Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200291
• Name: oriT_ICEKpnVBA2172-1
• Organism: Klebsiella pneumoniae strain VBA2172
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP036320 (81498..81621 [+], 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_ICEKpnVBA2172-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGGTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_CK244_025890_ICEKpnVBA2172-1

• ID: 16818
• GenBank: QBH46121
• Name: t4cp2_CK244_025890_ICEKpnVBA2172-1
• 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

>QBH46121.1 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_CK244_025955_ICEKpnVBA2172-1

• ID: 16819
• GenBank: QBH46582
• Name: t4cp2_CK244_025955_ICEKpnVBA2172-1
• 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

>QBH46582.1 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: 5175717..5185634

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CK244_025840	5172194..5172607	+	414	Protein_5045	hypothetical protein	-
CK244_025845	5172623..5173177	+	555	QBH46580	hypothetical protein	-
CK244_025850	5173317..5173502	+	186	QBH46113	AlpA family transcriptional regulator	-
CK244_025855	5173521..5173706	+	186	QBH46114	hypothetical protein	-
CK244_025860	5173691..5174272	+	582	QBH46115	DUF2857 domain-containing protein	-
CK244_025865	5174262..5174471	+	210	QBH46116	TraR/DksA family transcriptional regulator	-
CK244_025870	5174675..5174842	+	168	QBH46117	transcriptional regulator	-
CK244_025875	5175411..5175644	+	234	QBH46118	hypothetical protein	-
CK244_025880	5175717..5176427	+	711	QBH46119	type VI secretion protein	virB1
CK244_025885	5176427..5176720	+	294	QBH46120	TriB protein	virB2
CK244_025890	5176733..5179471	+	2739	QBH46121	ATPase	virb4
CK244_025895	5179489..5180196	+	708	QBH46122	type IV secretion system protein VirB5	-
CK244_025900	5180204..5180446	+	243	QBH46123	hypothetical protein	-
CK244_025905	5180450..5181523	+	1074	QBH46124	type IV secretion system protein	virB6
CK244_025910	5181745..5182428	+	684	QBH46125	type IV secretion system protein	virB8
CK244_025915	5182428..5183333	+	906	QBH46581	P-type conjugative transfer protein VirB9	virB9
CK244_025920	5183369..5184619	+	1251	QBH46126	type VI secretion protein	virB10
CK244_025925	5184609..5185634	+	1026	QBH46127	P-type DNA transfer ATPase VirB11	virB11
CK244_025930	5185631..5186029	+	399	QBH46128	Cag pathogenicity island protein Cag12	-
CK244_025935	5186065..5186370	+	306	QBH46129	conjugal transfer protein	-
CK244_025940	5186404..5186709	+	306	QBH46130	dpoa decarboxylase	-
CK244_025945	5186820..5187122	+	303	QBH46131	hypothetical protein	-
CK244_025950	5187141..5187419	+	279	QBH46132	hypothetical protein	-
CK244_025955	5187419..5189278	+	1860	QBH46582	MFS transporter	-
CK244_025960	5189288..5190034	+	747	QBH46133	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-

Host bacterium

• ID: 265
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnVBA2172-1
• GenBank: CP036320
• Element size: 5462803 bp
• Coordinate of oriT [Strand]: 81498..81621 [+]
• Host bacterium: Klebsiella pneumoniae strain VBA2172
• Coordinate of element: 5105553..5208479

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: -