Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102786
Name   oriT_pBSY240_1 in_silico
Organism   Agrobacterium sp. RAC06
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP016500 (230328..230365 [+], 38 nt)
oriT length   38 nt
IRs (inverted repeats)      23..28, 33..38  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 38 nt

>oriT_pBSY240_1
GGTTCCGAAGGGCGCAATTATACGTCGCTGACGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2058 GenBank   WP_069044273
Name   traA_BSY240_RS23085_pBSY240_1 insolico UniProt ID   _
Length   1134 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1134 a.a.        Molecular weight: 126207.70 Da        Isoelectric Point: 10.1997

>WP_069044273.1 Ti-type conjugative transfer relaxase TraA [Agrobacterium sp. RAC06]
MAVPHFSVSIVARGSGRSAVMSAAYRHCARMNFEREARRIDYTRKQGLRHEEFVIPADAPDWLCKMIGDR
SVAGASEAFWNHVETFEKRVDAQLAKDVTIALPVELSTTQNIQLMREFVEAFITSKGMVADWVYHDVPGN
PHVHLMTTLRPLTEDGFGAKKRTVLLPDGRPLRNDAGKIVYEVWAGGTEDFNALRDGWFSCLNRHLMLAG
LDLHVDGRSFKKQGIELQPTLHIGVGATAVDRKSQAVHARETVALPAGLPVPEAAPAPLSAPIKVAGSAA
HRRELERIALQEEVRAHNLRRIEENPRLVLDRVTREKSVFDERDVAKVLHRYLDDAAQFQGLMTRIMQHP
DILRLDQERIDFSSGMRRPARLTTRQMIRLEARMANQAIWLSEKSAFDVGRTRREKALSNFPRLSDEQKA
AISHVTAASRIALVIGRAGAGKTTMMKAAREVWEAAGYQVVGAALAGKAAEGLEKEAGIVSRTLSSWELR
WDGGKNHLDQKTIMVLDEAGMVSSRQMALLVQEATLRGAKLVLIGDPEQLQPIEAGAAFRAIADRIGYAE
LETIYRQYQPWMREASLDLAHGHVEQAVASYAKQGRVLGSETKAEAVRRLIADWDRDYDPGCSSLILAHL
RRDVRLLNQLARERLVERGIVEPGYRFKTEEGIRLFAAGDQIVFLKNDAVLGVKNGLLAKVIAAGPGLIT
AEIGAGADRRLVRIDERLYGNLDHGYATTIHKSQGATVEQVKVLASLSLDRHLTYVAMTRHRQELSVYYG
RRSFKKAGGLGRVLSRKNAKETTLDYEENSFYRAALRFAEARGLHLLDVARMLVRDRLEWTCRQKERLTE
LGSRLIAIAGRLRQKQSVMAAVQTPSGPVKPMVSGITAFAKSISQAVEEKLAVDPGLKQQWQEVLARFAK
VYRDPETAFRALQIDAMMKDPEAARLKLDRVAKAPESFGELNGMSGLFASTRQKQARDVAFANAPALSRH
LERYLQAHAEAELRFKQDEHAIRQRASLEIPGLSTAAMEILSRLEARLDRQQSPRGLGAPEIAGIVRAEL
ERFAEAVATRFGERTLLSLAAKNADGEVFHKLTAGMNQAQKSEVQAAWMAMRTSQQHSVAERLTKGQRQV
EGLRQTQSKGLSLK

  Protein domains


Predicted by InterproScan.

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

(890-986)

AAA domain (AAA_30)

(414-598)

MobA/MobL family (MobA_MobL)

(17-243)


  Protein structure



No available structure.




T4CP

ID   1714 GenBank   WP_069044271
Name   traG_BSY240_RS23070_pBSY240_1 insolico UniProt ID   _
Length   645 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 645 a.a.        Molecular weight: 70157.31 Da        Isoelectric Point: 9.6936

>WP_069044271.1 Ti-type conjugative transfer system protein TraG [Agrobacterium sp. RAC06]
MTPIRIFIATAAAAMMGLCALVLPLVISPWHLSFGGSDRTRIILDHVSAILPYAAAAVSGLVMLFAARGA
LSIKAAGWGVAAGAILVLLFDVAAKSSRHFSSSGANAFDASGFFRLDVATAIGPVLLALCGGFAMRVAVR
GNAAFQRREPKRIRGRRALHGDADWMSLTKAAKLFGEGGGIVIGECYRVDHDSAASIAFRTDNEATWGAG
GRSKLLCFDASFGSTHGIAFAGSGGFKTTSVTIPTALKWDGTLIVLDPSNEVAPVVEEHRKTYGRDVFVL
NPKDPTVGFNALDWIGRHSTSKEEDIAAVASWIMSESGRASSHRDDFFRASALQLLTAVIADVCLSGHTD
KRNQNLRTVRANLSEPEPKLRARLERIHATSQSEFVKENVATFVNMTPETFSGVYANAIKETHWLSYPNY
AALVSGSTFATDDLANGKTDIFIALDLKSLEMHAGLARVMIGTFLNAIYGRDGAMPGRALFLLDEVARLG
FMRILETARDAGRKYGISLILLYQSIGQMRESFGGRDAASKWFESASWISFSAINDPETADYISRRCGMT
TVEIDKISRSFQAKGTSRTRSTQLASRPLILPHEVLQMRADEQIIFTSGNPPLRCGRALWFRRSEMRTCL
DQSRFGKAREHQNIR

  Protein domains


Predicted by InterproScan.

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

(165-635)

  Protein structure



No available structure.



ID   1715 GenBank   WP_069044338
Name   t4cp2_BSY240_RS23460_pBSY240_1 insolico UniProt ID   _
Length   816 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 816 a.a.        Molecular weight: 90966.59 Da        Isoelectric Point: 6.4166

>WP_069044338.1 conjugal transfer protein TrbE [Agrobacterium sp. RAC06]
MVGLSRFRHHGPSFADLMPYAALIEDGTLLLKDGSLLAGWYFFGPDTESATAYERNRISHEINSIISKLG
SGWMLQVDSLRVPSAGYHDRDRSHFPDTVSRAIDEERRRHFAVQDRHFESRQSLVLTYKPGHQAGEGLSQ
FVFSSDGAAKAGPADRALAAFSNAIREIEQYLSATISLQKMQAHRLNEAFGLREARFDSLLQFVRFCISG
ENMPVRLPDVGMYLDCILTAQMEHGTTPKLDDRHIGVVAIDGFPSQSWPGILNSLDQMPLSYRWSSRFIF
LDAHDARRRLEQKRRRWQQKVRPFLDQLFQTQGRSLDQDAAAMVAETETAIAQANSGLVAFGYYTSVIIL
FDDAPDRLLENAELVRRMIQAEGFGARIETLNATEAYLGSLPGNWYANVRDPLINTSNLSDLLPVNSVWT
GETTAPCPFYPSDAPALIQVASGSTPFHFNLHHEDVGHTLIFGPTGSGKSTLLALIAAQFRRYRDAQVFA
FDKGMSLMPLTRAVGGDHHEIGGEEHGRASLSFCPLADLESDADQAFAAEFIEMLLVFQGVTVTPLHRNA
IAHQITLMAASSGRSLSDFVSGVQLRDIKDGLKHYTIDGPMGHLMDAEMDTLAFQSFQCIELEALMSMGE
RNLVPVLVHLFRRIEKRLTGAPSLIILDEAWLMLGHQVFREKIREWLKVLRKANCAVILATQSISDAERS
GIVDVLIESCPTKICLANPAAQTTSMASFYERLGFNQRQIEIIATARPKRDYYCVTPKGRRLFEMALGPL
TLAFTGVSDAEQIRTIKTLFQAHGSDWPRHWLSLKGETDALSLLDC

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(592-743)

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(186-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 301429..310983

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BSY240_RS23405 (BSY240_4753) 296800..297009 + 210 WP_069044328 hypothetical protein -
BSY240_RS23410 (BSY240_4754) 297024..298472 - 1449 WP_236759404 amidohydrolase family protein -
BSY240_RS23415 (BSY240_4755) 298469..299203 - 735 WP_069044330 response regulator transcription factor -
BSY240_RS23420 (BSY240_4756) 299341..300288 + 948 WP_150127586 response regulator transcription factor -
BSY240_RS23425 (BSY240_4757) 300608..301324 + 717 WP_069044332 autoinducer binding domain-containing protein -
BSY240_RS23430 (BSY240_4758) 301429..302763 - 1335 WP_069044333 IncP-type conjugal transfer protein TrbI virB10
BSY240_RS23435 (BSY240_4759) 302760..303248 - 489 WP_150127587 hypothetical protein -
BSY240_RS23440 (BSY240_4760) 303298..304122 - 825 WP_236759405 P-type conjugative transfer protein TrbG virB9
BSY240_RS23445 (BSY240_4761) 304181..304846 - 666 WP_069044336 conjugal transfer protein TrbF virB8
BSY240_RS23450 (BSY240_4762) 304846..306024 - 1179 WP_083229802 P-type conjugative transfer protein TrbL virB6
BSY240_RS23455 (BSY240_4763) 306084..306830 - 747 WP_236759421 P-type conjugative transfer protein TrbJ virB5
BSY240_RS23460 (BSY240_4764) 306877..309327 - 2451 WP_069044338 conjugal transfer protein TrbE virb4
BSY240_RS23465 (BSY240_4765) 309342..309638 - 297 WP_069044373 conjugal transfer protein TrbD virB3
BSY240_RS23470 (BSY240_4766) 309638..310012 - 375 WP_236759422 TrbC/VirB2 family protein virB2
BSY240_RS23475 (BSY240_4767) 310048..310983 - 936 WP_069044339 P-type conjugative transfer ATPase TrbB virB11
BSY240_RS23480 (BSY240_4768) 310980..311852 - 873 WP_236759406 acyl-homoserine-lactone synthase -
BSY240_RS23485 (BSY240_4769) 312064..313251 + 1188 WP_069044341 plasmid partitioning protein RepA -
BSY240_RS23490 (BSY240_4770) 313326..314303 + 978 WP_069044342 plasmid partitioning protein RepB -
BSY240_RS23495 (BSY240_4771) 314468..315682 + 1215 WP_069044343 plasmid replication protein RepC -

Host bacterium

ID   3229 GenBank   NZ_CP016500
Plasmid name   pBSY240_1 Incompatibility group   -
Plasmid size   323507 bp Coordinate of oriT [Strand]   230328..230365 [+]
Host baterium   Agrobacterium sp. RAC06

Cargo genes

Drug resistance gene   -
Virulence gene   tviB, bplB, bplC
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -