Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107601
Name   oriT_pRLN1 in_silico
Organism   Rhizobium leguminosarum strain Norway
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP025013 (702400..702428 [+], 29 nt)
oriT length   29 nt
IRs (inverted repeats)      14..19, 24..29  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 29 nt

>oriT_pRLN1
AGGGCGCAATATACGTCGCTGTCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5110 GenBank   WP_105008846
Name   traA_CUJ84_RS27785_pRLN1 insolico UniProt ID   _
Length   1543 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1543 a.a.        Molecular weight: 170626.73 Da        Isoelectric Point: 7.0475

>WP_105008846.1 Ti-type conjugative transfer relaxase TraA [Rhizobium leguminosarum]
MAIMFVRAQVISRGAGRSIVSAAAYRHRTRMMDEQAGTSFSYRGGASELVHEELALPDQMPTWLRTAIDG
RSVAGASEALWNAVDAFEKRADAQLARELIIALPEELTRAENIALVREFVRDNLTSNGMVADWVYHDRDG
NPHIHLMTTLRPLTEEGFGQKKVAVTGDDGAPLRVVTPDRPKGRIVYRLWAGDKETMKAWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQTHLGPEKAALVRKGRELHFAPADLARRQHMADLLLADPALLLKQ
LSNERSTFDERDIAKALHRYVDDPAVFANIRARLMASDELVMLKPQQIDAETGKASEPAVFTTRAILRIE
YDMAHSAQLLAERRGFAVSDRVVAAAIRNVEARDPEKPFKLDPEQVDAVRHVTGDNGIAAVVGLAGAGKS
TLLAAARVAWESDGRRVIGAALAGKAAEGLEDSSGIRSRTLASWELAWANGRELLERGNVLVIDEAGMVS
SQQLARVLKIAEQAQAKVVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQHQQWAREASRLFARGE
VEQGLDVYARHGHLVEAGTRAETIDRIVADWSQARKLAIETSVREGNDGRLRGDELLVLAHTNQDVKRLN
EALRSVMTGEGALSETRAFQTERGAREFAVGDRIIFLENARFLEPRAPRLGPQHVKNGMLGTVVSTGDKR
GDTLLSVRLDNGRDVVISEDSYRNVDHGYAATIHKSQGATVERTFVLATGMMDQHLTYVSMTRHRDRADL
YAAKEDFEAKPEWGRKPHVDHAAGVTGALVETGEAKFRPNDEDADDSPYADVGTDDGTIHRLWGVSLPKA
LEDAGVSEGDTVTLRKDGVERVTIKVATVDEQTGQKRFEERDVERNVWTAKQIETAEERQERIEQESHRP
DLFRQLVERLSRSGAKTTTLDFESEAGYRAHADDFARRRGLDHLSLATAGVEGSLSRRWAGIAERREQLA
KLWERAGVAFGFTIERERQVAYSEERAETQTVLDADVVRGRYLIPPVTVFARSVEEDARLAQLASPAWKE
REAILRPLLETIYRDPDAALVALNALSSDTSIEPRRLADDLAKAPERLGRLRGSDLIVDGRAARDERNAA
ITALTDLLPLARAHATEFRRNSERFDLGEQQRRTHMSLPIPALSEKAIARLTEIEAVRRQGGDDAYKTAF
AIATEDRSLVQEVKAVSEALTARFGWSAFTSKADAVAERNMIERMPEDLASIRGEKLTRLFEAVKRFADE
QHLVERRDRSKIVAAASADQGMEADKESAAVLPMLAAVTEFKTPVDEEARSRVLSDPLYRQQRAALATVA
STIWRDPAGAVGKIEKLLQKSFAGERIATAVTNDPAAYGALRGSDRLMDRLLASGRERRGAVQAVPEAGA
RLRALGSAYVNVLAAERQAVVEERRRMAVAIPGLSKAAEDVLIRLTVEVKNNGRKLSASAASLDHSIRRE
FAAVSTALDERFGRNAVIRGEKDLINRIPPAQRRAFEAMQERLKVLQQTVRMESSEKIISERRQRTTNRS
IDL

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-249)

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

(1312-1405)

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

(1045-1127)

AAA domain (AAA_30)

(391-577)


  Protein structure



No available structure.




T4CP

ID   5334 GenBank   WP_105008843
Name   traG_CUJ84_RS27770_pRLN1 insolico UniProt ID   _
Length   637 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 637 a.a.        Molecular weight: 70419.20 Da        Isoelectric Point: 9.2560

>WP_105008843.1 Ti-type conjugative transfer system protein TraG [Rhizobium leguminosarum]
MALKSRSHPSLLLVFVPITVTAITVYITGWRWTALAHGLSGKTEYWFLRAAPVPALLFGPLAGLLTVWAL
PLHRRRPIAIASLLCFLVVAGFYALREYGRLVPSVERGVVTWNQALSYLDLIAVIGALAGFMGVAVAARI
SVVVPEAVKRARGGTFGDADWLSMAAAAKLFPPDGEIVVGERYRVDKETVHQLPFDPKDRSTWGQGGQAP
LLTYSQDFDSTHMLFFAGSGGYKTTSNVLPTALRYTGPLICLDPSTEVAPMVVEHRTRILGREVMVLDPT
NPIMGFNVLDGIEHSKRKEEDIVGIAHMLLSESLRFESSTGSYFQNQAHNLLTGLLAHVMLSPEYAGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSETVFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFRSSDIVTAKTDVFLNIPASILRSYPGIGRVIIGSLINAMVQADGGFSRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLLYQSVGQLERHFGKDGATSWIDGCAFASYAAIKALDTARNVSSQCGEMTVEVQG
RSRNIGWDTKGGGTRKSESVNFQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKEMDAQAK
ANRFVRT

  Protein domains


Predicted by InterproScan.

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

(165-634)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 399854..409459

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CUJ84_RS26145 (CUJ84_pRLN1000386) 395936..396934 + 999 WP_105008599 ABC transporter substrate-binding protein -
CUJ84_RS26150 (CUJ84_pRLN1000387) 396942..398693 + 1752 WP_105008600 adenylate/guanylate cyclase domain-containing protein -
CUJ84_RS26155 (CUJ84_pRLN1000388) 398866..399219 - 354 WP_105008601 MarR family transcriptional regulator -
CUJ84_RS26160 (CUJ84_pRLN1000389) 399311..399850 + 540 WP_105008602 hypothetical protein -
CUJ84_RS26165 (CUJ84_pRLN1000390) 399854..400516 + 663 WP_105008603 lytic transglycosylase domain-containing protein virB1
CUJ84_RS26170 (CUJ84_pRLN1000391) 400513..400812 + 300 WP_105008604 TrbC/VirB2 family protein virB2
CUJ84_RS26175 (CUJ84_pRLN1000392) 400818..401156 + 339 WP_105008605 type IV secretion system protein VirB3 virB3
CUJ84_RS26180 (CUJ84_pRLN1000393) 401149..403515 + 2367 WP_105008606 VirB4 family type IV secretion system protein virb4
CUJ84_RS26185 (CUJ84_pRLN1000394) 403551..404213 + 663 WP_245457601 P-type DNA transfer protein VirB5 virB5
CUJ84_RS26190 (CUJ84_pRLN1000395) 404210..404443 + 234 WP_105008608 EexN family lipoprotein -
CUJ84_RS26195 (CUJ84_pRLN1000396) 404447..405367 + 921 WP_105008609 type IV secretion system protein virB6
CUJ84_RS26200 (CUJ84_pRLN1000397) 405420..405701 + 282 WP_105008610 hypothetical protein -
CUJ84_RS26205 (CUJ84_pRLN1000398) 405703..406374 + 672 WP_105008611 virB8 family protein virB8
CUJ84_RS26210 (CUJ84_pRLN1000399) 406371..407228 + 858 WP_105008612 P-type conjugative transfer protein VirB9 virB9
CUJ84_RS26215 (CUJ84_pRLN1000400) 407238..408410 + 1173 WP_105008613 type IV secretion system protein VirB10 virB10
CUJ84_RS26220 (CUJ84_pRLN1000401) 408419..409459 + 1041 WP_105008614 P-type DNA transfer ATPase VirB11 virB11
CUJ84_RS26230 (CUJ84_pRLN1000403) 409647..410678 - 1032 WP_105008616 hypothetical protein -
CUJ84_RS26235 (CUJ84_pRLN1000404) 410668..412332 - 1665 WP_105008617 N-6 DNA methylase -
CUJ84_RS26240 (CUJ84_pRLN1000405) 412618..413148 + 531 Protein_382 ATPase, T2SS/T4P/T4SS family -
CUJ84_RS26245 (CUJ84_pRLN1000406) 413290..414216 - 927 WP_105008618 nucleotidyltransferase and HEPN domain-containing protein -

Host bacterium

ID   8036 GenBank   NZ_CP025013
Plasmid name   pRLN1 Incompatibility group   -
Plasmid size   1098158 bp Coordinate of oriT [Strand]   702400..702428 [+]
Host baterium   Rhizobium leguminosarum strain Norway

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   bphC
Symbiosis gene   fixA, fixB
Anti-CRISPR   AcrIIA7, AcrIIA9