Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121247
Name   oriT_pWSM1455_1 in_silico
Organism   Rhizobium laguerreae strain WSM1455
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP088091 (744893..744921 [+], 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_pWSM1455_1
AGGGCGCAATATACGTCGCTGTCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13418 GenBank   WP_231285546
Name   traA_RlegWSM1455_RS27755_pWSM1455_1 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: 170547.81 Da        Isoelectric Point: 6.7506

>WP_231285546.1 Ti-type conjugative transfer relaxase TraA [Rhizobium laguerreae]
MAIMFVRAQVISRGVGRSIVSAAAYRHRARMMDEQAGTSFSYRGGRAELVHEELALPTQIPEWLRTAIDG
RTVAAASEALWNAVDAFEKRADAQLARELIIALPEELTRAENIALVREFVRDNLTSEGMVADWVYHDKDG
NPHIHLMTALRPLTQEGFGRKKVAVTGEDGAPLRVVTPDRPKGRIVYKLWAGDKETMKAWKIAWAETANR
HLALAGHEIRIDGRSYAEQGLDGIAQRHLGPEKAALSRRGATMYFAPADLARRQEMADRLLAEPEFLLKR
LGNERSTFDERDIAKALHRYVDDPSDFANIRAGLMASDDLVILKPQEVDPETGKVAEPAVFTTRDILRVE
YDMARSAQVLSERRGFAVSAESVAAAIENVETADPEKSFRLDPEQVDAVRHVAGDNGIAAVVGLAGAGKS
TLLAAARVAWESGGRRVIGAALAGKAAEGLEDSSGISSRTLAAWELIWANGHETLHRGDVLVIDEAGMVS
SQQMARVLKLVEQARAKVVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQREEWAREASRLFARGE
IEKGLDAYAGHGHLVEAETRAETIDRIVADWTEARKQAIRNSTVVANDGRLRGDALLVLAHTNQDVKRLN
EALRSVMTGEGALGEGRSFRTERGAREFAAGDRMIFLENARFLEPRAPRLGPQYVKNGMLGTVVSTGDKR
GDTLLTVRLDNGRDVVISEDSYRNVDHGYAATIHKSQGATVERTFVLATGMMDQHLTYVSMTRHRDRADL
YAAKEDFEAKPEWGRKPHVDHAAGVTGELVETGQAKFRPNDEDADDSPYADVKTDDGSVHRLWGVSLPKA
LEEGGVSEGDTVTLRKDGVEKVKVQVPIVDEQTGQKRFEEREVDRNVWTAKRIETAAERQERIERESHRP
DVFKQLVERLSRSGAKTTTLDFESEAGYRAYADDFARRRGLDHLSLAAAGVEESLSRRWAGIAERREQLA
KLWERASMALGFTIERERRVAYSEERAEPTPVLEADVVSGRYLIPPATGFTRSVEEDARLAQLASPAGKE
REAILRPLLEKIYRDPDAALVALNALSSDASIEPRRLVDDLAATPDRLGRLRGSDLIVDGRAARDELNAA
ITALTELLPLARAHATEFRRNGERFDLGEQQRRTHMSLPIPALSEKAMARLTEIEAVRERGGDDAYKTAF
ALVTEDRSIVQEIKAVSEALTARFGWSAFTPNADAVAERNMVERMPEDLASIRGEKLTRLFEAVKRFADE
QHLAERRNRSKIVAAASADQGMGTDKENAAVLPMLAAVTDFKTPVDEEARSRVLSAPLYRQQRAALAEAA
RVIWRDPAGAVGKIEELLAKGFAGERIAAAVTNDPAAYGALRGSDRLMDRMLAAGRERKDAVQAMPEAAA
RLRALGSAYVNVLDGERRAIAEERRRMTVAIPGLSKAAEEVLMRLTAEAKNNGYKLSASAASLDPDIRRE
FAAVSRALDERFGRNAIIRDDKDLINRVPPVQRRAFEAMQERLRILQKAVRMKSSEQIISERRQRAVSRG
GGIDL

  Protein domains


Predicted by InterproScan.

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

(1312-1405)

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

(1049-1127)

MobA/MobL family (MobA_MobL)

(17-249)

AAA domain (AAA_30)

(391-578)


  Protein structure



No available structure.




T4CP

ID   15723 GenBank   WP_231285545
Name   traG_RlegWSM1455_RS27740_pWSM1455_1 insolico UniProt ID   _
Length   639 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 639 a.a.        Molecular weight: 70501.42 Da        Isoelectric Point: 9.2552

>WP_231285545.1 Ti-type conjugative transfer system protein TraG [Rhizobium laguerreae]
MALKCRLHPGLLLVLVPVAVTAIAVYITGWRWSALAHGLSGKSEYWFMRAAPVPALLFGPLTGLLTVWAL
PLHRRRPIAIASLFCFLAIAGFYALREYGRLAPSVESGTVSWDRALSYLDMVAVIGALAGFMVTAVAARI
SVVVPEQVKRAKGGTFGDADWLSMSAAAKLFPPDGEIVVGERYRVDKEVVYQLPFDPNDPSTWGRGGKAP
LLTYSQDFDSTHMLFFAGSGGYKTTSNVLPTALRYTGPLICLDPSTEVAPMVLEHRTRVLGREVMVLDPT
NPIMGFNVLDGIEASKQKEEDIVGIAHMLLSESLRFESSTGSYFQNQAHNLLTGLLAHVMLSPEYAGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSESAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNTFRSSDIIAGGTDVFLNIPASILRSYPGIGRVIIGSLINAMVQADGRFSRRALFMLDEVDLLGYIRVL
EEARDRGRKYGISMMLLYQSVGQLERHFGKDGATSWIDGCAFVSYAAIKALDTARNVSAQCGEMTVEVQG
RSRNIGWDTKRGGTRKSESVNFQRRPLIMPHEITQSMRKDEQIIIVQGHRPIRCGRAIYFRRKDMNAAAK
ANRFVKPVP

  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: 420845..430452

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
RlegWSM1455_RS25930 (RlegWSM1455_25930) 416654..417238 - 585 WP_077980522 TadE/TadG family type IV pilus assembly protein -
RlegWSM1455_RS25935 (RlegWSM1455_25935) 417240..417770 - 531 WP_131640974 TadE/TadG family type IV pilus assembly protein -
RlegWSM1455_RS25940 (RlegWSM1455_25940) 417767..419128 - 1362 WP_131640973 TadE/TadG family type IV pilus assembly protein -
RlegWSM1455_RS25945 (RlegWSM1455_25945) 419854..420207 - 354 WP_077980519 MarR family transcriptional regulator -
RlegWSM1455_RS25950 (RlegWSM1455_25950) 420299..420841 + 543 WP_131640972 hypothetical protein -
RlegWSM1455_RS25955 (RlegWSM1455_25955) 420845..421507 + 663 WP_231285670 lytic transglycosylase domain-containing protein virB1
RlegWSM1455_RS25960 (RlegWSM1455_25960) 421504..421803 + 300 WP_231285671 TrbC/VirB2 family protein virB2
RlegWSM1455_RS25965 (RlegWSM1455_25965) 421808..422146 + 339 WP_231285673 type IV secretion system protein VirB3 virB3
RlegWSM1455_RS25970 (RlegWSM1455_25970) 422139..424505 + 2367 WP_231285674 VirB4 family type IV secretion/conjugal transfer ATPase virb4
RlegWSM1455_RS25975 (RlegWSM1455_25975) 424538..425203 + 666 WP_231285725 P-type DNA transfer protein VirB5 virB5
RlegWSM1455_RS25980 (RlegWSM1455_25980) 425200..425433 + 234 WP_231285675 EexN family lipoprotein -
RlegWSM1455_RS25985 (RlegWSM1455_25985) 425437..426357 + 921 WP_131663326 type IV secretion system protein virB6
RlegWSM1455_RS25990 (RlegWSM1455_25990) 426410..426694 + 285 WP_231285676 hypothetical protein -
RlegWSM1455_RS25995 (RlegWSM1455_25995) 426696..427367 + 672 WP_221959625 virB8 family protein virB8
RlegWSM1455_RS26000 (RlegWSM1455_26000) 427364..428221 + 858 WP_231285677 P-type conjugative transfer protein VirB9 virB9
RlegWSM1455_RS26005 (RlegWSM1455_26005) 428231..429403 + 1173 WP_231285679 type IV secretion system protein VirB10 virB10
RlegWSM1455_RS26010 (RlegWSM1455_26010) 429412..430452 + 1041 WP_231285682 P-type DNA transfer ATPase VirB11 virB11
RlegWSM1455_RS26015 (RlegWSM1455_26015) 430608..430823 - 216 WP_231285683 DUF3072 domain-containing protein -
RlegWSM1455_RS26020 (RlegWSM1455_26020) 430954..431862 - 909 WP_231285684 nucleotidyltransferase and HEPN domain-containing protein -
RlegWSM1455_RS26025 (RlegWSM1455_26025) 432277..432519 + 243 WP_222023730 type II toxin-antitoxin system Phd/YefM family antitoxin -
RlegWSM1455_RS26030 (RlegWSM1455_26030) 432519..432953 + 435 WP_231285685 type II toxin-antitoxin system VapC family toxin -
RlegWSM1455_RS26035 (RlegWSM1455_26035) 433042..434188 - 1147 Protein_423 site-specific integrase -

Host bacterium

ID   21675 GenBank   NZ_CP088091
Plasmid name   pWSM1455_1 Incompatibility group   -
Plasmid size   1064136 bp Coordinate of oriT [Strand]   744893..744921 [+]
Host baterium   Rhizobium laguerreae strain WSM1455

Cargo genes

Drug resistance gene   -
Virulence gene   htpB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   nifN, nifE, nifK, nifD, nifH, nodM, nodE, nodF, nodD, nodA, nodC, nodI, nodJ, nifB, fixX, fixC, fixB, fixA, fixN, fixO, fixQ, fixG
Anti-CRISPR   AcrIIA7