oriTDB

The information of the oriT region

oriTDB accession number	200056
Name	oriT_SXT(MO10)
Sequence Completeness	intact
oriT length	299 nt
oriT sequence	GCTCTGTTTGGCGGCGGATGACCTAGTCAAAAAAATCGAGACGCCAAACGTCGTTTGCAT TCTGGCCTGAACTCGCCAAACGGTTTGTATCTTCATGACGATACGTCGTTTTAGGCGTTT TTAAGTGAAATCGGGCTGTATCCCTTGTCAGGTATGGGATTGCGCGAGTTGATTTATATC GAGACGCCAAACAGTGATTGTTACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCA AACGGATAGTGGTTTTGGCTTTTGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA
IR (inverted repeat)	[178-192] [216-230] nt (ATCGAGACGCCAAAC..GTTTGGCGTTTCGAT)
Location of nic site	_
Conserved sequence flanking the nic site	_
Note	_
	L:178-192;R:216-230

Visualization of oriT structure (The oriT was characterized experimentally)

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

1

GCTCTGTTTGGCGGCGGATGACCTAGTCAAAAAAATCGAGACGCCAAACGTCGTTTGCAT

61

TCTGGCCTGAACTCGCCAAACGGTTTGTATCTTCATGACGATACGTCGTTTTAGGCGTTT

121

TTAAGTGAAATCGGGCTGTATCCCTTGTCAGGTATGGGATTGCGCGAGTTGATTTATATC

181

GAGACGCCAAACAGTGATTGTTACGGCAGTTTTACGTTTGGCGTTTCGATCCAAAAGCCA

241

AACGGATAGTGGTTTTGGCTTTTGGGGTTAATTGGATGGGGAAATTGGTTTGGTAGAAA

Reference

[1] Peters SE et al (1991) Novel mercury resistance determinants carried by IncJ plasmids pMERPH and R391. Mol Gen Genet. 228(1-2):294-9. [PMID:1886614]

[2] Wozniak RA et al (2009) Comparative ICE genomics: insights into the evolution of the SXT/R391 family of ICEs. PLoS Genet. 5(12):e1000786. [PMID:20041216]

[3] Daccord A et al (2010) Integrating conjugative elements of the SXT/R391 family trigger the excision and drive the mobilization of a new class of Vibrio genomic islands. Mol Microbiol. 78(3):576-88. [PMID:20807202]

I. Information of Relaxase

ID	270
Name	TraI_SXT(MO10)
GenBank accession number	AAL59675
Family	MOB_H
Length	716 aa
UniProt ID	Q8KQY3
PDB ID	_
Pfam	TraI_2 [PF07514.10], Evalue: 3.10E-121, Aligned region: 32..355
Note	conjugative relaxase
Protein sequence [Download]	MFKNLFFQAKALPDLSSQLDAEIPRYPPFLKGLPAASPEDLQSTQDELIAKLRQVLGFNL RDFQRLIQPCIDHLAAYVHLLPASEHHHHSGAGGLLRHSLEVAFWAAQAAEGIIFVASGT PVEKKELEPRWRVAAALGGLFHDIGKPVSDLSITDEDGRYQWNPFLETLSQWTTNNSIER YFIRWRDGRCKRHEQFSILVLNRVMTPELLAWLTQPGPEILQAMLEAIGNTDPEHVLSKL VIEADQTSVQRDLKAQRISVDDNALGVPVERYLLDAMRRLLASSQWLVNQRDARVWLRKS NQSTHLYLVWKSAAKDIIELLAKDKIPGIPRDPDTLADILIERGLATKSASNERYESLAP EVLIKDDKPIWLPMLHISEADLLFSSNVPSSVRLFSKSEWEATQKTQEEPQSHSSEHSDL PEASSSIEHRKSDESPSTNSSEQENELRHASDVSNPQATENAPGDECEKPNDSSDADIAN NANQHHAEALNLPESLAWLPEASSALVMVGEQVLIRYPDAVRHWCAPRKLLAELSRLDWL ELDPANLTRKARTVTTNDGVQEQGLLLKVSISKGLTALIDLPKQDAEPAAAIQNEEALQR PSRTETTNAQAKEPATRAERKQKPIAANTNSSTDPKHAQRQQMVNFVKDLPILLTDGDYP DVDHSADGIRVTIQTLRQVANAHGIPAGQLLRGISASDQCQFDEGETVLFTAHAKR

Reference

[1] Ceccarelli D et al (2008) Identification of the origin of transfer (oriT) and a new gene required for mobilization of the SXT/R391 family of integrating conjugative elements. J Bacteriol. 190(15):5328-38. [PMID:18539733]

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

#	ID	Name	GenBank	Length	Note
1	359	_

Information of T4CP

ID	270
Name	TraD_SXT(MO10)
SecReT4 accesion number	_
GenBank accession number	AAL59680
Family	TrwB/TraD
Length	599
UniProt ID	Q8KQY2
PDB ID	_
Pfam	TrwB_AAD_bind [PF10412.8], Evalue: 6.40E-10, Aligned region: 139..367 TrwB_AAD_bind [PF10412.8], Evalue: 1.30E-05, Aligned region: 399..585 TraG-D_C [PF12696.6], Evalue: 2.60E-12, Aligned region: 444..572 AAA_10 [PF12846.6], Evalue: 7.50E-08, Aligned region: 139..284 DUF87 [PF01935.16], Evalue: 4.50E-05, Aligned region: 145..224
Note	_
Protein sequence [Download]

Reference

[1] Ceccarelli D et al (2008) Integrating conjugative elements of the SXT/R391 family trigger the excision and drive the mobilization of a new class of Vibrio genomic islands. J Bacteriol. 190(15):5328-38. [PMID:18539733]

Information of mobile element

ID	64
Element type	contains SXT transposon-like element
ICE description	SXT(MO10)
ICEberg accesion number	44
GenBank accession number	AY055428.1
Family	SXT/R391
Genome size	99483 bp
Coordinate of oriT [+/-]	3516..3814 [+]
Drug resistance	resistance to trimethoprim, sulfamethoxazole, streptomycin, and furazolidone
Heavy-metal resistance	_
Virulence factor	_
Xenobiotic degradation	_
Host bacterium [NCBI Taxonomy ID]	Vibrio cholerae O139 MO10 [666]

Reference

[1] Ceccarelli D et al (2008) Identification of the origin of transfer (oriT) and a new gene required for mobilization of the SXT/R391 family of integrating conjugative elements. J Bacteriol. 190(15):5328-38. [PMID:18539733]

[2] Waldor MK et al (1996) A new type of conjugative transposon encodes resistance to sulfamethoxazole, trimethoprim, and streptomycin in Vibrio cholerae O139. J Bacteriol. 178(14):4157-65. [PMID:8763944]

[3] Daccord A et al (2010) Integrating conjugative elements of the SXT/R391 family trigger the excision and drive the mobilization of a new class of Vibrio genomic islands. Mol Microbiol. 78(3):576-88. [PMID:20807202]