oriTDB

The information of the oriT region

oriTDB accession number	100034
Name	oriT_pV404
Sequence Completeness	intact
oriT length	83 nt
oriT sequence	CGGGACAGGATGTGTAATTGTAATACCGTCACACGCGACGCTATTACAATTACCATCTGG TCAGGGCTTCGCCCCGACACCCC
IR (inverted repeat)	8-bp: [6-13] [17-24] nt (GTCGGGGC..GCCCTGAC) 17-bp: [31-47] [54-70] nt (GTAATTGTAATAGCGTC..GACGGTATTACAATTAC)
Location of nic site	[78-79] nt
Conserved sequence flanking the nic site	CATCCTG\|T
Note	minimal oriT sequence
	L:6-13;R:17-24;L:31-47;R:54-70;D:78-79

Visualization of oriT structure

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

1

CGGGACAGGATGTGTAATTGTAATACCGTCACACGCGACGCTATTACAATTACCATCTGG

61

TCAGGGCTTCGCCCCGACACCCC

Reference

[1] Riccobono E et al (2014) Complete sequence of pV404, a novel IncI1 plasmid harbouring bla_CTX-M-14 in an original genetic context. Int J Antimicrob Agents. 44(4):374-6. [PMID:25178920]

I. Information of Relaxase

ID	33
Name	NikB_pV404
GenBank accession number	CDW92102
Family	MOB_P
Length	899 aa
UniProt ID	A0A078BC53
PDB ID	_
Pfam	Relaxase [PF03432.13], Evalue: 1.90E-62, Aligned region: 48..315
Note	NikB relaxase
Protein sequence [Download]	MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRNRFSRLVDYATRL RNESFVALVDVMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHY ILSWQAHESPRPEQIYDSVRHTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYL NCLSWSQEKLSRACRELELKHGFAPDNGCWVHAPGNRIVRKTAVERDRQNAWTRGKKQTF REYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMNGKFLVMDGWDRNREGVQLDSFG PSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETESLQQYACRHL GERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKREL FSDKESLWGYSISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHE QTPVKASSIHPDLTLGRAEPQAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDP MLRRQRREARAEARADLRARYLAWREQWRKPDLRYGERCREIHQACRLRKSHIRAQYDDP ALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYPPSYRQWVVIQAAQGDRAAVS QLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGSVRFRDRRTGE FVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

Reference

[1] Riccobono E et al (2014) Complete sequence of pV404, a novel IncI1 plasmid harbouring bla_CTX-M-14 in an original genetic context. Int J Antimicrob Agents. 44(4):374-6. [PMID:25178920]

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

#	ID	Name	GenBank	Length	Note
1	50	NikA_pV404	CDW92101	110 aa	NikA oriT-specific DNA binding protein

Information of T4CP

ID	33
Name	TrbC_pV404
SecReT4 accesion number	_
GenBank accession number	CDW92107
Family	VirD4/TraG
Length	763
UniProt ID	A0A078BC56
PDB ID	_
Pfam
Note	TrbC transfer protein
Protein sequence [Download]	MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITML VFSLQRWRCPLRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQR VRDIGRELWLSMDDLTRHIMFFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTAR TIWYLARRFGREDDVEVINFMNGGKSRSEIILSGEKTRPQSNTWNPFCYSTEAFTAETMQ SMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSLQMLREHMTLEGMAKLYCRGL DDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSETFSTFTEAFG DIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQ TTATNTATLMQNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDS PQISILMESKINVQELIELHPGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISV DAPRLDRLRRLVPRIAQRRIPSPENVSAIIGVLTAKPSRKRRKIRTEPHTIVDTFQQRIA GRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERRIRYITLNRPELPETKEENQI SVRTERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

Reference
N/A

Information of plasmid

ID	33
Plasmid name	pV404
GenBank accession number	LM651376.1
Incompatibility group	IncI1
Genome size	101631 bp
Coordinate of oriT [Strand]	42424..42506 [-]
Drug resistance	beta-lactamase gene bla_CTX-M-14
Heavy-metal resistance	_
Virulence factor	_
Xenobiotic degradation	_
Host bacterium [NCBI Taxonomy ID]	Escherichia coli V404 [562]

Reference

[1] Riccobono E et al (2014) Complete sequence of pV404, a novel IncI1 plasmid harbouring bla_CTX-M-14 in an original genetic context. Int J Antimicrob Agents. 44(4):374-6. [PMID:25178920]