Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118241
Name   oriT_pBb144S4b in_silico
Organism   Bradyrhizobium barranii subsp. barranii strain 144S4
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP086138 (117111..117148 [+], 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_pBb144S4b
TCCAAGGGCGCAGTAATACGTCGCTGACGCGACGTCCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11592 GenBank   WP_208089640
Name   traA_J4G43_RS53845_pBb144S4b 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: 122897.28 Da        Isoelectric Point: 10.3399

>WP_208089640.1 Ti-type conjugative transfer relaxase TraA [Bradyrhizobium barranii]
MAITHFTPQLIGRGDGRSAVLAAAYRHCAKMEFEAEGRTVDYSNKRGMIHEEFLVPADAPAWLRTMIADR
SVAGASEAFWNKVEAFEKRADAQFAKEFIIALPVELTSEQNIALMRQFVVEQVLSRGQVADWVNHDEPGN
PHVHMMTTLRPLTEDGFGPKRVAVIGEDGQPLRMKSGKIAYRLWAGDKQEFLEQRNGWLDLQNQHLALNG
HEIRVDGRSYAERGIDVVPTTHIGVAAKAIQRRAEREGRDPNLERLRVFNENRAETLRRIQRRPEIVLDM
ISREKSVFDERDVGKLLHRYVDDAATFQHLMARVLQSPDVLQLEGEQVDFATGARAPAKYTTRELIRLEA
EMVRRAVHLSGSGAFPVKPSVLAAMSARHANLSAEQRAAIAHLASGIRIAAVVGRAGAGKTTMMRAAREV
WEAAGYRVVGGALAGKAAEGLEKEAGIQSRTLASWELRWKSGRDGLDDRTVFVLDEAGMVASRQMALFVE
TASKAGAKLVLVGDPEQLQPIEAGAAFRAIVERIGYAELETIYRQRQQWMRDASLDLARGRTAQALSAYR
QQGRVFGSELKAQAIDNLIADWNRDYDPSKSTLILGHLRRDIRALNEMARAKLVERGLLEQGHAFRTEDG
ERRFAPGDQIVFLKNEGSLGVKNGMIGKVVEAGTARLVAEIGEGECRCRVEVDQRFYRNIDHGYATTVHK
AQGATVDRVKVLATLSLDKHLAYVALTRHREDVALYYGRRSFQKAGGLIPILSQRRAKETTLDYERGALY
RAALRFAANRGLHVVRVARTLVNDRLRWTVRQKQRLAEVARRLRALAEKLGLVDGRKPIISTAHKEAKPM
VAGVTTFPKSLIDTVEDRILADPAIKKQWEDVSIRFRLVFADPERAFRATNFDAMLKDPAAASSTIARLA
SSPESFGALRGKVGMLAGKSDKQVRQRAEANAPALKRDIERYLRLRAEAEHKHEAEERAIRHRVAIDIPA
LSREARRVLERVRDAIDRNDLPSALEFALADRMVKAEIDGFNKAVAERFGDRTFLSNAAREPNGQPFEKA
AAGMDPARREQLKEAWPAMRAAQQLAAGERTAQALKQAEGQRLTQSQGQTLK

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(382-565)

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

(858-954)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(694-735)

MobA/MobL family (MobA_MobL)

(17-243)


  Protein structure



No available structure.




T4CP

ID   13568 GenBank   WP_208089668
Name   t4cp2_J4G43_RS53595_pBb144S4b 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: 91320.88 Da        Isoelectric Point: 5.8400

>WP_208089668.1 conjugal transfer protein TrbE [Bradyrhizobium barranii]
MVALRTFRHSGPSFADLVPYAGLVANGIVLLKDGSLMAGWYFAGPDSESSTDAERNGVSRQINTILARLG
SGWMIQVEAVRVPTTDYPVRQDCYFPDPVTRAIDDERRSRFEQERGHFESRHAIILSWRPPERRRAGLAR
YIYSDAESRSASYADTAIESFRTSVREVEQYLASVLSIRRIETREVEERDGTRMARYDELFQFIRFCITG
ENHPIRLPDIPMYLDWLATAELQHGLSPMVENRFLGVVAIDGFPAESWPGILNSLDLMPLTYRWSSRFMF
LDDQDARQKLERTRKKWQQKVRPFIDQLFQTQSRSIDQDAAAMVAETEDAIAQASSQLVAYGYYTPVIVL
FDESSARLQEKAEAVRRLIQAEGFGARIETLNATEAFLGSLPGNWYANIREPLINTRNLADLIPLNSVWS
GNPTAPCPFYPPSSPPLMQVASGSTPFRLNLHVDDVGHTLVFGPTGSGKSTLLALIAAQFRRYAGAQIFA
FDKGRSMLPLTLAAGGDHYEIGGDDADGAAALAFCPLSDLSTDNDRAWAAEWVETLVAVQGVLITPDHRN
AISRQIGLMAEARGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAERDGLQLGSFQTFEIEQLMNMG
ERNLVPVLTYLFRRIEKRLTGSPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVLLATQSISDAER
SGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVAAASPKREYYVASPEGRRLFNMALGP
VALSFVGASGKEDLKRILALKAAEANWPVHWLKERGIGHAETLLADL

  Protein domains


Predicted by InterproScan.

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

(189-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 66341..74932

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
J4G43_RS53535 (J4G43_053700) 62050..62292 + 243 WP_166354357 hypothetical protein -
J4G43_RS53540 (J4G43_053705) 62279..63163 - 885 Protein_67 IS630-like element ISRj1 family transposase -
J4G43_RS53550 (J4G43_053715) 64652..65254 + 603 WP_028152988 hypothetical protein -
J4G43_RS53555 (J4G43_053720) 65380..65664 + 285 WP_155258061 hypothetical protein -
J4G43_RS53560 (J4G43_053725) 66341..67642 - 1302 WP_208089664 IncP-type conjugal transfer protein TrbI virB10
J4G43_RS53565 (J4G43_053730) 67654..68106 - 453 WP_028152991 conjugal transfer protein TrbH -
J4G43_RS53570 (J4G43_053735) 68109..68948 - 840 WP_208089665 P-type conjugative transfer protein TrbG virB9
J4G43_RS53575 (J4G43_053740) 68966..69628 - 663 WP_028152993 conjugal transfer protein TrbF virB8
J4G43_RS53580 (J4G43_053745) 69672..70829 - 1158 WP_208089666 P-type conjugative transfer protein TrbL virB6
J4G43_RS53585 (J4G43_053750) 70846..71031 - 186 WP_208089667 DUF2749 domain-containing protein -
J4G43_RS53590 (J4G43_053755) 71028..71825 - 798 WP_028152995 P-type conjugative transfer protein TrbJ virB5
J4G43_RS53595 (J4G43_053760) 71797..74250 - 2454 WP_208089668 conjugal transfer protein TrbE virb4
J4G43_RS53600 (J4G43_053765) 74260..74559 - 300 WP_028152997 conjugal transfer protein TrbD virB3
J4G43_RS53605 (J4G43_053770) 74552..74932 - 381 WP_028152998 TrbC/VirB2 family protein virB2
J4G43_RS53610 (J4G43_053775) 74922..75894 - 973 Protein_81 P-type conjugative transfer ATPase TrbB -
J4G43_RS53615 (J4G43_053780) 75900..76526 - 627 WP_208089669 acyl-homoserine-lactone synthase TraI -
J4G43_RS53620 (J4G43_053785) 76930..78153 + 1224 WP_028180949 plasmid partitioning protein RepA -
J4G43_RS53625 (J4G43_053790) 78138..79199 + 1062 WP_208089670 plasmid partitioning protein RepB -

Host bacterium

ID   18674 GenBank   NZ_CP086138
Plasmid name   pBb144S4b Incompatibility group   -
Plasmid size   248585 bp Coordinate of oriT [Strand]   117111..117148 [+]
Host baterium   Bradyrhizobium barranii subsp. barranii strain 144S4

Cargo genes

Drug resistance gene   -
Virulence gene   wzt
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrID1