Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200165
• Name: oriT_ICEKpnAR_0079-1
• Organism: Klebsiella pneumoniae strain AR_0079
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP028994 (79030..79153 [+], 124 nt)
• oriT length: 124 nt
• IRs (inverted repeats): 40..47, 59..66 (ATTTTTTC..GAAAAAAT)
• Location of nic site: _
• Conserved sequence flanking the nic site: _
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 124 nt

>oriT_ICEKpnAR_0079-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGGGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_AM458_20415_ICEKpnAR_0079-1

• ID: 16613
• GenBank: AWE02763
• Name: t4cp2_AM458_20415_ICEKpnAR_0079-1
• UniProt ID: _
• Length: 912 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 912 a.a.
• Molecular weight: 103084.02 Da
• Isoelectric Point: 7.4625

>AWE02763.1 ATPase [Klebsiella pneumoniae]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGNAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL

Protein domains

Predicted by InterproScan.

• Type IV secretory pathway, VirB3-like protein (VirB3) (3-79)

• CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB) (269-470)

• TraG P-loop domain (P-loop_TraG) (535-813)

Protein structure

No available structure.

t4cp2_AM458_20480_ICEKpnAR_0079-1

• ID: 16614
• GenBank: AWE02776
• Name: t4cp2_AM458_20480_ICEKpnAR_0079-1
• UniProt ID: _
• Length: 619 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 619 a.a.
• Molecular weight: 69572.49 Da
• Isoelectric Point: 5.9283

>AWE02776.1 MFS transporter [Klebsiella pneumoniae]
MILNKLAASLSPIVNGMLALLAFVQQQQLMLALLAGLTMPFFVSMKSDERQKAPLWKRLIISFSLLCFLS
GTLAPIVIGSFQWLYKTRLTSDNTVLAWSVRIAFTVTGIIFHIMLRRVFTPELDKIKKRLVKKTTLEREL
RTDVRTVNSLLPETLHYDPLDYIDLNKGIFTGINRENEPMYLPLKDWQKQHADIIGTTGAGKGVATGILL
YQSILAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARIAAQFVSDNPSTTIRDVYNGDYVQSIAEKIKAFFGKIEELALLNAINAPTGF
SLNEIFDEGGCCYVIGSMRNSKIITSQRMLLVRLYQLAERRDRVTNVPRPIAIYLSELKYHLSRPALEGL
GAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKLVYRVMDPDTAEWVARMSGTILVDDEL
RKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTKTLPSASLISPIKIRKRQLKIFSVS
PDITASAAPVKIALDFDEDDKPSIQDVMTTHPGLFFNESEVKPAEPQPDAGEHLSPLDF

Protein domains

Predicted by InterproScan.

• TraM recognition site of TraD and TraG (TraG-D_C) (417-516)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 4008815..4022402

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AM458_20370	4005310..4006293	+	984	AWE02754	hypothetical protein	-
AM458_20375	4006433..4006618	+	186	AWE02755	AlpA family transcriptional regulator	-
AM458_20380	4006637..4006822	+	186	AWE02756	hypothetical protein	-
AM458_20385	4006807..4007388	+	582	AWE02757	DUF2857 domain-containing protein	-
AM458_20390	4007378..4007587	+	210	AWE02758	conjugal transfer protein TraR	-
AM458_20395	4007791..4007958	+	168	AWE02759	transcriptional regulator	-
AM458_20400	4008527..4008760	+	234	AWE02760	hypothetical protein	-
AM458_20405	4008815..4009543	+	729	AWE02761	type VI secretion protein	virB1
AM458_20410	4009543..4009836	+	294	AWE02762	TriB protein	virB2
AM458_20415	4009849..4012587	+	2739	AWE02763	ATPase	virb4
AM458_20420	4012605..4013312	+	708	AWE02764	type IV secretion system protein VirB5	-
AM458_20425	4013320..4013562	+	243	AWE02765	hypothetical protein	-
AM458_20430	4013566..4014639	+	1074	AWE02766	conjugal transfer protein TrbL	virB6
AM458_20435	4014861..4015544	+	684	AWE02767	type IV secretion system protein	virB8
AM458_20440	4015541..4016449	+	909	AWE02768	P-type conjugative transfer protein VirB9	virB9
AM458_20445	4016487..4017743	+	1257	AWE02769	type VI secretion protein	virB10
AM458_20450	4017733..4018758	+	1026	AWE02770	P-type DNA transfer ATPase VirB11	virB11
AM458_20455	4018755..4019153	+	399	AWE02771	Cag pathogenicity island protein Cag12	-
AM458_20460	4019189..4019494	+	306	AWE02772	conjugal transfer protein	-
AM458_20465	4019528..4019833	+	306	AWE02773	dpoa decarboxylase	-
AM458_20470	4019944..4020246	+	303	AWE02774	hypothetical protein	-
AM458_20475	4020265..4020546	+	282	AWE02775	hypothetical protein	-
AM458_20480	4020543..4022402	+	1860	AWE02776	MFS transporter	virb4
AM458_20485	4022412..4023158	+	747	AWE02777	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-
AM458_20490	4023352..4024299	-	948	AWE02778	DUF1738 domain-containing protein	-
AM458_20495	4024637..4025227	+	591	AWE02779	hypothetical protein	-
AM458_20500	4025224..4026183	+	960	AWE02780	DUF4868 domain-containing protein	-

Host bacterium

• ID: 160
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnAR_0079-1
• GenBank: CP028994
• Element size: 5511019 bp
• Coordinate of oriT [Strand]: 79030..79153 [+]
• Host bacterium: Klebsiella pneumoniae strain AR_0079
• Coordinate of element: 3941145..4033488

Cargo genes

• Drug resistance gene: -
• Virulence gene: ybtS, ybtX, ybtQ, ybtP, ybtA, irp2, irp1, ybtU, ybtT, ybtE, fyuA
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -