Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100821
Name   oriT_pBSY16_2 in_silico
Organism   Sinorhizobium sp. RAC02
Sequence Completeness      core
NCBI accession of oriT (coordinates [strand])   NZ_CP016451 (167895..167938 [+], 44 nt)
oriT length   44 nt
IRs (inverted repeats)      22..27, 32..37  (CGTCGC..GCGACG)
Location of nic site      11..12
Conserved sequence flanking the
  nic site    		  _
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 44 nt

>oriT_pBSY16_2
GGATCCAAGGGCGCAATTATACGTCGCTGATGCGACGTGCTTGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   893 GenBank   WP_069061854
Name   TraA_pBSY16_2 insolico UniProt ID   _
Length   1100 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1100 a.a.        Molecular weight: 123540.03 Da        Isoelectric Point: 9.8977

>WP_069061854.1 Ti-type conjugative transfer relaxase TraA [Sinorhizobium sp. RAC02]
MAIAHFSASIVSRGGGRSVVLSAAYRHCAKMEYEREARTIDYTRKEGLLHEEFMLPADAPKWVRALIADR
SVAGASEAFWNKVEAFEKRSDAQLARDLTIALPLELTPEQNIALVRDFVAKHIHAKGMVADWVYHDNPGN
PHIHLMTTLRPLTEDGFGSKKVAVIGEHGQPVRTKSGKILYELWAGSTDDFNSLRDGWFERLNHHLALGG
IDLKIDGRSYEKQGIELEPTIHLGVGAKAIERKAQEQGVRPELERIELNEQRRSENARRILRNPGIVLDL
ITREKSVFDARDVAKVLHRYIDDPGLFPQLTARIIQNPEVLRLQRDTIEFSTGEKVPARYSTRAMIRLEA
TMVRQALWLSNRDGHAVSEAALDATFRRHERLSQEQKAAIERIAGSARIAAVVGRAGAGKTTMMKAAREA
WELAGYRVVGGALAGKAAEGLEKEAGIESRTLASWELRWNRGRDVLDNKTVFVMDEAGMVASKQMAGFVD
AVVRGGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREDWMRKASLDLARGNVEKALTAYD
ANVRITGTRLKTEVVERLIGDWNRDYDQTKTTLILAHLRRDVRMLNIMAREKLVERGIVGEGHVFKTADG
VRHFDAGDQIVFLKNEGSLGVKNGMIAHVIEAAPNRIVAVIGEGDQRRQVIVEQRFYSNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHRDDLQLYYGRRSFAFNGGLAKVLSRRNAKETTLDYERGKLY
REALRFAESRGLNIVQVARTLVRDRLDWTLRQKTRLVDLGQRLAVFAERLGLHHPPKTQTMKEAAPMVAG
IKTFSGSVADTVEQKLDTDPALRQQWEEVSTRFAYVFADPETAFRAMNFDAVLADKETAKLALQTLTIAP
ASIGQLRGKTGILASKTEREDRRVADLNVPALKRDLEQYLRMRETAVQRLQADEQALRQRGSIDIPALSP
AAHVVLERVRDAIDRNDLPAAMAYALSNRETRLEIDGFNQAVTDRFGERILLTNAAREPSGTLFDKLSEG
MQPEQKERLKEAWPIMRTAQQLAAHERTVQTLRQAEDLRLAQRQTPVMKQ

  Protein domains


Predicted by InterproScan.

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

(855-951)

AAA domain (AAA_30)

(382-567)

MobA/MobL family (MobA_MobL)

(17-243)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-736)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 12366..22064

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BSY16_RS19895 (BSY16_6073) 7520..8680 + 1161 WP_069061648 acyl-CoA dehydrogenase family protein -
BSY16_RS19900 (BSY16_6074) 8689..9429 + 741 WP_069061649 NAD(P)H-dependent oxidoreductase -
BSY16_RS19905 (BSY16_6075) 9422..10546 + 1125 WP_069061650 CaiB/BaiF CoA-transferase family protein -
BSY16_RS19910 (BSY16_6076) 10585..11427 + 843 WP_069061651 MaoC family dehydratase N-terminal domain-containing protein -
BSY16_RS19915 (BSY16_6077) 11421..12236 + 816 WP_069061652 CoA ester lyase -
BSY16_RS19920 (BSY16_6078) 12366..13688 - 1323 WP_069061653 IncP-type conjugal transfer protein TrbI virB10
BSY16_RS19925 (BSY16_6079) 13700..14176 - 477 WP_069061654 conjugal transfer protein TrbH -
BSY16_RS19930 (BSY16_6080) 14176..15027 - 852 WP_069061844 P-type conjugative transfer protein TrbG virB9
BSY16_RS19935 (BSY16_6081) 15045..15722 - 678 WP_069061655 conjugal transfer protein TrbF virB8
BSY16_RS19940 (BSY16_6082) 15740..16930 - 1191 WP_069061656 P-type conjugative transfer protein TrbL virB6
BSY16_RS19945 (BSY16_6083) 16924..17151 - 228 WP_069061657 entry exclusion protein TrbK -
BSY16_RS19950 (BSY16_6084) 17148..17915 - 768 WP_286157251 P-type conjugative transfer protein TrbJ virB5
BSY16_RS19955 (BSY16_6085) 17929..20397 - 2469 WP_069061659 conjugal transfer protein TrbE virb4
BSY16_RS19960 (BSY16_6086) 20407..20706 - 300 WP_069061660 conjugal transfer protein TrbD virB3
BSY16_RS19965 (BSY16_6087) 20699..21103 - 405 WP_069061661 conjugal transfer pilin TrbC virB2
BSY16_RS19970 (BSY16_6088) 21093..22064 - 972 WP_069061662 P-type conjugative transfer ATPase TrbB virB11
BSY16_RS19975 (BSY16_6089) 22061..22696 - 636 WP_069061663 acyl-homoserine-lactone synthase -
BSY16_RS19980 (BSY16_6090) 23062..24258 + 1197 WP_020046783 plasmid partitioning protein RepA -
BSY16_RS19985 (BSY16_6091) 24361..25320 + 960 WP_069061664 plasmid partitioning protein RepB -
BSY16_RS19990 (BSY16_6092) 25495..26709 + 1215 WP_069061665 plasmid replication protein RepC -

Host bacterium

ID   1281 GenBank   NZ_CP016451
Plasmid name   pBSY16_2 Incompatibility group   _
Plasmid size   258555 bp Coordinate of oriT [Strand]   167895..167938 [+]
Host baterium   Sinorhizobium sp. RAC02

Cargo genes

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