Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102754
Name   oriT_pRspN741e in_silico
Organism   Rhizobium sp. N741
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP013600 (709453..709481 [-], 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_pRspN741e
AGGGCGCAATATACGTCGCTGCCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2028 GenBank   WP_064813248
Name   traA_AMK03_RS30975_pRspN741e insolico UniProt ID   _
Length   1553 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1553 a.a.        Molecular weight: 171806.03 Da        Isoelectric Point: 6.7399

>WP_064813248.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [Rhizobium]
MAIMFVRAQVISRGAGRSIVSAAAYRHRARMMDEQAGTSFSYRGGSRELVHEELALPEQVPGWLRAAIDG
QSVAGASEALWNAVDAFETRADGQLARELIIALPEELTRAENIALVREFVHDNLTSKGMVADWVYHDKDG
NPHIHLMTTLRPLTEDGFGPKKVPVLGEDDKPLRVVTPDRPNGKIVYKVWAGDKETMKGWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGRELYFAPADLARRHEMADRLLAEPELLLKQ
LGNERSTFDEKDIAKALHRYVDDPSDFANIRARLMASDELVMLKPQEFDGETREVAAPAVFTTREMLRIE
YDMARSARVLSEQAGFGVSARQVDTAIERVETGDPAKPFKLDAEQVDAIRHVTGDSGIAAVVGLAGAGKS
TLLAAARLAWESEGRRVIGAALAGKAAEGLEDSSGIKSRTLTAWELAWANGRDTLHRGDVLVIDEAGMVA
SQQMARVLDIVEEASAKVVLVGDAMQLQPIQAGAAFRAISDRIGFAELAGVRRQREEWAREASRLFARGE
VEKGLEAYAQHGHLAEAGTRAETIDRIVGDWSEARREAIGRSVSEGRDGRLRGDELLVLAHTNDDVRKLN
EALRAVMAGQRALSDSRTFQTARGAREFAVGDRIIFLENARFLEPRARSYGPQYVKNGMLGTVISTGDKR
GEALMSVRLDNGHKVVFSEDSYRNVDHGYAATIHKAQGATVERTLVLATGMMDQHLTYVAMTRHRDRVDL
YAASEDFEPRPEWGRKPRVDHAAGVTGELVETGEAKFRPDDEDADDSPYADVRTDDGTVHRLWGVSLPKA
LEEGGLSEGDTVTLRKDGVERVKVQIAVIDEETGQKRYEEREVDRNVWTARQIETAEARQDRIERESHRP
DLFKPLVERLSRSGAKTTTLDFESEAGYRAYAEDFARRRGFEYLSLAAAEIEGDISRRFAWIAAKREQQE
KLWERASMALGFAIERERRVSYSEARTEARPVPSANAGKAHYLILPTTEFVRSIDEDARLAQLSSPVWKD
RETLLRPVLERIYRDPDGALVALNALASDAGTEPRRLADDLAVSPDRLGRLRGSELIVDGRAARDERNVA
LAAVTELLPMARAHASEFRRNAERFELNEQARRAHMSLSIPALSEGAMARLMEIEAVRHRGGDDAYKTAF
ALAAKDRTVVQEIKAVSEALSARFGWSAFTAKADAVAERNMAERMPEALMAGEREKLVHLFEAVKRFAEA
QHLAERHDRSKIVAAASAVADQEQGMQPGMKSGKENVTVLPMLAAVTEFKTAVDDEARSRVLSAPFYRQQ
RAALANAARTIWRDPAGAVGKIEELIVKGFAAERIAAAVSNDPAAYGALRGSGRLMDKMLASGRERKEAV
QAVPEAAARLRSLGSAYANIFDAERQAIKAERERMAVAIPGLSKVAEEALVRLTAEARKNDRKRGIATAP
LDANIRREFDEISKALDQRFGRNAIIRGDKDLINHVPEPQRQAFVAMQEKLKILQQTVRAESSQQILSER
RQRGFNRGRGIDI

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(391-577)

MobA/MobL family (MobA_MobL)

(17-249)

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

(1320-1414)

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

(1057-1127)


  Protein structure



No available structure.




T4CP

ID   1678 GenBank   WP_064813078
Name   traG_AMK03_RS30990_pRspN741e insolico UniProt ID   _
Length   638 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 638 a.a.        Molecular weight: 70312.12 Da        Isoelectric Point: 9.0374

>WP_064813078.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Rhizobium]
MTSKKRLHPSLLCVLVPVVVTAISAYVVNWRWPILAHGLTGTTEYWFLRAAPVPALLFGPLAGLLTVWAL
PLHRRRPVAMASLACFLIMAGCYALREYSRLAPFVQAGAVSLNGALSYLDLVAVIGAVMGFMAVAVAARI
SVVVPEAVKRVKGGAFGDADWLSMSAAAKLFPPNGEIVVGERYRVDKEIVHQLPFDPNDHSTWGQGGKAP
LLTYSQDFDSTHMLFFAGSGGYKTTSNVLPTALRYTGPLICLDPSTEVAPMVTEHRTQVLGREVMVLDPN
NPINGFNVLDGIEHSRRKEEEIVGIAHMLLSESVRFESSTGSYFQNQAHNLLTGLLAHVMLSPEYAGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSKSAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GDAFRPSDIVAGRKDVFLNIPASILRSYPGIARVIIGSLVNAMVQADGDFSRRALFILDEVDLLGYMRVL
EEARDRGRKYGISMMLLYQSVGQLERHFGKDGATSWIDGCAFASYAAIKALDTARNVSAQCGEVTVEVQG
RSRNIGWDAKGGTRRSESVNVQRRPLILPHEITQAMRKDEQIIIVQGHNPIRCGRAIYFRRKEMDRAAKA
NRFVKPEQ

  Protein domains


Predicted by InterproScan.

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

(161-633)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 721629..730559

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AMK03_RS31030 (AMK03_PE00658) 716635..717576 - 942 WP_064813094 DUF2493 domain-containing protein -
AMK03_RS31035 (AMK03_PE00659) 717900..718934 - 1035 WP_064813096 toprim domain-containing protein -
AMK03_RS31045 719351..719551 + 201 WP_145924266 hypothetical protein -
AMK03_RS31050 (AMK03_PE00661) 719663..720853 + 1191 WP_064813102 DUF1173 domain-containing protein -
AMK03_RS31055 (AMK03_PE00662) 720893..721291 - 399 WP_064813104 type II toxin-antitoxin system VapC family toxin -
AMK03_RS31060 (AMK03_PE00663) 721288..721539 - 252 WP_064813105 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
AMK03_RS31065 (AMK03_PE00664) 721629..722651 - 1023 WP_064813107 P-type DNA transfer ATPase VirB11 virB11
AMK03_RS31070 (AMK03_PE00665) 722660..723835 - 1176 WP_064813109 type IV secretion system protein VirB10 virB10
AMK03_RS31075 (AMK03_PE00666) 723844..724701 - 858 WP_064813111 P-type conjugative transfer protein VirB9 virB9
AMK03_RS31080 (AMK03_PE00667) 724698..725369 - 672 WP_064813251 virB8 family protein virB8
AMK03_RS34220 725363..725656 - 294 WP_082240409 hypothetical protein -
AMK03_RS31085 (AMK03_PE00668) 725694..726626 - 933 WP_064813113 type IV secretion system protein virB6
AMK03_RS31090 (AMK03_PE00669) 726629..726862 - 234 WP_064813115 EexN family lipoprotein -
AMK03_RS31095 (AMK03_PE00670) 726859..727557 - 699 WP_064813117 P-type DNA transfer protein VirB5 virB5
AMK03_RS31100 (AMK03_PE00671) 727557..729923 - 2367 WP_097585286 VirB4 family type IV secretion system protein virb4
AMK03_RS31105 (AMK03_PE00672) 729916..730254 - 339 WP_064813121 type IV secretion system protein VirB3 virB3
AMK03_RS31110 (AMK03_PE00673) 730260..730559 - 300 WP_064813123 TrbC/VirB2 family protein virB2
AMK03_RS31115 (AMK03_PE00674) 730556..731222 - 667 Protein_693 lytic transglycosylase domain-containing protein -
AMK03_RS32550 (AMK03_PE00675) 731225..731755 - 531 WP_082240410 hypothetical protein -
AMK03_RS31120 (AMK03_PE00676) 731857..732228 + 372 WP_064813253 hypothetical protein -
AMK03_RS31125 (AMK03_PE00677) 732617..733807 - 1191 WP_064813127 hypothetical protein -

Host bacterium

ID   3197 GenBank   NZ_CP013600
Plasmid name   pRspN741e Incompatibility group   -
Plasmid size   752910 bp Coordinate of oriT [Strand]   709453..709481 [-]
Host baterium   Rhizobium sp. N741

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   hupE2
Degradation gene   -
Symbiosis gene   fixB, fixA
Anti-CRISPR   -