Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115195
Name   oriT_pTH2b in_silico
Organism   Rhizobium sp. TH2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP062233 (14996..15024 [+], 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_pTH2b
AGGGCGCAATATACGTCGCTGGCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9712 GenBank   WP_258163394
Name   traA_IHQ71_RS30060_pTH2b insolico UniProt ID   _
Length   1539 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1539 a.a.        Molecular weight: 170157.50 Da        Isoelectric Point: 8.8948

>WP_258163394.1 Ti-type conjugative transfer relaxase TraA [Rhizobium sp. TH2]
MAIMFVRAQVISRGAGRSIVSAAAYRHRARMMDDQAGTSFSYRGGASELVHEEMALPDQVPGWLKTAIDG
QSVAKASEALWNALDAFETRVDAQLARELIIALPEELTRAENIALVRAFVRDNFTSKGMVADWVYHDKDG
NPHIHLMTTLRPLTEEGFGPKKVPVLGEDGEPLRVATPDRPNGKIVYKLWAGDKETMKAWKIAWAETANQ
HLALAGHEIRLDGRSYAEQGLDRIAQKHLGPEKAALARKGVEMYFAPADLARRQEMADRLLSEPELLLKQ
LGNERSTFDEKDIARALHRYVDDPVDFANIRARLMASDDLVMLRPQQLNAETGKASEPAVFTTREILRIE
YDMARSAEILSERKGFGVSGAQVAAAVKSVETADPANPFKLDAEQVDAVSHVTGNNAIAAVVGLAGAGKS
TLLAAARVAWESEGRRVIGAALAGKAAEGLEDSSGIRSRTLASWELAWASGRETLQRGDVLVVDEAGMVS
SHQMARVLKAVEGVGAKAVLVGDAMQLQPIQAGAAFRAISERVGFAELAGVRRQRDEWAREASRLFARGK
VEEGLDAYAQHGRIAAAETRAEIVSRIVADWTDARRDLLQKTAGGGEASRLRGDELLVLAHTNEDVKRLN
ESLRKVMMEEGALTGAREFQTARGVREFAAGDRIIFLENARFLEPRARRLGPQYVKNGMLGTVVTTGDQR
GDALLSVRLDNGRDVVISEATYRNVDHGYAATIHKSQGSTVDRTFVLATGIMDQHLAYVAMTRHRDRADL
YAAKEDFETKTEWDRKPRADHAAGVTGALVETGFAKFRPNDEDADDSPYADVKTDDGTVHRLWGVSLPKA
IEDAGVADGDTVTLRKNGVEKVKVQIPIIDEQTGQKRFEEREVERNVWTAKQVETVEARQERIERGSHRP
ELFKQLVERLSRSGAKTTTLDFESAAGYQAHAQDFARRRGIDTLASAAAGMEEGVSRRLAWLAEKKEQVA
ELWQRASVALGFAIERERRISYSEDRAESVSAEIPTGRRYLIPPTTDFARSVDEDARRAQLSSPRWNERE
EILRPLLAKIYRDPDVALTHLNALASDARIEPRTLAGDLANAPDRLGRLRGSDNIVEARAARDERSVAVA
AFKELLPLIRAHATEFRRNADRFREREQTRRAYMSLSIPAISKQAMQRLVEIEAVRSRGGDDAWKTAFAF
ATEDRSLVQEVKAVSDALTARFGWSAFTGKADAIAERNVLERMPEDLTDERRGKLTRLFEVIRRFSEEQH
LAERKDQSKIVAGASIEAGKEPNAVLPMLAAVTEFRTPIDDEARPRALATQHYRHNRAALAETATRIWRD
PAGAVDRIEGLIVKGFAAERIAAAVANDPTAYGALRGSDRLMDRMLAVGRERKDALQAVPEASVRLRSLG
VAYVSAFDAERRSVTEERRRMAVAIPGLSQAAEDALRKLAAQMKKQGNKLAVAAGSIDPRIGQEFAAVSR
ALDERFGRNAILRGEKDVVNRVPAAQRRAFEAMHERLMILQQTVRMQASQQIISERQQHIINRARGVIF

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-249)

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

(1048-1125)

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

(1309-1399)

AAA domain (AAA_30)

(391-578)


  Protein structure



No available structure.




T4CP

ID   11329 GenBank   WP_258163392
Name   traG_IHQ71_RS30045_pTH2b 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: 70352.16 Da        Isoelectric Point: 9.1168

>WP_258163392.1 Ti-type conjugative transfer system protein TraG [Rhizobium sp. TH2]
MSGPGKLHPSLLLILVPLTVTAFAAYAVGWRWQELAVGMSGKSAYWFLRAAPVPALLFGPLAGLLSVWAL
PLHRRRPVAMASLVCFLAVAGIYALREFGRLAPSVESGTVTWNQALSYLDFVAVIGALMGFMAVAVTARI
STVVPEPVTRAKRGTFGDADWLSMSAAGKLFPPDGEIAVGERYRVDKEIVHELPFDPNDPATWGQGGRAP
LLTYKQDFDSTHMLFFAGSGGYKTTSNVVPTALRYSAPLICLDPSTEVAPMVVEHRTRALGREVMVLDPT
NPIMGFNVLDGIETSKQKEEDIVGIAHMLLSESARFESSTGSYFQNQAHNLLTGLLAHVMLSPEYEGRRT
LRSLRQIVSEPEPSVLAMLRDIQEHSASTFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLESYAALVC
GNAFKSSDIVSGKKDVFLNIPASILRSYPGIGRVIIGSLINAMVQADGAFQRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLMYQSVGQLERHFGKDGATSWIDGCAFASYAAIKALDTARNVSAQCGEMTVEVKG
SSRNIGWDTKNNASRKSESVNFQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKDMKKEAK
TNRFVKPIP

  Protein domains


Predicted by InterproScan.

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

(161-635)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 212311..221873

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
IHQ71_RS31255 (IHQ71_31110) 208523..208741 + 219 WP_258163366 hypothetical protein -
IHQ71_RS31260 (IHQ71_31115) 209034..209966 + 933 WP_258163367 recombinase family protein -
IHQ71_RS31265 (IHQ71_31120) 210085..210444 + 360 WP_258163368 VOC family protein -
IHQ71_RS31270 (IHQ71_31125) 210549..210815 - 267 WP_258163369 hypothetical protein -
IHQ71_RS31275 (IHQ71_31130) 210924..211130 - 207 WP_068389465 cold-shock protein -
IHQ71_RS31280 (IHQ71_31135) 211458..211676 + 219 WP_258163370 hypothetical protein -
IHQ71_RS31285 (IHQ71_31140) 212311..213300 - 990 WP_258163371 P-type DNA transfer ATPase VirB11 virB11
IHQ71_RS31290 (IHQ71_31145) 213309..214475 - 1167 WP_258163372 type IV secretion system protein VirB10 virB10
IHQ71_RS31295 (IHQ71_31150) 214485..215339 - 855 WP_258163373 P-type conjugative transfer protein VirB9 virB9
IHQ71_RS31300 (IHQ71_31155) 215336..216007 - 672 WP_258163374 virB8 family protein virB8
IHQ71_RS31305 (IHQ71_31160) 216013..216285 - 273 WP_258163375 hypothetical protein -
IHQ71_RS31310 (IHQ71_31165) 216325..217257 - 933 WP_258163376 type IV secretion system protein virB6
IHQ71_RS31315 (IHQ71_31170) 217261..217494 - 234 WP_258163377 EexN family lipoprotein -
IHQ71_RS31320 (IHQ71_31175) 217491..218189 - 699 WP_258163378 P-type DNA transfer protein VirB5 virB5
IHQ71_RS31325 (IHQ71_31180) 218189..220903 - 2715 WP_258163379 VirB4 family type IV secretion/conjugal transfer ATPase virb4
IHQ71_RS31330 (IHQ71_31185) 220906..221205 - 300 WP_258163380 TrbC/VirB2 family protein virB2
IHQ71_RS31335 (IHQ71_31190) 221202..221873 - 672 WP_258163381 lytic transglycosylase domain-containing protein virB1
IHQ71_RS31340 (IHQ71_31195) 221876..222397 - 522 WP_258163382 hypothetical protein -
IHQ71_RS31345 (IHQ71_31200) 222492..222836 + 345 WP_258163383 MarR family transcriptional regulator -

Host bacterium

ID   15630 GenBank   NZ_CP062233
Plasmid name   pTH2b Incompatibility group   -
Plasmid size   223174 bp Coordinate of oriT [Strand]   14996..15024 [+]
Host baterium   Rhizobium sp. TH2

Cargo genes

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