oriTDB

The information of the oriT region

oriTDB accession number	100007
Name	oriT_pED208
Sequence Completeness	intact
oriT length	360 nt
oriT sequence	GGATTATCAATAGTCACATGTGAATCGGCCATTTATTTTATTAGAGTCAGTCTGGATTCA CCAACTTCATACAGGCGAATCTGTTATACCGAAATTAGGGATTCGAATCCAGATTCGAAT CTTTAATTTATCTTAATTTAGTGGTCTGATTCGTAGATGAATCTGGATTCGACTCCTTTA CGATTCACTAAAGATTTGCATATGAATCTAGTATCTATGTCGGACATAGAATAACAATAA AAATATTAACGTAATACACTGAAAATAAAGGATAATCATGCAAGATTAAATCTTGCGACG GGTGTGGGACTTTGATGTTAAGGAGCAGGCATACAGAAATATGTCAGCCAGGAGGAATTC
IR (inverted repeat)	[280-287] [289-296] nt (GCAAGATT..AATCTTGC)
Location of nic site	[305-306] nt
Conserved sequence flanking the nic site	GACGGGTGT\|GG
Note	_
	L:280-287;R:289-296;D:305-306

Visualization of oriT structure

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

1

GGATTATCAATAGTCACATGTGAATCGGCCATTTATTTTATTAGAGTCAGTCTGGATTCA

61

CCAACTTCATACAGGCGAATCTGTTATACCGAAATTAGGGATTCGAATCCAGATTCGAAT

121

CTTTAATTTATCTTAATTTAGTGGTCTGATTCGTAGATGAATCTGGATTCGACTCCTTTA

181

CGATTCACTAAAGATTTGCATATGAATCTAGTATCTATGTCGGACATAGAATAACAATAA

241

AAATATTAACGTAATACACTGAAAATAAAGGATAATCATGCAAGATTAAATCTTGCGACG

301

GGTGTGGGACTTTGATGTTAAGGAGCAGGCATACAGAAATATGTCAGCCAGGAGGAATTC

Reference

[1] Lu J et al (2002) Analysis and characterization of the IncFV plasmid pED208 transfer region. Plasmid. 48(1):24-37. [PMID:12206753]

[2] Di Laurenzio L et al (1991) Characterization of the oriT region of the IncFV plasmid pED208. Mol Microbiol. 5(7):1779-90. [PMID:1943709]

I. Information of Relaxase

ID	6
Name	TraI_pED208
GenBank accession number	AAM90727
Family	MOB_F
Length	1767 aa
UniProt ID	Q8KNJ9
PDB ID	_
Pfam	TrwC [PF08751.10], Evalue: 2.20E-71, Aligned region: 7..280 TraI [PF07057.10], Evalue: 4.60E-46, Aligned region: 1441..1562 AAA_30 [PF13604.5], Evalue: 2.50E-34, Aligned region: 970..1162 AAA_19 [PF13245.5], Evalue: 7.80E-10, Aligned region: 975..1111
Note	OriT nicking and unwinding; similar to TraI of plasmid F
Protein sequence [Download]	MLSISSIKGDAGYYSHEDNYYASGSLDSRWMGEGAEKLGLKGEVASADMDAVRQGRLPDG SDLSRMVDGVNKHRSGYDLTFSAPKSVSVMALIGEDRRFIEAHNRAVAVVMQEVEQLVSA RITQEGKTETVLTGSMVAALYNHDTSRDLDPQVHTHALVFNATFADEKWRSLASDTRMKT GFSENLYATKIALGNLYRSALREDIESMGFETVAAGKHGLWELKDVPVDIFSSRSQAIRE AAGPDASAKSRDVAALDTRQAKAWADPDLLKAEWRRRLTDEKFDIDNYISQAQARVEVSG PVVAGQGGISASGQPGIASSGEAADELVQKAVGDTISALSDKKVQFTWSEMLAGTVSRLP SAPGLFEQARAGIEAAIEGQRLIPLDREKGIFTSDIHLLNELSVHQLARTAVAEQTVLVF PERAQERNIPAGDAVSVLSQDKSPVAILSCRGGAQALRERTEDVAMMARSQGREVMVIAA DGRSGQFLSESPQLAGQVMLRSQINADTVLPVQGTVIVDRAERLSLKETVLLQEKALSAG AQLIFMDTENRQGTGNALSVLKEADIPQYRFYGTQLPEVRLVSEADKRSRYSQLAQDYVR LSAEGRDVVAQVTGTREQQQLTEIIRDTRREAGELGREQVTLRVLEPVWLDSKTRHQRDN YRPGMVMEQWDAEKKTMTRHTIDRVAEATNSLVLQGEDGTRLTLKVTQLDGSWSLYRSRT LEVSEGDRVRALGRELKGAIKAKEQFTVAGLENGAVRLRSGDRELRLPTERAVKLTHDYV EGTGAGTSASRTVLAAVGPRGLNKQTLNALAQSGSDIRIYTPLTPEQAARKVESVSAVRL ASDQVRQSTGEANLDTAIQASRERLMSDAEQAVNLAIPSAQQGQVYLSELTLLAEAVKSG QPLADVRAEIARQVDSGALIKLDSVAGAGNRVLVPRVAYEMEKTIIRHIAEGKEAVQPLM ALTPASVLAGLTAGQREATRTVLENTDRFMAIQGYAGVGKTTQFRAVMGALNTLSESVRP QVIGLGPTHRAVHEMREAGVDARTLASFLSETRLAIQAGETPDFRNVLFLTDESSMVGNR DMAELYQLVAAGGGRMVSSGDTAQLQAISTGLPFRLVQQRSAIDTVVMQEIVRQTPALRP AIESIIAGQVEISLRQVDDVTPQQVPRQPGAWVPDNSVMEIRAPKKEQDQVQNIPVAGEQ TLTPEQLALVRTDIIEAIRDDWMGRTPEAQQQTLVVAELNADRHAINEAIHTARHEKGDT GAEERTFTVLEPLRVPDNALRAAETFAEYTGAVAMMNERYWTVAEVDTQDAVVTLRNADG ESVLISPQQNTAQDISLFTPRDLTISQGDRVRFTRSDTDRGYVANSLWEVAGFTDEGAIR FRQGDQEKIVDPQAMTEDRHIDLAYALTVYGVQGASERFAIALTGTEGGRKRMASLESTY VTLSRAKEHVQVYTDDLAGWSADARHSNAGQTAHDLLHQKSDHESDTGNRLLATASRLDK TALGRRVLAENGLEGETMARFIAAGKKYPSPYVALPAWTRHGKAAGALLTEIRIEDDGMR VVLSDESRLRGGEDAQFAGLQASRNGQTLIADDAQTALRLAQENPESGVVIRLHGEERLL NAARLTGGRITEPDEVERTVRSVAEAESAAKAEDPITLPPDEQQKLAEAQEKAAQELAEQ ARQDLLPALPGTEGDKPDPLLSASDERRLRDGTERETRELDEAVREAVAEGREPRQQVRD QMQRTEREWVVNVPEKEIELEKTLGGD

Reference

[1] Lu J et al (2002) Analysis and characterization of the IncFV plasmid pED208 transfer region. Plasmid. 48(1):24-37. [PMID:12206753]

[2] Di Laurenzio L et al (1991) Characterization of the oriT region of the IncFV plasmid pED208. Mol Microbiol. 5(7):1779-90. [PMID:1943709]

II. Auxiliary DNA-binding protein(s) of the relaxosome

#	ID	Name	GenBank	Length	Note
1	11	TraM_pED208	CAA42174	127 aa	TraM mediates signalling between transferosome and relaxosome
2	12	TraY_pED208	CAA42176	20 aa	_

Information of T4CP

ID	6
Name	TraD_pED208
SecReT4 accesion number	_
GenBank accession number	YP_009077548
Family	TrwB/TraD
Length	736
UniProt ID	_
PDB ID	_
Pfam	TrwB_AAD_bind [PF10412.8], Evalue: 1.20E-112, Aligned region: 171..562 TraD_N [PF12615.7], Evalue: 2.70E-20, Aligned region: 31..128 TraG-D_C [PF12696.6], Evalue: 4.50E-18, Aligned region: 420..543 T4SS-DNA_transf [PF02534.13], Evalue: 3.10E-10, Aligned region: 236..573
Note	DNA transport; similar to TraD of plasmid F
Protein sequence [Download]	MSLNPRDLTQGGQVAFMRLKMFLQINNLISYYVIMGTVLFGIAVLLMRMSIQNLTNGIIY WFVRVMSPFTERMVSQPVYNIRYYEHTLQYSARQILSDNYTVYCGQLLKQELVIAGCASL LVAFVATFAVYWYLGRTGRKQSEDEIIGGRVLSESPKDVARLLKKRGEASDIRIDDLPLK LDSEIQNFAMHGTVSTGKSTLMRKNLKQLRDRGDLVIIYDKGCTFVEDFYDESRDEVLNA LDTRCPNWDLWEECRTISELENASTTLIPASSGEDPFWQGSARTIFAEGAERMRKDPDRS YNKFLRTLLAIQLDQLRAFLAGTPASTLVDGKIEKTAISIRSVLTNYVKAMRYLQGIDRP GRDKFTIREWMKGQADKSKNGWLFITSDEQNHESLKPLISLWLSIAATSLLAMGPNRQRR VWFFYDELASLHKLATLPRIISEARKFGGCFALGFQNFAQMENIYGPKGAAEIFDLLNTK FFFRSPSAQIAKFVEEDIGETRRKKFSEQTSFGHEQVRDGISFGKEEERVSIVSYSDVQS LNDLQCFVTLPGSYPVVKLTMKYDSMPKVADALLLRDVQTSLDKNIEDELVRRTEEERLS LDGLFNPVKPVPEKASTVVTPPLPTQTVTASPVPLPAAAAVNTVSTVTTAAGSTAATAVT TEGGSASTGGTERDIEQDLPQDVPPGLNSDGEVVDFAAYEAWAQNSHQTRDMTRREEVNI NHATDKTHEMDDGREY

Reference

[1] Lu J et al (2002) Characterization of the oriT region of the IncFV plasmid pED208. Plasmid. 48(1):24-37. [PMID:12206753]

[2] Di Laurenzio L et al (1991) Characterization of the oriT region of the IncFV plasmid pED208. Mol Microbiol. 5(7):1779-90. [PMID:1943709]

Information of plasmid

ID	6
Plasmid name	pED208
GenBank accession number	AF411480.1
Incompatibility group	IncF(IncFV)
Genome size	32647 bp
Coordinate of oriT [Strand]	1..360 [-]
Drug resistance	_
Heavy-metal resistance	_
Virulence factor	_
Xenobiotic degradation	_
Host bacterium [NCBI Taxonomy ID]	Salmonella enterica serovar Typhi [90370]

Reference
N/A