oriTDB

The information of the oriT region

oriTDB accession number	100061
Name	oriT_N3
Sequence Completeness	incomplete
oriT length	48 nt
oriT sequence	TAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGC
IR (inverted repeat)	[1-7] [19-25] nt (TAAATCA..TGATTTA)
Location of nic site	[43-44] nt
Conserved sequence flanking the nic site	GGTGT\|ATAGC
Note	_
	L:1-7;R:19-25;D:43-44

Visualization of oriT structure

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

1

TAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGC

Reference

[1] Humphrey B et al (2012) Fitness of Escherichia coli strains carrying expressed and partially silent IncN and IncP1 plasmids. BMC Microbiol. 0.536805556. [PMID:22475035]

I. Information of Relaxase

ID	57
Name	TraI_N3
GenBank accession number	YP_004558187
Family	MOB_F
Length	1080 aa
UniProt ID	F6IB82
PDB ID	_
Pfam	TrwC [PF08751.10], Evalue: 6.70E-80, Aligned region: 12..288 AAA_30 [PF13604.5], Evalue: 4.30E-42, Aligned region: 477..663 Viral_helicase1 [PF01443.17], Evalue: 5.10E-07, Aligned region: 774..899 UvrD_C_2 [PF13538.5], Evalue: 1.10E-08, Aligned region: 851..897
Note	conjugal transfer nickase and helicase
Protein sequence [Download]	MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLV GEIDTFTHMQRHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREA EKLAQARTTRQGKSVTQNTNNLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALK NDELMRNKMHLGDVYKQELALELTKAGYELRYNSKNNTFDMAHFSDEQIRAFSRRSEQIE KGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQEWASRAKTLGIDFDNREWQGH GKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIANKQVLGHATI ADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKK EQMRAVTEIVTSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALED DGLPARTVAAFLKAKDKKLDEKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQ TKAVEAGKPFEQLIKAGMQTSYMKDIQRQKNEVLLEAVKYAAEGNAARALKNITGVNELK EEAPRLSQLADRYLSLSSEQQDATLIISGTNASRKTLNDYIRGNLGLAGTGETFTLLDRV DSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVESSSGEQIAFSP RTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTD DKKSLASSVSRDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFN QKPDEHNMTTGTDYQPVSNAEDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQ WSAQEYADYEHYAEASDYDFDSSIYDDYAMPQTSQAEQSHTGKEHTHEHEHEHEEGGHEI

Reference

[1] Humphrey B et al (2012) Fitness of Escherichia coli strains carrying expressed and partially silent IncN and IncP1 plasmids. BMC Microbiol. 0.536805556. [PMID:22475035]

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

#	ID	Name	GenBank	Length	Note
1	88	TraK_N3	YP_004558185	138 aa	_

Information of T4CP

ID	57
Name	TraJ_N3
SecReT4 accesion number	336053209
GenBank accession number	YP_004558186
Family	TrwB/TraD
Length	509
UniProt ID	F6IB81
PDB ID	_
Pfam	TrwB_AAD_bind [PF10412.8], Evalue: 7.00E-84, Aligned region: 112..491 TraG-D_C [PF12696.6], Evalue: 3.50E-19, Aligned region: 350..472 T4SS-DNA_transf [PF02534.13], Evalue: 1.30E-09, Aligned region: 297..500 DUF87 [PF01935.16], Evalue: 2.70E-05, Aligned region: 109..272
Note	Type IV Secretion System Coupling Protein
Protein sequence [Download]	MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIA GWFIGVGGLIAFIIYDKSRVFKGERFKKIYRGTELVSARTLADKTRERGVNQLTVANIPI PTYAENLHFSIAGTTGTGKTTIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNA YDKRTEGWVFFNEIRRSYDYERLVNSIVQESPDMATEEWFGYGRLIFSEVSKKLHSLYST VTMEEVIHWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGSARFVLSKNLAPHLKMPEGNF SLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESRINVFIDELES LQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALP GDMPVAKFKAKHVKYHRKNPVPGIELRDI

Reference

[1] Humphrey B et al (2012) Fitness of Escherichia coli strains carrying expressed and partially silent IncN and IncP1 plasmids. BMC Microbiol. 0.536805556. [PMID:22475035]

Information of plasmid

ID	57
Plasmid name	N3
GenBank accession number	NC_015599.1
Incompatibility group	IncN
Genome size	54205 bp
Coordinate of oriT [Strand]	10313..10360 [-]
Drug resistance	tet(A) genes for tetracycline resistance, a putative bacA-like bacitracin resistance gene
Heavy-metal resistance	_
Virulence factor	_
Xenobiotic degradation	_
Host bacterium [NCBI Taxonomy ID]	Escherichia coli 345-2RifC [562]

Reference

[1] Humphrey B et al (2012) Fitness of Escherichia coli strains carrying expressed and partially silent IncN and IncP1 plasmids. BMC Microbiol. 0.536805556. [PMID:22475035]