Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200162
• Name: oriT_ICEKpnABFPV-1
• Organism: Klebsiella pneumoniae strain ABFPV
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP036442 (46133..46256 [+], 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_ICEKpnABFPV-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_WN05_17910_ICEKpnABFPV-1

• ID: 16609
• GenBank: QBI25540
• Name: t4cp2_WN05_17910_ICEKpnABFPV-1
• UniProt ID: _
• Length: 912 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 912 a.a.
• Molecular weight: 103068.02 Da
• Isoelectric Point: 7.4625

>QBI25540.1 ATPase [Klebsiella pneumoniae]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGNAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFAEETATGMMDS
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_WN05_17975_ICEKpnABFPV-1

• ID: 16610
• GenBank: QBI27335
• Name: t4cp2_WN05_17975_ICEKpnABFPV-1
• UniProt ID: _
• Length: 619 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 619 a.a.
• Molecular weight: 69574.86 Da
• Isoelectric Point: 6.6673

>QBI27335.1 MFS transporter [Klebsiella pneumoniae]
MILNKLTASLSPIVNGMLAVLAFVQQKQLVLALLAGLTMPFFASMKSDERQKAPLWKKLIIAFSLLCFLS
GTLAPVVIGSFQWLYKIRPTSDNTVLAWSVRIAFTVTGIIFHIMLRRIFTPELDKIKKRLVKKTTLEREL
RTDVRTVKSLLPETLHYNPLDYIDLNKGIFTGMGRENEPMYLPLKDWQKQHADIIGTTGAGKGVAAGILL
YQSILAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARIAAQFVSDNPSTTIRDVYNGDYVQSIAEKIKAFFGKIEELALLNAINSPEGF
SLKHIFDEGGCCYVVGSMRNSKIITAQRMLLVRLYQLAEKRDRVIDVPRPIAVYLSELKYHLSRSALEGL
GAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKLVYRVMDPDTAEWVARMSGTILVDDEL
RKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTKTLPSASLISPIKVRKRQLKTFSVS
PDIAATVAPVKIMLDFCEDDKPAMSDVMTTHPALFFDESEVKPVKPKPDDEEHLSPLDF

Protein domains

Predicted by InterproScan.

• Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind) (418-542)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 3587990..3597907

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
WN05_17860	3584467..3584880	+	414	Protein_3482	hypothetical protein	-
WN05_17865	3584896..3585450	+	555	QBI27333	hypothetical protein	-
WN05_17870	3585590..3585775	+	186	QBI25532	AlpA family transcriptional regulator	-
WN05_17875	3585794..3585979	+	186	QBI25533	hypothetical protein	-
WN05_17880	3585964..3586545	+	582	QBI25534	DUF2857 domain-containing protein	-
WN05_17885	3586535..3586744	+	210	QBI25535	TraR/DksA family transcriptional regulator	-
WN05_17890	3586948..3587115	+	168	QBI25536	transcriptional regulator	-
WN05_17895	3587684..3587917	+	234	QBI25537	hypothetical protein	-
WN05_17900	3587990..3588700	+	711	QBI25538	type VI secretion protein	virB1
WN05_17905	3588700..3588993	+	294	QBI25539	TriB protein	virB2
WN05_17910	3589006..3591744	+	2739	QBI25540	ATPase	virb4
WN05_17915	3591762..3592469	+	708	QBI25541	type IV secretion system protein VirB5	-
WN05_17920	3592477..3592719	+	243	QBI25542	hypothetical protein	-
WN05_17925	3592723..3593796	+	1074	QBI25543	type IV secretion system protein	virB6
WN05_17930	3594018..3594701	+	684	QBI25544	type IV secretion system protein	virB8
WN05_17935	3594701..3595606	+	906	QBI27334	P-type conjugative transfer protein VirB9	virB9
WN05_17940	3595642..3596892	+	1251	QBI25545	type VI secretion protein	virB10
WN05_17945	3596882..3597907	+	1026	QBI25546	P-type DNA transfer ATPase VirB11	virB11
WN05_17950	3597904..3598302	+	399	QBI25547	Cag pathogenicity island protein Cag12	-
WN05_17955	3598338..3598643	+	306	QBI25548	conjugal transfer protein	-
WN05_17960	3598677..3598982	+	306	QBI25549	dpoa decarboxylase	-
WN05_17965	3599093..3599395	+	303	QBI25550	hypothetical protein	-
WN05_17970	3599414..3599692	+	279	QBI25551	hypothetical protein	-
WN05_17975	3599692..3601551	+	1860	QBI27335	MFS transporter	-
WN05_17980	3601561..3602307	+	747	QBI25552	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-

Host bacterium

• ID: 158
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnABFPV-1
• GenBank: CP036442
• Element size: 5345730 bp
• Coordinate of oriT [Strand]: 46133..46256 [+]
• Host bacterium: Klebsiella pneumoniae strain ABFPV
• Coordinate of element: 3553191..3611389

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: -