Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117151
Name   oriT_pAtCFBP5507a in_silico
Organism   Agrobacterium salinitolerans strain CFBP5507
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP109970 (53059..53087 [+], 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_pAtCFBP5507a
AGGGCGCAATATACGTCGCTATCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10922 GenBank   WP_137409261
Name   traA_CFBP5507_RS24645_pAtCFBP5507a insolico UniProt ID   _
Length   1545 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1545 a.a.        Molecular weight: 170380.46 Da        Isoelectric Point: 6.7532

>WP_137409261.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [Agrobacterium]
MAIMFVRAQVIGRGAGRSIVSAAAYRHRARMMDEQAGTSFSYRGGASELVHEELALPEGIPAWLMTAIDG
RTVAAASEALWNTVDAFETRADAQLARELIIALPEELTRAENIALVHEFVQDNFTSKGMVADWVYHDKDG
NPHIHLMTTLRPLTEEGFGPKKVAVLGEDGEPLRVVTPDRPNGKIVYKLWAGDKETMKAWKIVWADTANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGVEMYFAPADLARRQDMADRLLAEPELLLKQ
LSGERSTFDEKEIAKALHRYVDDPVDFANIRARLMASDDLVTLKPQVLDPETGKAAEPAVFTTRDMLRIE
YGMAQSARILSERKGFGVSSRKVAAAVDTVETADPEKRFRLDAEQVDAVRHVTGESGIAAVVGLAGAGKS
TLLAAARVAWESDGRRVVGAALAGKAAEGLEDSSGIKSRTLASWELAWASGRDLLERGNVLVIDEAGMVS
SQQMARALKAAEEAEAKVVLVGDAMQLQPIQAGAAFRAISERIGFAELAGVRRQREQWARDASRLFARGE
VEKGLDAYAQHGHLVEADTRDEIVARMVADWTQARNRAIEASVSEGREGRLRGDELLLLAHTNEDVKRLN
EALRSVMIDAGALGDCRSFRTERGEREFAAGDRIIFLENARFVEPRAKSFGPQYVKNGMLGTVVSTGDQR
GDALLSVRLDNGRDVVISENSYHNVDHGYAATIHKSQGSTVDRTLVLATGMMDQHLTYVSMTRHRDGADL
YAAKEDFEARPEWGRRPRADHAAGVTGELVETGNAKFRPDDEDADESPYADLKTDDGTVRRLWGVSLPKA
LEKAGVSESDTITLRKDGVEKVKVQVTVVDEQTGEKRTEEREVDRNVWTAEQKETAAARSKRIEMESHRP
ELFGRLVERLSRSGAKTTTLDFESEEGYGAQAQDFARRRGFDTLSKAAAGMEEGASRRLAWVAEKRELVA
KLWERASVALGFLIERERRASYNEDRAQTVAEGISISGHYLVPPTTQFARSVGEDARLAQLSSLAWMDRE
AILRPLLEKIYRDPVAALSTLNALASGGDVEPRTLAEDLAAAPDRLGRLRGSDLVVDGRIARNERADAMA
ALRELLPLARAHATEFRRQAERFGIREQQRRAHMSLSIPMLSKPATARLVEIERIRERGGDDAHKTAFAY
AVEDRQLVQEVKAVNDALTARFGWSAFTAKADVVAQRNIAERMPEDLAPECREKVLRLFAAVRRFSEEQH
LAEKQDRSKIVAGASIEIGKEAMPILPMLAAVTEFQTPVEEEAHNRAGAVAHYRHHRAALAETATLIWRD
PAGAVGKIEELVGKGFAGERIAAAVSNDPSAYGALRGSDRLMDWLLAPGRERKEALQAVPEAASRVRSLG
ASWATALDAETRAVTEERRRMVVAIPGLSQAAEDALRKLVADVNRQNKDKEKNTRRGVAAGSLEPRVVRE
FAEVSRALDERFGRNAILRGEKDTGNLVSPAQRRAFEAMRERLQVLQRAVRAESTQNIVAERQRRTIERG
RVFTR

  Protein domains


Predicted by InterproScan.

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

(1309-1400)

MobA/MobL family (MobA_MobL)

(17-249)

AAA domain (AAA_30)

(391-578)


  Protein structure



No available structure.




T4CP

ID   12752 GenBank   WP_137409258
Name   traG_CFBP5507_RS24630_pAtCFBP5507a 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: 70624.24 Da        Isoelectric Point: 9.2811

>WP_137409258.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Agrobacterium]
MTIRARPHLSLLLILMPITVTAFAAYVVGWRWPELAAGMSGETQYWFLRASPVPVLLFGPLAGLLTVWAL
PLHRRKPIAMATLICFLSVAGFYGLREFGRLSPSVESGAATWNQALSFIDMVAVVSAVVGFMATAASARI
STVVSEPVKRAKRGTFGDADWLSMSAAGRLFPDDGEIVIGERYRVDREIVHELPFDPNDPSTWGQGGKAP
LLTYRQDFDSTHMLFFAGSGGYKTTSNVIPTALRYSGPLICLDPSTEVAPMVVEHRRERLGRQVMVLDPT
NPIMGFNVLDGIETSKQKEQDIVGIAHMLLSESVRFESSTGSYFQSQAHNLLTGLLAHVMLSPEYAGRRN
LRSLRQIVSEPETSVLAMLRDVQQNSASKFISETLGVFVNMTEQTFSGVYSTASKDTQWLSLDNYAALVC
GNTFRASDLTSGKKDVFLNIPASILRSYPGIGRVIVGSLINAMIDADGAFERRALFMLDEVDLLGYMRVL
EEARDRGRKYGVSMTLLYQSVGQLERHFGKSGAVSWIDGCAFASYAAIKALETARNVSAQCGEMTVEVKG
SSRNIGWDTKNSASRKSESVNFQRRPLIMPHEITQSMRKDEQIIVVQGHSPIRCGRAIYFRRKEMDTQAK
PNRFAKLRP

  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: 6559..16140

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CFBP5507_RS24365 (CFBP5507_24365) 2431..3702 + 1272 WP_137409217 plasmid replication protein RepC -
CFBP5507_RS24370 (CFBP5507_24370) 3901..4212 - 312 WP_210239005 hypothetical protein -
CFBP5507_RS24375 (CFBP5507_24375) 4575..4817 + 243 WP_137409218 hypothetical protein -
CFBP5507_RS24380 (CFBP5507_24380) 5561..5923 - 363 WP_137409219 transcriptional regulator -
CFBP5507_RS24385 (CFBP5507_24385) 6017..6556 + 540 WP_137409220 hypothetical protein -
CFBP5507_RS24390 (CFBP5507_24390) 6559..7239 + 681 WP_137409221 lytic transglycosylase domain-containing protein virB1
CFBP5507_RS24395 (CFBP5507_24395) 7240..7539 + 300 WP_137409222 TrbC/VirB2 family protein virB2
CFBP5507_RS24400 (CFBP5507_24400) 7542..7883 + 342 WP_137409223 type IV secretion system protein VirB3 virB3
CFBP5507_RS24405 (CFBP5507_24405) 7876..10257 + 2382 WP_137409224 VirB4 family type IV secretion/conjugal transfer ATPase virb4
CFBP5507_RS24410 (CFBP5507_24410) 10257..10955 + 699 WP_137409225 P-type DNA transfer protein VirB5 virB5
CFBP5507_RS24415 (CFBP5507_24415) 10952..11185 + 234 WP_137409226 EexN family lipoprotein -
CFBP5507_RS24420 (CFBP5507_24420) 11190..12125 + 936 WP_137409227 type IV secretion system protein virB6
CFBP5507_RS24425 (CFBP5507_24425) 12159..12425 + 267 WP_137409228 hypothetical protein -
CFBP5507_RS24430 (CFBP5507_24430) 12429..13100 + 672 WP_137409229 virB8 family protein virB8
CFBP5507_RS24435 (CFBP5507_24435) 13097..13948 + 852 WP_170985381 P-type conjugative transfer protein VirB9 virB9
CFBP5507_RS24440 (CFBP5507_24440) 13961..15130 + 1170 WP_137409230 type IV secretion system protein VirB10 virB10
CFBP5507_RS24445 (CFBP5507_24445) 15139..16140 + 1002 WP_137409231 P-type DNA transfer ATPase VirB11 virB11
CFBP5507_RS24450 (CFBP5507_24450) 16417..17250 - 834 WP_137409232 SDR family oxidoreductase -
CFBP5507_RS24455 (CFBP5507_24455) 17323..17448 - 126 WP_264673042 hypothetical protein -
CFBP5507_RS24460 (CFBP5507_24460) 17543..18160 + 618 WP_137409448 TetR/AcrR family transcriptional regulator -
CFBP5507_RS24465 (CFBP5507_24465) 18624..18866 - 243 WP_246666499 hypothetical protein -

Host bacterium

ID   17584 GenBank   NZ_CP109970
Plasmid name   pAtCFBP5507a Incompatibility group   -
Plasmid size   343478 bp Coordinate of oriT [Strand]   53059..53087 [+]
Host baterium   Agrobacterium salinitolerans strain CFBP5507

Cargo genes

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