Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200178
• Name: oriT_ICEKpnAR_0160-1
• Organism: Klebsiella pneumoniae strain AR_0160
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP032175 (46910..47033 [+], 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_0160-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_AM406_02515_ICEKpnAR_0160-1

• ID: 16633
• GenBank: AXZ24984
• Name: t4cp2_AM406_02515_ICEKpnAR_0160-1
• 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

>AXZ24984.1 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_AM406_02595_ICEKpnAR_0160-1

• ID: 16634
• GenBank: AXZ24996
• Name: t4cp2_AM406_02595_ICEKpnAR_0160-1
• 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

>AXZ24996.1 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: 253628..262548

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AM406_02470	250123..251106	+	984	AXZ24975	hypothetical protein	-
AM406_02475	251246..251431	+	186	AXZ24976	AlpA family transcriptional regulator	-
AM406_02480	251450..251635	+	186	AXZ24977	hypothetical protein	-
AM406_02485	251620..252201	+	582	AXZ24978	DUF2857 domain-containing protein	-
AM406_02490	252191..252400	+	210	AXZ24979	TraR/DksA family transcriptional regulator	-
AM406_02495	252604..252771	+	168	AXZ24980	transcriptional regulator	-
AM406_02500	253340..253573	+	234	AXZ24981	hypothetical protein	-
AM406_02505	253628..254356	+	729	AXZ24982	type VI secretion protein	virB1
AM406_02510	254356..254649	+	294	AXZ24983	TriB protein	virB2
AM406_02515	254662..257400	+	2739	AXZ24984	ATPase	virb4
AM406_02520	257418..258125	+	708	AXZ24985	type IV secretion system protein VirB5	-
AM406_02525	258133..258375	+	243	AXZ24986	hypothetical protein	-
AM406_02530	258379..259452	+	1074	AXZ24987	conjugal transfer protein TrbL	virB6
AM406_02535	259674..260357	+	684	AXZ24988	type IV secretion system protein	virB8
AM406_02540	260354..261262	+	909	AXZ24989	P-type conjugative transfer protein VirB9	virB9
AM406_02545	261292..262548	+	1257	AXZ24990	type VI secretion protein	virB10
AM406_02550	262538..263311	+	774	Protein_256	P-type DNA transfer ATPase VirB11	-
AM406_02555	263317..264014	-	698	Protein_257	IS1 family transposase	-
AM406_02560	263971..264069	-	99	Protein_258	glycosyltransferase	-
AM406_02565	264071..264340	+	270	Protein_259	P-type DNA transfer ATPase VirB11	-
AM406_02570	264337..264735	+	399	AXZ24991	Cag pathogenicity island protein Cag12	-
AM406_02575	264771..265076	+	306	AXZ24992	conjugal transfer protein	-
AM406_02580	265110..265415	+	306	AXZ24993	dpoa decarboxylase	-
AM406_02585	265526..265828	+	303	AXZ24994	hypothetical protein	-
AM406_02590	265847..266125	+	279	AXZ24995	hypothetical protein	-

Host bacterium

• ID: 170
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnAR_0160-1
• GenBank: CP032175
• Element size: 5330135 bp
• Coordinate of oriT [Strand]: 46910..47033 [+]
• Host bacterium: Klebsiella pneumoniae strain AR_0160
• Coordinate of element: 218847..277822

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: -