Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114350
Name   oriT_pRspBT03d in_silico
Organism   Rhizobium sp. BT03
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP125643 (437711..437739 [+], 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_pRspBT03d
AGGGCGCAATATACGTCGCTGTCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9198 GenBank   WP_064811989
Name   traA_QMO80_RS29495_pRspBT03d insolico UniProt ID   A0A192M522
Length   1565 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1565 a.a.        Molecular weight: 172913.26 Da        Isoelectric Point: 7.2379

>WP_064811989.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [Rhizobium]
MAIMFVRAQVISRGSGRSIVSAAAYRHRARMMDEQAGTSFSYRGGAGELMYEELALPDEIPDWLRSAISG
QSVSKASEVFWNAVDAFETRADAQLARELIIALPEELTRAENITLVRDFVRDNLTSKGMIADWVYHDKDG
NPHIHLMTTLRPLTEEGFGAKKVPVLGEGGKPLRVVTPDRPNGKIVYKVWAGDKETLNAWKIAWAETANR
HLALADHDIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGRELHFAPADLARRQEMADRLLAEPELLLKQ
LGNERSTFDERDIARALHRYVDDPTDFANIRARLMASDQLVILKPQEIEAETGKVSEPAMFTTREMLRIE
YDMAQSARVLSERRGFGVSERIVTVAIERVESIESGDPKTPFRLDAEQVDAVRHVTGDGDIAAIVGLAGA
GKSTLLAAARLAWEGEGHRVIGAALAGKAAEGLQHSSGIKSRTLASWELAWANGRDTLHRGDVLVIDEAG
MVASQQMARVLKIAEEAEVKVVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQREAWARNASRLFA
RGEVEKGLDAYARHGHLVEAGSREETIDRIVSDWAAARREAIERSTSEGGDGRLRGDELLVLAHTNDDVR
KLNEALRSVMTQEGALGESRSFRSERGAREFAAGDRIIFLENARFLEPRAKHSGPQYVKNGMLGTVVSTG
DKRGDPLLSILLDNGRKLVFSEDSYRHVDHGYAATIHKSQGATVDRTFVLATGMMDQHLTYVSMTRHRDR
VDLYAAKEDFAAKPEWGRKPRVDHAAGVTGELVETGEAKFRPDDEDADDSPYADVRADGGTVHRLWGVSL
PKALEEAGIQEGDTVMLRKDGVERVKVQITVVDEKTGHKHYEEREVDRNVWTASQVETASARQERIERES
HRSELFNPLVERLSRSGAKTTTLDFESEASYRAHANDFARRRGLDHLSLAAAEMEESLTRRWAWIAEKRE
QVAKLWERASVALGFAIERERRVAYNEERSQTMVEATSSDARTASHSVSGASAAETRYLIPPATSFVSSV
EEDARLAQLASPAWTEREVILRPLLQKIYRDPDAALVSLNALASDIGVAPRRLADDLAVAPGRLGRMRGS
ELIVDGRAAREERNVAVAGVKELLPIARAHATEFRRNAERFELREQTRRAHMSLSIPALSERAMARLMEI
EAVRRQGGDDAYKTAFALTAKDRSVVQEIKAVSEALTARFGWSAFSAKADAIAERNIVERMPEDLTDERR
GKLTRLFEAVRRFAEEQHLAERRDRSKIVAGASVDLRTGTEKGVGKENVPIPPMLAAVTEFKVPVDDEAR
SRALASPLYRQQRAALANAATTIWRDPAEVVGKIEELLQKGFAAERIGAAVTNNPAAYGALRGSDRLMDR
MLASGRERKEATRTVPEAAARLRALGAAYANALNSERQAITDERRRMAVAIPALSKAAEEALAHLTVEVS
KDSRKLNVSAASLDPGIGREFAAVSRALDERFGRNALVRGDKDIANVVPPAQRGAFAAMQERLKVLQQTV
RLQSSEQIIVERRQQTANRSRGINL

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-249)

AAA domain (AAA_30)

(394-579)

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

(1334-1425)

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

(1072-1143)


  Protein structure



No available structure.




T4CP

ID   10661 GenBank   WP_064811988
Name   traG_QMO80_RS29480_pRspBT03d 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: 70745.97 Da        Isoelectric Point: 9.5675

>WP_064811988.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Rhizobium]
MGLRGKPHPSLLLVLVPIAVTTITIYIVGWRWPGLAAGMSGKIEHWFLRAAPVPPLLFGPLAGLLTVWAL
PLHRRRPVAMASLLYFLGVAAFYALREFGRLAPAVQAEVITWDRALSYLDMVAVIAAVAGFMAVAMSARI
SVVVPDEIKRARRGIFGDADWLPMRAAGKLFPPEGEIVVGERYRVDKEIVHALPFDANDRSTWGQGGKAP
LLTYRQDFDSTHMLFFAGSGGYKTTSNVVPTALRYSGPLICLDPSTEVAPMVAEHRARALKREVMVLDPT
NPIMGFNVLDGIEASKQKEEDIVGIAHMLLSESLRFESSTGSYFQNQAHNLLTGLLAHVMLSPEYEGRRS
LRSLRQIVSEPEPSVLAMLRDIQEHSASAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKSSDIVSGKKDVFLNIPASILRSYPGIARVIIGSLINAMVQADGAFQRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLMYQSVGQLERHFGKDGATSWIDGCAFASYAAIKALDTARNVSAQCGEMTVEVKG
SSRNIGWDTKNNASRRSENVTFQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKEMDQAAK
VNRFVKPVL

  Protein domains


Predicted by InterproScan.

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

(168-634)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 417950..427538

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QMO80_RS29340 (QMO80_005871) 414434..414660 - 227 Protein_395 chaperonin GroEL -
QMO80_RS29345 (QMO80_005872) 414955..415875 + 921 WP_064811974 ArdC family protein -
QMO80_RS29350 (QMO80_005873) 415986..416168 - 183 WP_016737443 hypothetical protein -
QMO80_RS29355 (QMO80_005874) 416940..417311 - 372 WP_042120136 hypothetical protein -
QMO80_RS29360 (QMO80_005875) 417410..417946 + 537 WP_064811975 hypothetical protein -
QMO80_RS29365 (QMO80_005876) 417950..418609 + 660 WP_064811976 lytic transglycosylase domain-containing protein virB1
QMO80_RS29370 (QMO80_005877) 418606..418905 + 300 WP_009997887 TrbC/VirB2 family protein virB2
QMO80_RS29375 (QMO80_005878) 418911..419249 + 339 WP_009997888 type IV secretion system protein VirB3 virB3
QMO80_RS29380 (QMO80_005879) 419242..421608 + 2367 WP_064811977 VirB4 family type IV secretion/conjugal transfer ATPase virb4
QMO80_RS29385 (QMO80_005880) 421605..422306 + 702 WP_064811978 P-type DNA transfer protein VirB5 virB5
QMO80_RS29390 (QMO80_005881) 422303..422536 + 234 WP_010007459 EexN family lipoprotein -
QMO80_RS29395 (QMO80_005882) 422540..423472 + 933 WP_040111793 type IV secretion system protein virB6
QMO80_RS29400 (QMO80_005883) 423512..423793 + 282 WP_080771758 hypothetical protein -
QMO80_RS29405 (QMO80_005884) 423795..424466 + 672 WP_064811979 virB8 family protein virB8
QMO80_RS29410 (QMO80_005885) 424463..425320 + 858 WP_064811980 P-type conjugative transfer protein VirB9 virB9
QMO80_RS29415 (QMO80_005886) 425329..426501 + 1173 WP_064811981 type IV secretion system protein VirB10 virB10
QMO80_RS29420 (QMO80_005887) 426510..427538 + 1029 WP_010008207 P-type DNA transfer ATPase VirB11 virB11
QMO80_RS29425 (QMO80_005888) 427582..428160 - 579 WP_064811982 PIN domain-containing protein -
QMO80_RS29430 (QMO80_005889) 428150..428596 - 447 WP_225881772 DNA-binding protein -
QMO80_RS29435 (QMO80_005890) 429108..430298 - 1191 WP_283201247 DUF1173 domain-containing protein -
QMO80_RS29440 (QMO80_005891) 430609..430868 + 260 Protein_415 toprim domain-containing protein -
QMO80_RS29445 (QMO80_005892) 431254..431520 + 267 WP_004676093 type II toxin-antitoxin system Phd/YefM family antitoxin -
QMO80_RS29450 (QMO80_005893) 431517..431915 + 399 WP_064811986 type II toxin-antitoxin system VapC family toxin -

Host bacterium

ID   14785 GenBank   NZ_CP125643
Plasmid name   pRspBT03d Incompatibility group   -
Plasmid size   446819 bp Coordinate of oriT [Strand]   437711..437739 [+]
Host baterium   Rhizobium sp. BT03

Cargo genes

Drug resistance gene   -
Virulence gene   hsiC1/vipB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   nifX, nifN, nifE, nifK, nifD, nifH, nifS, nifW, fixA, fixB, fixC, fixX, nifA, nifB, nifZ, nifT, a9174_31165, nodD, nodJ, nodI, nodS, nodC, nodB, nodZ, fixO, fixN, mLTONO_5203, nodA
Anti-CRISPR   -