Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102578
Name   oriT_pSM145A_Rh01 in_silico
Organism   Rhizobium leguminosarum strain SM145A
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_SIPC01000002 (22043..22071 [+], 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_pSM145A_Rh01
AGGGCGCAATATACGTCGCTGTGGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1926 GenBank   WP_130728564
Name   traA_ELI03_RS23880_pSM145A_Rh01 insolico UniProt ID   _
Length   1545 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1545 a.a.        Molecular weight: 170930.85 Da        Isoelectric Point: 7.1451

>WP_130728564.1 Ti-type conjugative transfer relaxase TraA [Rhizobium leguminosarum]
MAIMFVRAQVISRGAGRSIVSAAAYRHRARMMDEQAGTSFSYRGGASELVHEELSLPDQLPAWLRSAIEG
RSVAGASEALWNAVDAFEKRADAQLARELIIAVPEELTRGENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHVMTTLRPMTQEGFGPKKVAVTGEDGNSLRVVTPDRPNGKIVYKLWAGDKETMKVWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQRHLGPEKAALSRRGAEMYFAPADLARRQEMADRLLADPELLLKQ
LGNERSTFDERDIAKALHRYVDDPAVFANIRARLMVSDDLVLLKPQQVDAETAKVAEPAVFTTRELLRIE
YDMARSAQVLSEHKGFAVSDRAVAAAIRHVETGDPEKSFRLDPEQVDAVRHVTRDNGIAAVVGLAGTGKS
TLLAAARVAWESGGSRVIGAALAGKAAEGLEDSSGIRSRTLASWELIWANGHETLHRGDVVVVDEAGMVS
SQQMARVLDIVEQAGAKVVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQRQPWAREASRLFARGE
IEKGLDAYAQQGHLIEAGTRAETIDRIVADWSEARKRAIETSVLKGNDGRLRGDELLVLAHTNQDVKRLN
EALRTVMTGEGALGENRSFQTERGGRDFAAGDRIIFLENARFLEPRAPRLGPQYVKNGMLGTVVSTGDKR
GDTLLSVRLDNGRDVVISENSYRNVDHGYAATIHKSQGSTVERTLVLATGMMDQHLTYVSMTRHRDRADL
YAAKEDFEARPEWGRKPRVDHAAGVTGELVETGQAKFRPNDEDADDSPYADVKTEDGSVHRLWGVSLPKA
LEEGGVSQGDTVTLRKDGVERVKVQVPIVDEQTGQKRYEEREVDRNVWTAKRIETAAERQQRIERESHRP
DVFKQLVERLSRSGAKTTTLDFESEAGYRQYADDFARRRGLDHLSQTAAGMEEGVSRRWAAIAEKREQLA
ELWERASVALGFAIERERRVAYSEERTETQTVTGADIAGGRYLLPSTTGFTRSVEEDARLAQLASPDWKE
REAILRPLLEKIYRDQDAALVALNALASDLKIEPRRLADDLVVAPDRLSRLRGSDLIVDGRAARDERSVA
TAALLELVPLARAQATEFRRNAERFDLREQQRRAHMSLPIPALSKTAMARLVEIEAVRRQGGDDAYKTAF
ALATEDRSLVQEVKAVSEALSARFGWSAFTPNADALAERNMVERMPEDLASTRREKLTRLFEAVKHFADE
QHLAERRDRSKIVAGASADQGMEAGKENAAVLPMLAAVTEFKTPIDEEARSRTLATPLYRQQRTALAAVA
STIWRDPAGAVGKIEDLLAKGFAGDRIAAAVTNDPAAYGALRGSDRLMDRMLASGRERKEAVQAVPEAAA
RLRALGSAYVNVLDGERQAVAEERRRMAVAIPGLSKAAEDVLMRLTTGAKNNGRKKNASAASLDPDIRRE
FEAVSRALDERFGRSAILRDEKDIINRIPPAQRRAFEAMQERFKVLQQTVRFESSEQIMSERRQRAVSRG
HGIDL

  Protein domains


Predicted by InterproScan.

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

(1314-1406)

AAA domain (AAA_30)

(391-576)

MobA/MobL family (MobA_MobL)

(17-249)


  Protein structure



No available structure.




T4CP

ID   1554 GenBank   WP_130671194
Name   traG_ELI03_RS23865_pSM145A_Rh01 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: 70381.05 Da        Isoelectric Point: 8.7930

>WP_130671194.1 Ti-type conjugative transfer system protein TraG [Rhizobium leguminosarum]
MALKGRLYPSLLLVFVPIALTAIAVYITGWRWPALAHGLSGKTEYWFLRVAPVPALLFGPLAGLLTVWAL
PLHRRRPVAMASLFCFLLVAGFYTLREYGRLAPSVERGAVTWDHALSYLDFVAVIGALAGFIAVAAAARI
SVVVPEPVKRAKGGAFGDADWLSMSAAARLFPPDGEIVVGERYRVDKEVVHELPFDPNDRSTWGQGGKAP
LLTYSQDFDSTHMLFFAGSGGYKTTSNVLPTALRYTGPLICLDPSTEVAPMVVEHRTRVLGREVMVLDPT
NPITGFNVLDGIEHSQRKEEDIVGIAHMLLSESLRFESSTGSYFQNQAHNLLTGLLAHVMLSPEYAGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSESAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKSSDIVSDKKDVFLNIPASILRSYPGIGRVIIGSLINAMVQADGGFSRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLLYQSVGQLERHFGKDGATSWIDGCAFASYAAIKALDTARNISAQCGEMTVEVQG
RSRNIGWDTKGGGTRKSESVNFQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKEMDAQAK
ANRFVRT

  Protein domains


Predicted by InterproScan.

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

(161-634)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 672479..680863

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ELI03_RS26865 (ELI03_26865) 667582..668439 + 858 WP_130750762 hypothetical protein -
ELI03_RS26870 (ELI03_26870) 668476..669060 - 585 WP_130711372 TadE/TadG family type IV pilus assembly protein -
ELI03_RS26875 (ELI03_26875) 669062..669592 - 531 WP_130696112 TadE/TadG family type IV pilus assembly protein -
ELI03_RS26880 (ELI03_26880) 669589..670950 - 1362 WP_130750764 TadE/TadG family type IV pilus assembly protein -
ELI03_RS26885 (ELI03_26885) 671237..671494 - 258 WP_130696114 hypothetical protein -
ELI03_RS26890 (ELI03_26890) 671491..671844 - 354 WP_017957275 hypothetical protein -
ELI03_RS26895 (ELI03_26895) 671936..672475 + 540 WP_130750766 hypothetical protein -
ELI03_RS26900 (ELI03_26900) 672479..673141 + 663 WP_130750768 lytic transglycosylase domain-containing protein virB1
ELI03_RS26905 (ELI03_26905) 673138..673437 + 300 WP_130750770 TrbC/VirB2 family protein virB2
ELI03_RS26910 (ELI03_26910) 673443..673781 + 339 WP_130671362 type IV secretion system protein VirB3 virB3
ELI03_RS26915 (ELI03_26915) 673774..676140 + 2367 WP_130750772 VirB4 family type IV secretion system protein virb4
ELI03_RS26920 (ELI03_26920) 676140..676838 + 699 WP_130680330 P-type DNA transfer protein VirB5 virB5
ELI03_RS26925 (ELI03_26925) 676835..677068 + 234 WP_130680329 EexN family lipoprotein -
ELI03_RS26930 (ELI03_26930) 677072..677992 + 921 WP_130671366 type IV secretion system protein virB6
ELI03_RS26935 (ELI03_26935) 678045..678329 + 285 WP_130741310 hypothetical protein -
ELI03_RS26940 (ELI03_26940) 678331..679002 + 672 WP_130750774 virB8 family protein virB8
ELI03_RS26945 (ELI03_26945) 678999..679853 + 855 WP_130680326 P-type conjugative transfer protein VirB9 virB9
ELI03_RS26950 (ELI03_26950) 679863..680863 + 1001 WP_130750776 TrbI/VirB10 family protein virB10

Host bacterium

ID   3022 GenBank   NZ_SIPC01000002
Plasmid name   pSM145A_Rh01 Incompatibility group   -
Plasmid size   680863 bp Coordinate of oriT [Strand]   22043..22071 [+]
Host baterium   Rhizobium leguminosarum strain SM145A

Cargo genes

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