Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102752
Name   oriT_pRspN741c in_silico
Organism   Rhizobium sp. N741
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP013598 (215911..215939 [+], 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_pRspN741c
AGGGCGCAATATACGTCGCTGTCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2026 GenBank   WP_064811989
Name   traA_AMK03_RS24415_pRspN741c 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   1675 GenBank   WP_064811988
Name   traG_AMK03_RS24400_pRspN741c 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: 196150..205738

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AMK03_RS34025 192634..192860 - 227 Protein_185 chaperonin GroEL -
AMK03_RS24275 (AMK03_PC00171) 193155..194075 + 921 WP_064811974 zincin-like metallopeptidase domain-containing protein -
AMK03_RS24280 194186..194368 - 183 WP_016737443 hypothetical protein -
AMK03_RS24285 (AMK03_PC00172) 195140..195511 - 372 WP_042120136 hypothetical protein -
AMK03_RS24290 (AMK03_PC00173) 195610..196146 + 537 WP_064811975 hypothetical protein -
AMK03_RS24295 (AMK03_PC00174) 196150..196809 + 660 WP_064811976 lytic transglycosylase domain-containing protein virB1
AMK03_RS24300 (AMK03_PC00175) 196806..197105 + 300 WP_009997887 TrbC/VirB2 family protein virB2
AMK03_RS24305 (AMK03_PC00176) 197111..197449 + 339 WP_009997888 type IV secretion system protein VirB3 virB3
AMK03_RS24310 (AMK03_PC00177) 197442..199808 + 2367 WP_064811977 VirB4 family type IV secretion system protein virb4
AMK03_RS24315 (AMK03_PC00178) 199805..200506 + 702 WP_064811978 P-type DNA transfer protein VirB5 virB5
AMK03_RS24320 (AMK03_PC00179) 200503..200736 + 234 WP_010007459 EexN family lipoprotein -
AMK03_RS24325 (AMK03_PC00180) 200740..201672 + 933 WP_040111793 type IV secretion system protein virB6
AMK03_RS32035 (AMK03_PC00181) 201712..201993 + 282 WP_080771758 hypothetical protein -
AMK03_RS24330 (AMK03_PC00182) 201995..202666 + 672 WP_064811979 virB8 family protein virB8
AMK03_RS24335 (AMK03_PC00183) 202663..203520 + 858 WP_064811980 P-type conjugative transfer protein VirB9 virB9
AMK03_RS24340 (AMK03_PC00184) 203529..204701 + 1173 WP_064811981 type IV secretion system protein VirB10 virB10
AMK03_RS24345 (AMK03_PC00185) 204710..205738 + 1029 WP_010008207 P-type DNA transfer ATPase VirB11 virB11
AMK03_RS24350 (AMK03_PC00186) 205782..206360 - 579 WP_064811982 PIN domain-containing protein -
AMK03_RS24355 (AMK03_PC00187) 206350..206796 - 447 WP_225881772 DNA-binding protein -
AMK03_RS24360 (AMK03_PC00189) 207308..208498 - 1191 WP_064811984 DUF1173 domain-containing protein -
AMK03_RS34030 208809..209068 + 260 Protein_205 toprim domain-containing protein -
AMK03_RS24370 (AMK03_PC00190) 209454..209720 + 267 WP_004676093 hypothetical protein -
AMK03_RS24375 (AMK03_PC00191) 209717..210115 + 399 WP_064811986 type II toxin-antitoxin system VapC family toxin -

Host bacterium

ID   3195 GenBank   NZ_CP013598
Plasmid name   pRspN741c Incompatibility group   -
Plasmid size   433134 bp Coordinate of oriT [Strand]   215911..215939 [+]
Host baterium   Rhizobium sp. N741

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, nodD, nodJ, nodI, nodS, nodC, fixO, fixN, mLTONO_5203, nodA
Anti-CRISPR   -