGTILVAAVRETMRLPAFMKSVPADKTVLVFLDPATSIGASAALLCAGFALRVALIG
NAAFARAEPKRIQGKRALHGEADWMKLTEAAKLFPDAGGIVIGECYRVDKDSVGSQAFRADSAETWGVGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGTLIVLDPSNEVAPMVSVHRGGAGRDVFVLD
PRKPDIGFNVLDWVGRFGGTKEEDIASVASWIMSDGGGVRGVRDDFFRASALQLLTALIADVCLSGRTDE
HDQTLRQVRMNLSEPEPTLRKRLQDIYDNSGSDFVKENVAAFVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGKKFATNDIAAGNTDVFINIDLKTLETHSGLARVIIGSFLNAIYNRDGQIKGRALFLLDEVARLGY
MRIIETARDAGRKYGITLTMIYQSIGQMRETYGGRDAASKWFESASWISFAAINDPETADYISRRCGMTT
VEIDQVSRSFQAKGSSRTRSKQLAARPLIQPHEVLRIRADEQIVFTAGNAPLRCGRAIWFRRGDMKACVG
TNRFHMIGDTPKTA

  Protein domains


Predicted by InterproScan.

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

(163-634)

  Protein structure



No available structure.



ID   5390 GenBank   WP_168301554
Name   t4cp2_J2J99_RS30615_BLR195|p4 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: 91855.61 Da        Isoelectric Point: 5.6143

>WP_168301554.1 conjugal transfer protein TrbE [Rhizobium binae]
MVALNRFRVTGPSFADLVPYAGLVDNGVLLLKDGSLMAGWYFAGPDSESATDLERNELSRQINAVLSRLG
SGWMIQVEAIRVPTVEYPSEDRCHFPDPVTRAIDAERRAHFEREQGHFESKHALVLTYRPLESRKTALSK
YIYSDEESRKKSYADTVLFVFKNAVRELEQYFANTISIRRMETRETVDRGGERIARYDELLQFARFCITG
ESHPIRLPDIPMYLDWIATAELEHGLTPKVENRFLGVVAIDGLPAESWPGILNSLDLLPLSYRWSSRFIF
LDAEEARQKLERTRKKWQQKVRPFFDQIFQTQSRSVDQDAMTMVAETEDAIAQASSQLVAYGYYTPVVVL
FDNDREALQEKAEAIRRLIQAEGFGARIETLNATDAYLGSLPGNWYCNIREPLINTSNLADLIPLNSVWA
GNPVAPCPFYPPNSPPLMQVATGSTAFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYENAQIFA
FDKGSSLLPLTLAAGGDHYEIGGDNAEEGRALAFCPLSDLKSDADRAWATEWIEMLVGLQGVTITPDHRN
AISRQIGLMASASGRSLSDFVSGVQLREIKDALHHYTVDGPMGQLLDAEEDGLTLGAFQTFEIEQLMNMG
ERNLVPVLTYLFRRIEKRLDGSPSLIVLDEAWLMLGHPVFRSKIREWLKVLRKANCAVVLATQSISDAER
SGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVSTAIPKREYYVATPEGRRLFNMSLGP
IALSFVGASGKEDLKRIRALKSEHGRDWPIRWLETRGVHDAALLLKFE

  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: 300413..309917

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
J2J99_RS30550 (J2J99_30550) 295943..296550 + 608 Protein_271 TraH family protein -
J2J99_RS30555 (J2J99_30555) 296777..297646 - 870 WP_127431472 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
J2J99_RS30560 (J2J99_30560) 297639..298256 - 618 WP_127431473 type IV toxin-antitoxin system AbiEi family antitoxin domain-containing protein -
J2J99_RS30565 (J2J99_30565) 298603..298845 - 243 WP_127431474 helix-turn-helix transcriptional regulator -
J2J99_RS30570 (J2J99_30570) 299069..299392 + 324 WP_246763174 transcriptional repressor TraM -
J2J99_RS30575 (J2J99_30575) 299396..300100 - 705 WP_127431476 autoinducer binding domain-containing protein -
J2J99_RS30580 (J2J99_30580) 300413..301708 - 1296 WP_168301548 IncP-type conjugal transfer protein TrbI virB10
J2J99_RS30585 (J2J99_30585) 301720..302160 - 441 WP_168301549 conjugal transfer protein TrbH -
J2J99_RS30590 (J2J99_30590) 302164..302976 - 813 WP_168301550 P-type conjugative transfer protein TrbG virB9
J2J99_RS30595 (J2J99_30595) 302988..303650 - 663 WP_168301551 conjugal transfer protein TrbF virB8
J2J99_RS30600 (J2J99_30600) 303671..304819 - 1149 WP_246638714 P-type conjugative transfer protein TrbL virB6
J2J99_RS30605 (J2J99_30605) 304863..305039 - 177 WP_168301553 entry exclusion protein TrbK -
J2J99_RS30610 (J2J99_30610) 305033..305836 - 804 WP_168301573 P-type conjugative transfer protein TrbJ virB5
J2J99_RS30615 (J2J99_30615) 305808..308264 - 2457 WP_168301554 conjugal transfer protein TrbE virb4
J2J99_RS30620 (J2J99_30620) 308275..308574 - 300 WP_168301555 conjugal transfer protein TrbD virB3
J2J99_RS30625 (J2J99_30625) 308567..308950 - 384 WP_168301556 TrbC/VirB2 family protein virB2
J2J99_RS30630 (J2J99_30630) 308940..309917 - 978 WP_168301557 P-type conjugative transfer ATPase TrbB virB11
J2J99_RS30635 (J2J99_30635) 309914..310552 - 639 WP_168301558 acyl-homoserine-lactone synthase -
J2J99_RS30640 (J2J99_30640) 310757..311194 + 438 WP_168301559 hypothetical protein -
J2J99_RS30645 (J2J99_30645) 311191..311379 + 189 WP_168301560 IS66 family insertion sequence element accessory protein TnpB -

Host bacterium

ID   8096 GenBank   NZ_CP071608
Plasmid name   BLR195|p4 Incompatibility group   -
Plasmid size   312143 bp Coordinate of oriT [Strand]   290774..290804 [+]
Host baterium   Rhizobium binae strain BLR195

Cargo genes

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