Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200290
• Name: oriT_ICEKpnU25-1
• Organism: Klebsiella pneumoniae strain U25
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP012043 (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_ICEKpnU25-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_AC565_18360_ICEKpnU25-1

• ID: 16816
• GenBank: ALP79381
• Name: t4cp2_AC565_18360_ICEKpnU25-1
• 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

>ALP79381.1 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_AC565_18405_ICEKpnU25-1

• ID: 16817
• GenBank: ALP79389
• Name: t4cp2_AC565_18405_ICEKpnU25-1
• 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

>ALP79389.1 molybdopterin-guanine dinucleotide biosynthesis protein MobB [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: 3740664..3750580

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AC565_18325	3737199..3738125	+	927	ALP79374	hypothetical protein	-
AC565_18330	3738265..3738450	+	186	ALP79375	DNA-binding protein	-
AC565_18335	3738638..3739219	+	582	ALP79376	hypothetical protein	-
AC565_18340	3739661..3739789	+	129	ALP79377	gene expression modulator	-
AC565_18345	3740358..3740591	+	234	ALP79378	ATP-binding protein	-
AC565_18350	3740664..3741374	+	711	ALP79379	type VI secretion protein	virB1
AC565_18355	3741374..3741667	+	294	ALP79380	TriB protein	virB2
AC565_18360	3741680..3744418	+	2739	ALP79381	ATPase	virb4
AC565_18365	3744436..3745143	+	708	ALP79382	Minor pilin of type IV secretion complex (VirB5)	-
AC565_18370	3745397..3746470	+	1074	ALP79383	conjugal transfer protein TrbL	virB6
AC565_18375	3746543..3746662	-	120	ALP79384	hypothetical protein	-
AC565_18380	3746692..3747375	+	684	ALP79385	membrane protein	virB8
AC565_18390	3748315..3749565	+	1251	ALP79386	type VI secretion protein	virB10
AC565_18395	3749555..3750580	+	1026	ALP79387	ATPase	virB11
AC565_18400	3751350..3751655	+	306	ALP79388	dpoa decarboxylase	-
AC565_18405	3752365..3754224	+	1860	ALP79389	molybdopterin-guanine dinucleotide biosynthesis protein MobB	-
AC565_18410	3754234..3754980	+	747	ALP79390	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-

Host bacterium

• ID: 264
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnU25-1
• GenBank: CP012043
• Element size: 5491870 bp
• Coordinate of oriT [Strand]: 46133..46256 [+]
• Host bacterium: Klebsiella pneumoniae strain U25
• Coordinate of element: 3705864..3772086

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: -