Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107349
Name   oriT_ISRA436|unnamed in_silico
Organism   Bradyrhizobium sp. ISRA436
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP094520 (84507..84544 [-], 38 nt)
oriT length   38 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: 38 nt

>oriT_ISRA436|unnamed
TCCAAGGGCGCAGTAATACGTCGCTGACGCGACGTCCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4900 GenBank   WP_280978580
Name   traA_MTX23_RS35295_ISRA436|unnamed insolico UniProt ID   _
Length   1102 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1102 a.a.        Molecular weight: 123258.33 Da        Isoelectric Point: 10.3384

>WP_280978580.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [unclassified Bradyrhizobium]
MAITHFTPQLIGRGDGRSAVLAAAYRHCAKMEFEAEGRTVDYSGKRGMIHEEFQVPADAPAWLRSMIADR
SVAGASEAFWNRVEAFEKRADAQFAKEFIIALPVEQTTEQNIALMRQFVVEQVLSRGQVADWVYHDEPGN
PHVHLMTTLRPLTENGFGPKRVAVIGEDGQPTRMKSGKIAYRLWAGDKQEFLEQRNGWLDLQNQHLAMNG
HEIRVDGRSYVERGIDVVPTTHIGVAAKAIQRRAEREGRDPDLERLRVFDENRAETLRRIQRRPEIVLDM
ISREKSIFDERDVGKLLHRYVDDAGTFHHLMARVLQSPDALRLEGESVDFATAARAPAKYTTRELIRLEA
DMARRAIHLSGSTAFAIKTPVIAAVSARHANLSAEQRSAIEHFASGTRITAVVGRAGAGKTTMMRAAREV
WEAAGYRVVGGALAGKAAEGLEKEAGIQSRTLASWELRWKSGRDGLNDRTVFVLDEAGMVASRQMALFVE
TASKAGAKLVLVGDPEQLQPIEAGAAFRAIVERIGYAELETIYRQRQQWMRDASLDLARGRTARALSAYR
HHGRLFGSELKAQAIDNLIADWNRDYDPSKSTLILAHLRRDVRALNEMARGKLVERGLVGEGYVFRTEDG
ERRFAAGDQIVFLKNEGSLGVKNGMIGKVVEAAPAFLVAEIGEGDGRRRVEVDQRFYRNIDHGYATTVHK
AQGATVDRVKVLATLSLDKHLTYVALTRHREDVALYYGRRSFQKAGGVIPILSQRRAKETTLDYERGSLY
RDALRFAANRGLHIVNVARTLMRDRLRWTVRQKLRLPEFGRRLRALGEKLGLIDSRKPIMNTAHKEEKPM
VAGVTTFPKSLIDTVEDSILADPAIKKQWEQVSTRFRLVFAAPERAFRATNFDAVLKDSTAATSTLARLA
SNPESFGALRGKTGLLAGKADKQERQRAEANVPALKRDIERYLRLRAEAEHKHEAEERAIRQRVAIDIPA
LSRDARRVLERVRDAIDRNDLPSALEFALADRMVKAEIDGFNKAIAERFGDRTFLPNAAREANGPAFEKA
AAGMDPARRDQLKEAWPAMRAAQQLAAQERSAQALKQAEAQRLTQSQGQTLK

  Protein domains


Predicted by InterproScan.

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

(859-954)

AAA domain (AAA_30)

(382-565)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(694-735)

MobA/MobL family (MobA_MobL)

(17-243)


  Protein structure



No available structure.




T4CP

ID   5103 GenBank   WP_280978577
Name   traG_MTX23_RS35310_ISRA436|unnamed insolico UniProt ID   _
Length   646 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 646 a.a.        Molecular weight: 70108.01 Da        Isoelectric Point: 9.4757

>WP_280978577.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [unclassified Bradyrhizobium]
MKANKVALAIAPGVLMAGLCLALTGIEAWLSKFGTTPKAHLVLGRIGIALPYVMAAATGVIFLFAAAGAT
AIRYAGWSVVFGGLLMVAIAASREIARLHSFANAVPAGKELLAYTDPSTVIGATIAALTAVFGFRVAMRG
NAAFAAAEPRRIRGQRAIHGESNWMAITEAARLFPEPGGIVVGERYRVDRDAVADQSFRADDPETWGAGG
KSPLLCFDASFGSSHGIVFAGSGGFKTTSVTVPTALKWGGGLVVLDPSNEVAPMVTTHRHGAGRQVFVLD
PRSSEIGFNILDWIGEHGATKEEDIAAVASWIMTDNPRQGSARDDFFRASALQLLTALIADVCLSGHTEK
KDQHLRQVRANLSEPEPKLRQRLQTIYDNSESGFVKENVAPFIAMTPETFSGVYANAVKETHWLSYANYA
ALVSGSSFTTAELAEGRTDVFINLDLKTLENHAGLARVIIGSLLNAIYNRNGEANGRTLFLLDEVARLGY
LRILETARDAGRKYGITLLMLYQSIGQMREAYGGRDATSKWFESASWISFSAINDPETADYISKRCGDTT
VEVDQLSRSSQMSGSSRTRSKQLARRPLMLPHEVLRMRTDEQIIFTAGNPPLRCGRAIWFRRADMRTCVG
ENRFHRREAGGRSRRS

  Protein domains


Predicted by InterproScan.

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

(163-636)

  Protein structure



No available structure.



ID   5104 GenBank   WP_280978493
Name   t4cp2_MTX23_RS35820_ISRA436|unnamed insolico UniProt ID   _
Length   817 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 817 a.a.        Molecular weight: 91343.09 Da        Isoelectric Point: 6.3242

>WP_280978493.1 MULTISPECIES: conjugal transfer protein TrbE [unclassified Bradyrhizobium]
MVALRSFRHSGPSFADLVPYAGLVANGIVLLKDGSLMAGWYFAGPDSESSTDAERNEVSRQINTILARLG
SGWMIQVEAVRVPTTDYPARRDCHFPDPVTRAIDDERRGRFEQERGHFESRHAIILTWRPPERRRAGLAR
YIYSDVESRSASYADTAIESFRTSIREVEQYLASVLTIRRMETREIEERDGTRMARYDELFQFIRFCITG
ENHPIRLPDIPMYLDWLATAELQHGLSPTVENRFLGVVAIDGFPAESWPGILNSLDLMPLTYRWSSRFIF
LDDQDARQKLERTRKKWQQKVRPFIDQLFQTQSRSIDHDAAAMVAEAEDAIAEASSQLAAYGYYTPVLVL
FDESSARLQEKAEAVRRLIQAEGFGARIETLNATEAFLGSLPGNWYANIREPLISTRNLADLIPLNSVWS
GNPIAPCPFYPPSSPPLMQVASGSTPFRLNLHVDDVGHTLVFGPTGSGKSTLLALIAAQFRRYAGAQIFA
FDKGRSMLPLTLAAGGDHYEIGGDDAGGAAALAFCPLSDLLTDTDRAWAAEWIETLVAVQGVVITPDHRN
AISRQVGLMAEARGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAERDGLQLGSFQTFEIEQLMNMG
ERNLVPVLTYLFRRIEKRLSGAPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVLLATQSISDAER
SGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVATAVPKREYYVASPEGRRLFNMALGP
VALSFVGASGKEDLKRILALKKGKANWPVHWLKERGIGHAETLLADF

  Protein domains


Predicted by InterproScan.

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

(191-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 189740..199311

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MTX23_RS35785 (MTX23_35695) 185262..186296 - 1035 WP_280978499 plasmid partitioning protein RepB -
MTX23_RS35790 (MTX23_35700) 186293..187507 - 1215 WP_280978498 plasmid partitioning protein RepA -
MTX23_RS35795 (MTX23_35705) 188111..188542 + 432 WP_280978497 hypothetical protein -
MTX23_RS35800 (MTX23_35710) 189099..189722 + 624 WP_280978496 acyl-homoserine-lactone synthase TraI -
MTX23_RS35805 (MTX23_35715) 189740..190708 + 969 WP_280978495 P-type conjugative transfer ATPase TrbB virB11
MTX23_RS35810 (MTX23_35720) 190698..191078 + 381 WP_280978494 TrbC/VirB2 family protein virB2
MTX23_RS35815 (MTX23_35725) 191071..191370 + 300 WP_027584282 conjugal transfer protein TrbD virB3
MTX23_RS35820 (MTX23_35730) 191380..193833 + 2454 WP_280978493 conjugal transfer protein TrbE virb4
MTX23_RS35825 (MTX23_35735) 193805..194611 + 807 WP_280978492 P-type conjugative transfer protein TrbJ virB5
MTX23_RS35830 (MTX23_35740) 194608..194796 + 189 WP_280978491 entry exclusion protein TrbK -
MTX23_RS35835 (MTX23_35745) 194814..195974 + 1161 WP_280990759 P-type conjugative transfer protein TrbL virB6
MTX23_RS35840 (MTX23_35750) 196018..196680 + 663 WP_280978490 conjugal transfer protein TrbF virB8
MTX23_RS35845 (MTX23_35755) 196698..197537 + 840 WP_280978489 P-type conjugative transfer protein TrbG virB9
MTX23_RS35850 (MTX23_35760) 197540..197992 + 453 WP_280978488 conjugal transfer protein TrbH -
MTX23_RS35855 (MTX23_35765) 198004..199311 + 1308 WP_280978487 IncP-type conjugal transfer protein TrbI virB10
MTX23_RS35860 (MTX23_35770) 200361..200627 - 267 WP_280978486 hypothetical protein -
MTX23_RS35865 (MTX23_35775) 201104..202009 + 906 WP_280978485 LysR family transcriptional regulator -
MTX23_RS35870 (MTX23_35780) 202091..203863 - 1773 WP_280978484 GMC family oxidoreductase N-terminal domain-containing protein -

Host bacterium

ID   7785 GenBank   NZ_CP094520
Plasmid name   ISRA436|unnamed Incompatibility group   -
Plasmid size   316663 bp Coordinate of oriT [Strand]   84507..84544 [-]
Host baterium   Bradyrhizobium sp. ISRA436

Cargo genes

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