Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115782
Name   oriT_pWSM1274_1 in_silico
Organism   Rhizobium sp. WSM1274
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP104139 (882331..882359 [+], 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_pWSM1274_1
AGGGCGCAATATACGTCGCTGGCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10106 GenBank   WP_260299030
Name   traA_N2600_RS28435_pWSM1274_1 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: 171194.26 Da        Isoelectric Point: 6.7948

>WP_260299030.1 Ti-type conjugative transfer relaxase TraA [Rhizobium sp. WSM1274]
MAIMFVRAQVIGRGGGRSIVSAAAYRHRTRMMDEQAGTSFSYRGGASELVHEELALPDQTPDWLRAAIDG
RTVAAASEALWNAVDAFEKRADAQLARELIIALPEELTRAENIALVREFVRDNLTSKGMVADWVFHDKDG
NPHIHLMTTLRPLTEEGFGRKKVPVTGEDGTPLRVVTPDRPNGRIVYKLWAGDKETMKAWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGRELYFAPADLARRQEMADRLLAEPELLLKQ
LGNERSTFDERDIAKALHRYVDDPLVFANIRARLMASDDLIMLKPQQIDAETGKASEPAVFTTREILRIE
YDMARSAQVLSERRGFAVSSRHVAAAVRHVETGDPEKPFKLDAEQVDAIRHVTGDNGIAAVVGLAGAGKS
TLLAGARVAWEHDGRRVIGAALAGKAAEGLEDSSGIRSRTLASWELIWANGHETLHRGDVLVIDEAGMVS
SQQMARVLKIAEEAGTKVVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQRDDWAREASRLFARGE
VEKGLDAYAQQGHLVEAATRDEIIGRIVSDWTDARRALVRETAEGANTTRLRGDELLVLAHTNQDVKRLN
EALRLVMTDEGALGESRSFRTERGAREFAAGDRIIFLENARFLEPRAPRLGPQYVKNGMLGTVVSTGDKR
GDTLLSVRLDNGRDVVISENSYRNVDHGYAATIHKSQGVTVERTFVLATGMMDQHLTYVSMTRHRDRADL
YAAKDDFEARPEWGRKPRVDHAAGVTGALVETGQAKFRPNDEDADDSPYADVKADDGTLHRLWGVSLPKA
LEEGGVSQGDTVTLRKDGVEKVKVQVQIVDEQTGQKRFEEKEVDRNVWTAKQIETAEARLERIERESHRP
EVFKQLVLRLSRSGAKTTTLDFESEAGYRAHADDFARRRGLDHLSQAAAGMEESLSRQWAWIAEKREQVA
ELWERASMALGFAIERERRVSYNEERIETQTVSDADADRARHLIAPTTVFARSVEEDARLAQLSSPAWKE
REAILRPLLEKIYRDPDAALSALNALSSDMSIEPRRLADDLAAAPDRLGRLRGSDLIVDGRAARDERNAA
ITALTDLLPLARAHATEFRRNAERFESREQQRRTHMSLPIPALSKTAMTRLAEIEAVRRQGGDDAYKTAF
ALAAEDRSFVQEVKAVSEALSARFGWSAFTSKTDAVAERNMIERMPEDLASISGEKLIRLFEAVKRFADE
QHQVERRDRSKIVAAASADQGMEADKENAAVLPMLAAITEFKNPLDEEARSRLLSDPLYRQQRAALAAVA
STIWRDPADAVGKIEDLLAKGFAGERIAAAVTNDPAAYGALRGSDRLMDRMLAAGRERKEAVQAVPEAAA
RLRALGSAYVNVLDAERQAVAEERRRMAVAIPGLSKAAEEALMRLTAEARNNGRKLNASAASLDPDIHRE
FAAVSRALDERFGRNAIIRGEKDLIHRVPQMQRNVFEAMQEKLKVLQQAVRRESSEQIISERRQRAVSRG
REI

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(391-577)

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

(1312-1406)

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

(1047-1127)

MobA/MobL family (MobA_MobL)

(17-249)


  Protein structure



No available structure.




T4CP

ID   11808 GenBank   WP_260299029
Name   traG_N2600_RS28420_pWSM1274_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: 70472.34 Da        Isoelectric Point: 8.6943

>WP_260299029.1 Ti-type conjugative transfer system protein TraG [Rhizobium sp. WSM1274]
MALKCRLHPGLLLVLVPVAVTAIAVYITGWRWPALAHGLSGKSEYWFMRAAPVPALLFGPLAGLLIVWAL
PLHRRRSIAVASLLCFLVMSSFYVLREYGRLAPSVESGTVSWDRALSYLDFVAVIGALAGFMTVAVAARI
SVVVPEQVRRAKGGTFGDADWLSMSAVAKLFPPDGEIVVGERYRVDKEIVHELPFDPNDRNTWGQGGKAP
LLTYSQDFDSTHMLFFAGSGGYKTTSNVLPTALRYTGPLICLDPSTEVAPMVLEHRTRTLGREVMVLDPT
NPIMGFNVLDGIEASKQKEEDIVGIAHMLLSESLRFESSTGSYFQNQAHNLLTGLLAHVMLSPEYAGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSESAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFRSSDIVAGGTDVFLNIPASILRSYPGIGRVIIGSLINAMIQADGAFSRRALFMLDEVDLLGYMRIL
EEARDRGRKYGITMMLMYQSVGQMERHFGKDGATSWIDGCAFASYAAIKALDTARNVSAQCGEMTVEVQG
RSRNIGWDTKNGGTRKSESVNFQRRPLIMPHEITQSMRKDEQIIIVQGHPPIRCGRAIYFRRKDMNAAAK
ANRFVKPGP

  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: 365984..375585

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
N2600_RS25945 (N2600_25945) 361494..362069 - 576 WP_260299315 TadE/TadG family type IV pilus assembly protein -
N2600_RS25950 (N2600_25950) 362071..362601 - 531 WP_222281789 TadE/TadG family type IV pilus assembly protein -
N2600_RS25955 (N2600_25955) 362598..363959 - 1362 WP_260299485 TadE/TadG family type IV pilus assembly protein -
N2600_RS25960 (N2600_25960) 364996..365349 - 354 WP_170281502 MarR family transcriptional regulator -
N2600_RS25965 (N2600_25965) 365441..365980 + 540 WP_260299316 hypothetical protein -
N2600_RS25970 (N2600_25970) 365984..366646 + 663 WP_260299317 lytic transglycosylase domain-containing protein virB1
N2600_RS25975 (N2600_25975) 366643..366942 + 300 WP_222281786 TrbC/VirB2 family protein virB2
N2600_RS25980 (N2600_25980) 366947..367285 + 339 WP_260299318 type IV secretion system protein VirB3 virB3
N2600_RS25985 (N2600_25985) 367278..369644 + 2367 WP_260299319 VirB4 family type IV secretion/conjugal transfer ATPase virb4
N2600_RS25990 (N2600_25990) 369677..370342 + 666 WP_260299486 P-type DNA transfer protein VirB5 virB5
N2600_RS25995 (N2600_25995) 370339..370572 + 234 WP_222387198 EexN family lipoprotein -
N2600_RS26000 (N2600_26000) 370576..371496 + 921 WP_260299320 type IV secretion system protein virB6
N2600_RS26005 (N2600_26005) 371550..371834 + 285 WP_260299321 hypothetical protein -
N2600_RS26010 (N2600_26010) 371836..372507 + 672 WP_260299322 virB8 family protein virB8
N2600_RS26015 (N2600_26015) 372504..373358 + 855 WP_260299323 P-type conjugative transfer protein VirB9 virB9
N2600_RS26020 (N2600_26020) 373368..374537 + 1170 WP_260299324 type IV secretion system protein VirB10 virB10
N2600_RS26025 (N2600_26025) 374545..375585 + 1041 WP_260299325 P-type DNA transfer ATPase VirB11 virB11
N2600_RS26030 (N2600_26030) 375743..375958 - 216 WP_260299326 DUF3072 domain-containing protein -
N2600_RS26035 (N2600_26035) 376302..377210 - 909 WP_222387190 nucleotidyltransferase and HEPN domain-containing protein -
N2600_RS26040 (N2600_26040) 377311..377604 - 294 Protein_363 integrase -
N2600_RS26045 (N2600_26045) 377621..378007 - 387 WP_260299327 type II toxin-antitoxin system VapC family toxin -
N2600_RS26050 (N2600_26050) 378004..378252 - 249 WP_162118950 type II toxin-antitoxin system VapB family antitoxin -
N2600_RS26055 (N2600_26055) 378429..379222 - 794 Protein_366 tyrosine-type recombinase/integrase -
N2600_RS26060 (N2600_26060) 379410..380549 + 1140 WP_260299487 RHE_PE00001 family protein -

Host bacterium

ID   16215 GenBank   NZ_CP104139
Plasmid name   pWSM1274_1 Incompatibility group   -
Plasmid size   1180112 bp Coordinate of oriT [Strand]   882331..882359 [+]
Host baterium   Rhizobium sp. WSM1274

Cargo genes

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