oriTDB
The information of the oriT region
oriTDB accession number 100004
Name oriTα_R6K  experimental
Sequence Completeness incomplete
oriT length 19 nt
oriT sequence TTGCCCTATCCTGCATCGC
IR (inverted repeat)_
Location of nic site [13-14] nt
Conserved sequence flanking the
  nic site
TATCCTG|C
Note _
D:13-14
Visualization of oriT structure (The oriT was characterized experimentally)
Reference
[1] 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]
[2] Núñez B et al (1997) Genes involved in conjugative DNA processing of plasmid R6K. Mol Microbiol. 24(6):1157-68. [PMID:9218765]
I. Information of Relaxase
ID 4
Name TaxC_R6K experimental
GenBank accession number CAA64780
Family MOBP
Length 385 aa
UniProt ID P71232
PDB ID _
Pfam
Note relaxase
Protein sequence [Download] MGVFVEKDYRVKRKSSENGRKSAFAHKVKNGGENYKKNVREKINRKGASKEVVVKISGGA
VTRQGIKNSIDYMSRESQLSVMNESGQVWQGEEIKEAKEHMVDAANDAQHVHDDKGRENK
KITQNIVFSPPVSAKVKPEGLLDSVRKTLNKKYPNNRFVLGYHEDKKEHPHVHVVFRIKD
TDGKRTDIKKKDLREIRTGFCNELILKGYDVKATHKQTQGLNQSIKDRHASAPKRQKGVY
EVVDVGYDHYQHDKSNPKQHFLKLKTLNKGVEKTYWGAGFGDLVQRESVKKGDLVKLKKL
GQKEVKIPALDKNGIQQGWKTAHRNDWQLQNLGVKGIDRKLSNDKSFKLDDISSIQKQQQ
QMKKFNLVKQNMLQSQQKIKVGIKF
Reference
[1] Núñez B et al (1997) Genes involved in conjugative DNA processing of plasmid R6K. Mol Microbiol. 24(6):1157-68. [PMID:9218765]


II. Auxiliary DNA-binding protein(s) of the relaxosome
# ID Name GenBank Length Note
1 9 _ insolico _ _ TaxA_R6K
Information of T4CP
ID 4
Name TaxB_R6K experimental
SecReT4 accesion number _
GenBank accession number CAA71845
Family VirD4/TraG
Length 610
UniProt ID O32582
PDB ID _
Pfam T4SS-DNA_transf [PF02534.13], Evalue: 2.10E-158, Aligned region: 101..581
TraG-D_C [PF12696.6], Evalue: 8.80E-26, Aligned region: 414..534
TrwB_AAD_bind [PF10412.8], Evalue: 9.80E-19, Aligned region: 278..549
Note Type IV Secretion System Coupling Protein
Protein sequence [Download] MSLKLPDKGQWAFIILVMCLIAYYTGSVAIYFFNHKTPLYIWKHYDSLLLWRVIIDSSIK
SEVRFTALPSLLSGALASLAAPAFIIWKLNQKDAPLFGDAKFASDSDLKKSKLLKWEKEN
DTDILVGRYKGKYLWYTAPDFVSLGAGTRAGKGAAIGIPNMLVKKHSIIALDPKQELWKI
TSKVREQILGNKVYLLDPFNTKTHKCNPLFYVDLKSESGAKDLLKLVEILFPSFGLTGAE
AHFNNLAGQYWTGLAKLLHFFINFAPEWIEELRVKPVFSIGTVVDLYSNIDREQVLSNRE
TFEELAQGNETALFHLKDALTKIREYHETEDEQRSSIDGSFRKKMSLFYLPTVRNALTYD
FDLRQMRREDITVYVGVNAEDMILAYDFLNLFFNLVVEVTLRENPDFDPTLKHDCLLFLD
EFPSIGYMPIIKKGSGYIAGYKLKLLTIYQNISQLNEIYGTEGAKTLLSAHPCRVIYAVS
EEDDAKKISEKLGYITARSKGSSKTSGKATSRSNSENEAQRALVLPQELGTLDFSEEMII
LKGEHPVKAEKALYYLDNYFMERLMLVSPKLTALTASINRSNKIFGVKGIKYPSKEKMLS
VGELESEVLL

Reference
[1] Núñez B et al (1997) Genes involved in conjugative DNA processing of plasmid R6K. Mol Microbiol. 24(6):1157-68. [PMID:9218765]
Information of plasmid
ID 4
Plasmid name R6K
GenBank accession number X05645.1
Incompatibility group IncX (IncX2)
Genome size 38.8 kb
Coordinate of oriT  [Strand] _
Drug resistance experimental resistance to ampicillin and streptomycin
Heavy-metal resistance _
Virulence factor _
Xenobiotic degradation _
Host bacterium [NCBI Taxonomy ID] Escherichia coli [562]
Reference
[1] Kontomichalou P et al (1970) Circular R-factor molecules controlling penicillinase synthesis, replicating in Escherichia coli under either relaxed or stringent control. J Bacteriol. 104(1):34-44. [PMID:4919751]