oriTDB

The information of the oriT region

oriTDB accession number	100098
Name	oriT_pVCR94deltaX
Sequence Completeness	intact
oriT length	551 nt
oriT sequence	CCCAAAAGGGGCATATAGGTTGCTTTTCGGTGGCTTTTTGATCGTTGAGTAAGGGAACCT ATGGGAACGCTGCACGGATAGGCTCAGATAAACAGACCTTACCCTCGCATCGAGAACCGC TTGCCCTCCAGCATCGAGAGACGGTGGTAAAGAGGCATTTGGAATCTTTGATGCCATATC CAATATATCTGGAATCTTTAAATATAGATTCATATGTAAAGAGGCTGTGAAAGAATAAGA GCATCAAGATTCCAGATAGATAGAGGGAAATTTGACAAATTCCAAAGATGGGTTAGCCTA GTGACAGAACTAGATTCCAGTATTGGAATAATCAGCTTTAAATTCCAGATAGATAGTTAT GTGGATAGGAATTGGATAGGAATTGGGAGGGTATTGAG
IR (inverted repeat)	IR1: [62-70] [71-79] nt (AACCCTTTC..GACAGGGTT) IR2: [143-150] [154-161] nt (TGGCCTGC..GGAGGCCA)
Location of nic site	_
Conserved sequence flanking the nic site	_
Note	_
	L: 62-70;R:71-79;L:143-150;R:154-161

Visualization of oriT structure (The oriT was characterized experimentally)

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

1

CCCAAAAGGGGCATATAGGTTGCTTTTCGGTGGCTTTTTGATCGTTGAGTAAGGGAACCT

61

ATGGGAACGCTGCACGGATAGGCTCAGATAAACAGACCTTACCCTCGCATCGAGAACCGC

121

TTGCCCTCCAGCATCGAGAGACGGTGGTAAAGAGGCATTTGGAATCTTTGATGCCATATC

181

CAATATATCTGGAATCTTTAAATATAGATTCATATGTAAAGAGGCTGTGAAAGAATAAGA

241

GCATCAAGATTCCAGATAGATAGAGGGAAATTTGACAAATTCCAAAGATGGGTTAGCCTA

301

GTGACAGAACTAGATTCCAGTATTGGAATAATCAGCTTTAAATTCCAGATAGATAGTTAT

361

GTGGATAGGAATTGGATAGGAATTGGGAGGGTATTGAG

Reference

[1] Carraro N et al (2014) Development of pVCR94ΔX from Vibrio cholerae, a prototype for studying multidrug resistant IncA/C conjugative plasmids. Front Microbiol. 0.238888889. [PMID:24567731]

I. Information of Relaxase

ID	93
Name	TraI_pVCR94deltaX
GenBank accession number	AHC56417
Family	MOB_H
Length	992 aa
UniProt ID	V9SHT5
PDB ID	_
Pfam	TraI_2 [PF07514.10], Evalue: 6.50E-102, Aligned region: 44..362
Note	conjugative element relaxase
Protein sequence [Download]	MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAEL IEKVRNSLGFTVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQ ASESVIFSIEGTPRERRDNEPRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSES LHDWAHRHEIDRYFIRWRDKRHKRHEQFSLLAVDRIIPAETREFLSKSGPSIMEAMLEAI SGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVPVERYVFDAIRRLVKTGKWKV NEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIERGFAVPNTVQE KGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQ KDAGPTESSKPDAGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLAND NPLQALKDVGGGLGDIDFPFDAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQE QNSLQGDDFPMFGGSDEPPSWAIEPLPMLTDAPEQPTHTPEMPHTDNVNQHEKDAKTLLV EMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILYPDGARSLGAPSEVLSKLS HANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDAFELVSPPG LDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ RKPVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKD INAEDFLPSGVTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGI SKHILCGMLSRAQRRPLLKKRQGKLYLEVNET

Reference

[1] Carraro N et al (2014) Development of pVCR94ΔX from Vibrio cholerae, a prototype for studying multidrug resistant IncA/C conjugative plasmids. Front Microbiol. 0.238888889. [PMID:24567731]

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

#	ID	Name	GenBank	Length	Note
1	134	TraJ_pVCR94deltaX	AHC56420	209 aa	_

Information of T4CP

ID	93
Name	TraD_pVCR94deltaX
SecReT4 accesion number	_
GenBank accession number	AHC56418
Family	TrwB/TraD
Length	621
UniProt ID	V9SIV0
PDB ID	_
Pfam	TrwB_AAD_bind [PF10412.8], Evalue: 1.40E-08, Aligned region: 163..341 TraG-D_C [PF12696.6], Evalue: 9.40E-13, Aligned region: 471..599 AAA_10 [PF12846.6], Evalue: 2.40E-08, Aligned region: 161..284 DUF87 [PF01935.16], Evalue: 2.00E-06, Aligned region: 168..379
Note	conjugative coupling factor TraD
Protein sequence [Download]	MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMA RLPKAIKLHLLQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILK RDWTSIVGRESTVKKVVRKIQGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGT TGSGKTRMFDILISQAILRGEAVIIIDPKGDKEMRDNARRACEAMGQPERFVSFHPAFPE ESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQALNNIAQGLVITHDRPNLTK LRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKVKNGSREKIAFALMKFYYDIIQ PEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAA EVINDPFIQLLNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGE TQEYIADNLPKTRLKYVMRTQGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNL EYIAKISGGTIVKGRLPILTQ

Reference
N/A

Information of plasmid

ID	93
Plasmid name	pVCR94deltaX
GenBank accession number	KF551948.1
Incompatibility group	IncA/C
Genome size	120572 bp
Coordinate of oriT [Strand]	39954..40504 [+]
Drug resistance	resistance to sulfamethoxazole
Heavy-metal resistance	_
Virulence factor	_
Xenobiotic degradation	_
Host bacterium [NCBI Taxonomy ID]	Vibrio cholerae BI144 [666]

Reference

[1] Carraro N et al (2014) Development of pVCR94ΔX from Vibrio cholerae, a prototype for studying multidrug resistant IncA/C conjugative plasmids. Front Microbiol. 0.238888889. [PMID:24567731]