Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200195
• Name: oriT_ICEKpnDA48896-1
• Organism: Klebsiella pneumoniae strain DA48896
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP024429 (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_ICEKpnDA48896-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_BKL84_17305_ICEKpnDA48896-1

• ID: 16663
• GenBank: AVO17794
• Name: t4cp2_BKL84_17305_ICEKpnDA48896-1
• 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

>AVO17794.1 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_BKL84_17370_ICEKpnDA48896-1

• ID: 16664
• GenBank: AVO17807
• Name: t4cp2_BKL84_17370_ICEKpnDA48896-1
• 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

>AVO17807.1 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: 3450493..3460428

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
BKL84_17260	3446988..3447971	+	984	AVO17785	hypothetical protein	-
BKL84_17265	3448111..3448296	+	186	AVO17786	transcriptional regulator	-
BKL84_17270	3448315..3448500	+	186	AVO17787	hypothetical protein	-
BKL84_17275	3448485..3449066	+	582	AVO17788	DUF2857 domain-containing protein	-
BKL84_17280	3449056..3449265	+	210	AVO17789	conjugal transfer protein TraR	-
BKL84_17285	3449469..3449636	+	168	AVO17790	transcriptional regulator	-
BKL84_17290	3450205..3450438	+	234	AVO17791	hypothetical protein	-
BKL84_17295	3450493..3451221	+	729	AVO17792	type VI secretion protein	virB1
BKL84_17300	3451221..3451514	+	294	AVO17793	TriB protein	virB2
BKL84_17305	3451527..3454265	+	2739	AVO17794	ATPase	virb4
BKL84_17310	3454283..3454990	+	708	AVO17795	type IV secretion system protein VirB5	-
BKL84_17315	3454998..3455240	+	243	AVO17796	hypothetical protein	-
BKL84_17320	3455244..3456317	+	1074	AVO17797	conjugal transfer protein TrbL	virB6
BKL84_17325	3456539..3457222	+	684	AVO17798	type IV secretion system protein	virB8
BKL84_17330	3457219..3458127	+	909	AVO17799	P-type conjugative transfer protein VirB9	virB9
BKL84_17335	3458157..3459413	+	1257	AVO17800	type VI secretion protein	virB10
BKL84_17340	3459403..3460428	+	1026	AVO17801	P-type DNA transfer ATPase VirB11	virB11
BKL84_17345	3460425..3460823	+	399	AVO17802	Cag pathogenicity island protein Cag12	-
BKL84_17350	3460859..3461164	+	306	AVO17803	conjugal transfer protein	-
BKL84_17355	3461198..3461503	+	306	AVO17804	dpoa decarboxylase	-
BKL84_17360	3461524..3461916	+	393	AVO17805	hypothetical protein	-
BKL84_17365	3461935..3462213	+	279	AVO17806	hypothetical protein	-
BKL84_17370	3462213..3464072	+	1860	AVO17807	MFS transporter	-
BKL84_17375	3464082..3464828	+	747	AVO17808	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-

Host bacterium

• ID: 185
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnDA48896-1
• GenBank: CP024429
• Element size: 5394870 bp
• Coordinate of oriT [Strand]: 46133..46256 [+]
• Host bacterium: Klebsiella pneumoniae strain DA48896
• Coordinate of element: 3415712..3473910

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: -