Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200251
• Name: oriT_ICEKpnKPN528-1
• Organism: Klebsiella pneumoniae strain KPN528
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP020853 (46127..46250 [+], 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_ICEKpnKPN528-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_B8F96_18770_ICEKpnKPN528-1

• ID: 16750
• GenBank: ART12478
• Name: t4cp2_B8F96_18770_ICEKpnKPN528-1
• 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

>ART12478.1 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_B8F96_18835_ICEKpnKPN528-1

• ID: 16751
• GenBank: ART12489
• Name: t4cp2_B8F96_18835_ICEKpnKPN528-1
• UniProt ID: _
• Length: 619 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 619 a.a.
• Molecular weight: 69522.72 Da
• Isoelectric Point: 6.7740

>ART12489.1 MFS transporter [Klebsiella pneumoniae]
MILNKLTASLSPIVNGMLAVLAFVQQKQLVLALLAGLTMPFFASMKSDERQKAPLWKRLIIAFSLLCFLS
GTLAPIVIGSFQWLYKTRLTSDNTVLVWSVRIAFTVTGIIFHIMLRRVFTPELDKIKKHLVKKTTLEREL
RTDVRTVKSLLPETLHYDPLDYIDLNKGIFTGMDRENEPMYLPLKDWQKQHADIIGTTGAGKGVATGILL
YQSILAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARMAAQFVSDNPSTTIRDVYNGDYVQGIAEKIKAFFGKIEELALLNAINSPEGF
SLKKIFDEGGCCYVIGSMRNSKIITAQRMLLVRLYQLAERRERVTDVPRPIAIYLSELKYHLSRPALEGL
GAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKMVYRVMDPDTADWIARMSGTILVDDEL
RKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTTTLPSASLISPIKVRKRRLKTFSVS
PDIAAAAAPVKIALDFGDDDKPTALDVMASHPALFFDKSEVKPTKPKPDDEKDLSPLDF

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: 3797894..3807808

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
B8F96_18720	3794430..3794783	+	354	ART12470	hypothetical protein	-
B8F96_18725	3794921..3795355	+	435	ART12471	hypothetical protein	-
B8F96_18730	3795495..3795680	+	186	ART12472	transcriptional regulator	-
B8F96_18735	3795702..3795883	+	182	Protein_3656	hypothetical protein	-
B8F96_18740	3795868..3796449	+	582	ART12473	hypothetical protein	-
B8F96_18745	3796439..3796648	+	210	ART12474	conjugal transfer protein TraR	-
B8F96_18750	3796891..3797019	+	129	ART12475	transcriptional regulator	-
B8F96_18755	3797588..3797821	+	234	ART12476	hypothetical protein	-
B8F96_18760	3797894..3798604	+	711	ART12477	type VI secretion protein	virB1
B8F96_18765	3798657..3798896	+	240	ART14074	TriB protein	virB2
B8F96_18770	3798909..3801647	+	2739	ART12478	ATPase	virb4
B8F96_18775	3801665..3802372	+	708	ART12479	type IV secretion system protein VirB5	-
B8F96_18780	3802380..3802622	+	243	ART12480	hypothetical protein	-
B8F96_18785	3802626..3803699	+	1074	ART12481	conjugal transfer protein TrbL	virB6
B8F96_18790	3803920..3804603	+	684	ART12482	hypothetical protein	virB8
B8F96_18795	3804603..3805508	+	906	ART14075	P-type conjugative transfer protein VirB9	virB9
B8F96_18800	3805544..3806793	+	1250	Protein_3669	type VI secretion protein	-
B8F96_18805	3806783..3807808	+	1026	ART12483	P-type DNA transfer ATPase VirB11	virB11
B8F96_18810	3807805..3808203	+	399	ART12484	Cag pathogenicity island protein Cag12	-
B8F96_18815	3808239..3808544	+	306	ART12485	conjugal transfer protein	-
B8F96_18820	3808578..3808883	+	306	ART12486	dpoa decarboxylase	-
B8F96_18825	3808904..3809296	+	393	ART12487	hypothetical protein	-
B8F96_18830	3809315..3809593	+	279	ART12488	hypothetical protein	-
B8F96_18835	3809593..3811452	+	1860	ART12489	MFS transporter	-
B8F96_18840	3811462..3812208	+	747	ART12490	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-

Host bacterium

• ID: 230
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnKPN528-1
• GenBank: CP020853
• Element size: 5383018 bp
• Coordinate of oriT [Strand]: 46127..46250 [+]
• Host bacterium: Klebsiella pneumoniae strain KPN528
• Coordinate of element: 3763098..3829313

Cargo genes

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