Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100005
Name   oriTβ_R6K experimental
Organism   E. coli
Sequence Completeness      incomplete
NCBI accession of oriT (coordinates [strand])   X05645 ( , 19 nt)
oriT length   19 nt
IRs (inverted repeats)     _
Location of nic site      13..14
Conserved sequence flanking the
  nic site    		  TATCCTG|C
Note   Plasmid R6K has a dual functional oriT system, which can assemble simultaneously in relaxosomes in vivo [PMID:9218765, PMID:8757282].

  oriT sequence  


Download         Length: 19 nt

>oriTβ_R6K
TTGCCCTATCCTGCATCGC

Visualization of oriT structure (The oriT was characterized experimentally)

  oriT secondary structure

Predicted by RNAfold.

Download structure file

  Reference


[1] Núñez B et al. (1997) Genes involved in conjugative DNA processing of plasmid R6K. Mol Microbiol. 24(6):1157-68. [PMID:9218765]
[2] Avila P et al. (1996) Plasmid R6K contains two functional oriTs which can assemble simultaneously in relaxosomes in vivo. J Mol Biol. 261(2):135-43. [PMID:8757282]


Relaxase

ID   4 GenBank   CAA64780
Name   TaxC_R6K experimental UniProt ID   P71232
Length   385 a.a. PDB ID   
Note   relaxase

  Relaxase protein sequence


Download         Length: 385 a.a.        Molecular weight: 44116.51 Da        Isoelectric Point: 10.6306

>CAA64780.1 nickase (plasmid) [Escherichia coli]
MGVFVEKDYRVKRKSSENGRKSAFAHKVKNGGENYKKNVREKINRKGASKEVVVKISGGAVTRQGIKNSI
DYMSRESQLSVMNESGQVWQGEEIKEAKEHMVDAANDAQHVHDDKGRENKKITQNIVFSPPVSAKVKPEG
LLDSVRKTLNKKYPNNRFVLGYHEDKKEHPHVHVVFRIKDTDGKRTDIKKKDLREIRTGFCNELILKGYD
VKATHKQTQGLNQSIKDRHASAPKRQKGVYEVVDVGYDHYQHDKSNPKQHFLKLKTLNKGVEKTYWGAGF
GDLVQRESVKKGDLVKLKKLGQKEVKIPALDKNGIQQGWKTAHRNDWQLQNLGVKGIDRKLSNDKSFKLD
DISSIQKQQQQMKKFNLVKQNMLQSQQKIKVGIKF

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB P71232

  Reference


[1] Núñez B et al. (1997) Genes involved in conjugative DNA processing of plasmid R6K. Mol Microbiol. 24(6):1157-68. [PMID:9218765]


T4CP

ID   4 GenBank   CAA71845
Name   TaxB_R6K experimental UniProt ID   O32582
Length   610 a.a. PDB ID   _
Note   Type IV Secretion System Coupling Protein

  T4CP protein sequence


Download         Length: 610 a.a.        Molecular weight: 69175.03 Da        Isoelectric Point: 8.0871

>CAA71845.1 TaxB (plasmid) [Escherichia coli]
MSLKLPDKGQWAFIILVMCLIAYYTGSVAIYFFNHKTPLYIWKHYDSLLLWRVIIDSSIKSEVRFTALPS
LLSGALASLAAPAFIIWKLNQKDAPLFGDAKFASDSDLKKSKLLKWEKENDTDILVGRYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNMLVKKHSIIALDPKQELWKITSKVREQILGNKVYLLDPFNTKTHKCNPLF
YVDLKSESGAKDLLKLVEILFPSFGLTGAEAHFNNLAGQYWTGLAKLLHFFINFAPEWIEELRVKPVFSI
GTVVDLYSNIDREQVLSNRETFEELAQGNETALFHLKDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRNALTYDFDLRQMRREDITVYVGVNAEDMILAYDFLNLFFNLVVEVTLRENPDFDPTLKHDCLLFLD
EFPSIGYMPIIKKGSGYIAGYKLKLLTIYQNISQLNEIYGTEGAKTLLSAHPCRVIYAVSEEDDAKKISE
KLGYITARSKGSSKTSGKATSRSNSENEAQRALVLPQELGTLDFSEEMIILKGEHPVKAEKALYYLDNYF
MERLMLVSPKLTALTASINRSNKIFGVKGIKYPSKEKMLSVGELESEVLL

  Protein domains


Predicted by InterproScan.

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

(102-580)

  Protein structure


Source ID Structure
AlphaFold DB O32582

  Reference


[1] Núñez B et al. (1997) Genes involved in conjugative DNA processing of plasmid R6K. Mol Microbiol. 24(6):1157-68. [PMID:9218765]


Host bacterium

ID   4 GenBank   X05645
Plasmid name   R6K Incompatibility group   IncX (IncX2)
Plasmid size   532 bp Coordinate of oriT [Strand]   _
Host baterium   E. coli

Cargo genes

Drug resistance gene   resistance to ampicillin and streptomycin
Virulence gene   _
Metal resistance gene   _
Degradation gene   _
Symbiosis gene   -
Anti-CRISPR   -