Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200219
• Name: oriT_ICEKpnJUNP254-1
• Organism: Klebsiella pneumoniae JUNP 254
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): AP021880 (21304..21427 [-], 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_ICEKpnJUNP254-1
CCGATTAGGCGCGACCACCCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGGTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_JUNP254_1780_ICEKpnJUNP254-1

• ID: 16702
• GenBank: BBO95962
• Name: t4cp2_JUNP254_1780_ICEKpnJUNP254-1
• 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

>BBO95962.1 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.

t4cp2_JUNP254_1791_ICEKpnJUNP254-1

• ID: 16703
• GenBank: BBO95973
• Name: t4cp2_JUNP254_1791_ICEKpnJUNP254-1
• 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

>BBO95973.1 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.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1887978..1897903

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
JUNP254_1779	1883578..1884324	-	747	BBO95961	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-
JUNP254_1780	1884334..1886193	-	1860	BBO95962	molybdopterin-guanine dinucleotide biosynthesis protein MobB	-
JUNP254_1781	1886903..1887208	-	306	BBO95963	hypothetical protein	-
JUNP254_1782	1887242..1887547	-	306	BBO95964	hypothetical protein	-
JUNP254_1783	1887583..1887981	-	399	BBO95965	hypothetical protein	-
JUNP254_1784	1887978..1889003	-	1026	BBO95966	P-type DNA transfer ATPase VirB11	virB11
JUNP254_1785	1888993..1890243	-	1251	BBO95967	type VI secretion protein	virB10
JUNP254_1786	1890287..1891192	-	906	BBO95968	P-type conjugative transfer protein VirB9	virB9
JUNP254_1787	1891192..1891875	-	684	BBO95969	membrane protein	virB8
JUNP254_1788	1892097..1893170	-	1074	BBO95970	pilus assembly protein	virB6
JUNP254_1789	1893174..1893416	-	243	BBO95971	hypothetical protein	-
JUNP254_1790	1893424..1894131	-	708	BBO95972	minor pilin of type IV secretion complex (VirB5)	-
JUNP254_1791	1894149..1896887	-	2739	BBO95973	ATPase	virb4
JUNP254_1792	1896900..1897193	-	294	BBO95974	TriB protein	virB2
JUNP254_1793	1897193..1897903	-	711	BBO95975	type VI secretion protein	virB1
JUNP254_1794	1897976..1898209	-	234	BBO95976	hypothetical protein	-
JUNP254_1795	1898778..1898906	-	129	BBO95977	hypothetical protein	-
JUNP254_1796	1899149..1899358	-	210	BBO95978	conjugal transfer protein TraR	-
JUNP254_1797	1899348..1899929	-	582	BBO95979	hypothetical protein	-
JUNP254_1798	1899914..1900099	-	186	BBO95980	hypothetical protein	-
JUNP254_1799	1900118..1900303	-	186	BBO95981	transcriptional regulator	-
JUNP254_1800	1900984..1902525	+	1542	BBO95982	integrase	-

Host bacterium

• ID: 206
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnJUNP254-1
• GenBank: AP021880
• Element size: 5422388 bp
• Coordinate of oriT [Strand]: 21304..21427 [-]
• Host bacterium: Klebsiella pneumoniae JUNP 254
• Coordinate of element: 1865136..1929396

Cargo genes

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