Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102769
Name   oriT_pRphaN671e in_silico
Organism   Rhizobium phaseoli strain N671
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP013579 (1069212..1069240 [-], 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_pRphaN671e
AGGGCGCAATATACGTCGCTGTCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2042 GenBank   WP_037146755
Name   traA_AMC80_RS32515_pRphaN671e insolico UniProt ID   _
Length   1536 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1536 a.a.        Molecular weight: 170772.21 Da        Isoelectric Point: 7.4234

>WP_037146755.1 Ti-type conjugative transfer relaxase TraA [Rhizobium phaseoli]
MAIMFVRAQVISRGAGRSIVSAAAYRHRARMMDEQAGTSFSYRGAASELMHEELALPDQIPAWLKMAMDG
RSIAKASEALWNAVDAFEKRADAQLARELIIALPEELTRAENIALVREFVRDNLTSKGMIADWVYHDKDG
NPHIHLMTTLRPLTEEGFGPKKVAVLGEHSKPLRVVTPDRPNGRIVYKVWAGDKETMKAWKVAWAETANR
HLALAGHEIRLDGRSYAEQGLDGVAQKHLGPEKAALARKGRELFFAPADLARRQGMADRLLAEPELLLKQ
LGNERSTFDEKDIAKALHRCVDDPVEFANIRARLMASDELVMLKPQEMDADTGKVSEPAVFTTRDMLRIE
YHMAESARRLSNRSGYAVSRKHVAAAIERIESEDPKNLFHLDAEQVDAIRHVTGDSGIAAVVGLAGAGKS
TLLAAARLAWESEGRRVIGAALAGKAAEGLEDSSGIKSRTLASWELTWANGRDTLHRGDVLVIDEAGMVS
SQQMARVLKIAEEAEIKVVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQRQEWARDASRLFARGE
VEKGLDAYAQQGHLVEAGTREEAINRIVADWTEARKQAIDRSTSEGRDGHLRGDELLVLAHTNADVHKLN
EALREVMKAEQALSDSRTFQTARGAREFAVGDRIIFLENARFLEPRARHSGPQYVKNGMLGTVVATGDKR
GDPLMSVLLDNGRNVVFSEDSYRNVDHGYASTIHKSQGATVDRTFVLATGMMDRHLTYVSMTRHRDRADL
YAVKEDFQVRSERGRRLRADHAAGVTGELVEAGEAKFRPDDEDADDSPYADIRTDDGTVHRLWGVSLPKA
LEEAGISEGDTITLRKDGVERVKVQIAVVDEATGQKRYEEREVGRNVWTAKQIETAEARQERIERESHRP
DVFSRLVERLSRSGAKTTTLDFESEAGYRAHADDFARRRGLDHLSLAAAEMEEGVSRRLAWIAEKRGQIA
KLWERASVALGLAIERERRVAYNEERSETMIGAISSEERYLIPPATDFRRSLDEDARLAQLSSPAWKERE
AILRPLLETIYRDPDAALVRLNALASDTGTEPRKLADDLAVAPDLLGRLYGSDLIVDGRAARDERNVAMA
TVKELLPLARAHATEFRRNATRFERREQTRRNYMVLSIPALSERAVARLTEIEAVRSRGGDDAYKTASAL
AAQDRTVVQEIKAVSEAITARFGSSAFTAKADAIAQRNMAERMLEELTSVRGEKLIRLFEAVRRFAEEQH
LAERQDRSKIVAGASADPQNQNVPMLAAVTEFKTPIDEEARSRVLAGPLYRQQRAALAAVASTIWRDPAG
AVDKIEELLVKGFAADRIAAAVTNDPAAYGALRGSDRLMDRMLASGRERKDAVQAVPEAAARLRSLGSAY
VNVLDAERQAIAEERRRMAVAIPGLSKSAEEVLMRLTTEAKNNGRTRNAAAASLDPSIHREFEAVSRALD
ERFGHRAIIRGEKDLFNRMPLAQRRAFEVMWERFKVLQQTVRWESSEKIVSELRNRTINRGRGIDL

  Protein domains


Predicted by InterproScan.

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

(1045-1125)

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

(1303-1397)

AAA domain (AAA_30)

(391-577)

MobA/MobL family (MobA_MobL)

(17-249)


  Protein structure



No available structure.




T4CP

ID   1696 GenBank   WP_037146751
Name   traG_AMC80_RS32530_pRphaN671e 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: 70465.33 Da        Isoelectric Point: 9.2555

>WP_037146751.1 Ti-type conjugative transfer system protein TraG [Rhizobium phaseoli]
MIARGKPHPSLLFVFAPVVVTAIAVYIAGWRWPGLAAGMPGRMEYWFLRAAPVPALLFGPLAGLLTVWAL
PLHRRRPVAMTSLLCYLGVFASYAMREFARLGPSVQTGVITWDRALSYLDMVAVLGAVAGFLAVAVSARI
SVVVPDEINRARRGTFGDADWLSMAAAAKLFPPDGEIVVGERYRVDKEIVHQLPFDANDRGTWGQGGKAP
LLTYKQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVVEHRTHALGREVMVLDPT
NPIMGFNVLDGIETSRQKEEDIVGIAHMLLSESVRFESSTGSYFQSQAHNLLTGLLAHVMLSPEYAGRRN
LRSLREIVSEPEPSVLAMLRDIQENSQSDFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKPSDIVSGRKDVFLNIPASILRSYPGIGRVIIGSLINAMMQADGAFRRRALFMLDEVDLLGYMRVL
EEARDRGRKYGVSMMLMYQSVGQLERHFGKDGATSWIEGCAFASYAAVKALDTARTVSAQCGEMTVEVKG
SSRNLGWNSRNGGTRKSESVSFQRRPLIMPHEITQSMRKDEQVIIVQGHSPIRCGRAIYFRRKEMDGVAK
ANRFVKPVP

  Protein domains


Predicted by InterproScan.

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

(165-632)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1080515..1090070

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AMC80_RS32560 1076086..1076268 + 183 WP_037146733 hypothetical protein -
AMC80_RS32565 (AMC80_PE01009) 1076401..1077441 - 1041 WP_037146729 toprim domain-containing protein -
AMC80_RS32570 (AMC80_PE01010) 1077804..1078994 + 1191 WP_037146725 DUF1173 domain-containing protein -
AMC80_RS32575 (AMC80_PE01011) 1079437..1080030 + 594 WP_037146723 DUF433 domain-containing protein -
AMC80_RS32580 (AMC80_PE01012) 1080146..1080496 + 351 WP_237353383 type II toxin-antitoxin system VapC family toxin -
AMC80_RS32585 (AMC80_PE01013) 1080515..1081510 - 996 WP_064832842 P-type DNA transfer ATPase VirB11 virB11
AMC80_RS32590 (AMC80_PE01014) 1081519..1082694 - 1176 WP_016735275 type IV secretion system protein VirB10 virB10
AMC80_RS32595 (AMC80_PE01015) 1082703..1083557 - 855 WP_037146719 P-type conjugative transfer protein VirB9 virB9
AMC80_RS32600 (AMC80_PE01016) 1083554..1084225 - 672 WP_037146717 virB8 family protein virB8
AMC80_RS35950 (AMC80_PE01017) 1084219..1084506 - 288 WP_080712055 hypothetical protein -
AMC80_RS32605 (AMC80_PE01018) 1084546..1085478 - 933 WP_037146716 type IV secretion system protein virB6
AMC80_RS32610 (AMC80_PE01019) 1085481..1085714 - 234 WP_016735278 EexN family lipoprotein -
AMC80_RS32615 (AMC80_PE01020) 1085711..1086412 - 702 WP_016735279 P-type DNA transfer protein VirB5 virB5
AMC80_RS32620 (AMC80_PE01021) 1086409..1088775 - 2367 WP_064826470 VirB4 family type IV secretion system protein virb4
AMC80_RS32625 (AMC80_PE01022) 1088768..1089106 - 339 WP_016735282 type IV secretion system protein VirB3 virB3
AMC80_RS32630 (AMC80_PE01023) 1089112..1089411 - 300 WP_016735283 TrbC/VirB2 family protein virB2
AMC80_RS32635 (AMC80_PE01024) 1089408..1090070 - 663 WP_037147233 transglycosylase SLT domain-containing protein virB1
AMC80_RS32640 (AMC80_PE01025) 1090074..1090610 - 537 WP_016735285 hypothetical protein -
AMC80_RS32645 (AMC80_PE01026) 1090709..1091080 + 372 WP_016735286 hypothetical protein -
AMC80_RS32650 (AMC80_PE01028) 1091389..1092867 - 1479 WP_189636755 group II intron reverse transcriptase/maturase -
AMC80_RS32655 (AMC80_PE01030) 1093346..1094536 - 1191 WP_037147230 hypothetical protein -

Host bacterium

ID   3212 GenBank   NZ_CP013579
Plasmid name   pRphaN671e Incompatibility group   -
Plasmid size   1189373 bp Coordinate of oriT [Strand]   1069212..1069240 [-]
Host baterium   Rhizobium phaseoli strain N671

Cargo genes

Drug resistance gene   -
Virulence gene   gmd
Metal resistance gene   hupE2, actP
Degradation gene   LinG, dxnH
Symbiosis gene   noeL, fixB, fixA
Anti-CRISPR   AcrIIA8