oriTDB

The information of the oriT region

oriTDB accession number	100005
Name	oriTβ_R6K
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)

1...5....10....15....20....25....30....35....40....45....50....55....60

1

TTGCCCTATCCTGCATCGC

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
GenBank accession number	CAA64780
Family	MOB_P
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	_	_	_	TaxA_R6K

Information of T4CP

ID	4
Name	TaxB_R6K
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	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]