Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200181
• Name: oriT_ICEKpnBA28434-1
• Organism: Klebsiella pneumoniae strain BA28434
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP036327 (81506..81629 [+], 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_ICEKpnBA28434-1
CCGATTAGGCGCGACCACCCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGGTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_C3E96_011430_ICEKpnBA28434-1

• ID: 16639
• GenBank: QBH57947
• Name: t4cp2_C3E96_011430_ICEKpnBA28434-1
• 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

>QBH57947.1 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_C3E96_011495_ICEKpnBA28434-1

• ID: 16640
• GenBank: QBH60876
• Name: t4cp2_C3E96_011495_ICEKpnBA28434-1
• 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

>QBH60876.1 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: 2254934..2264851

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C3E96_011380	2251411..2251824	+	414	Protein_2240	hypothetical protein	-
C3E96_011385	2251840..2252394	+	555	QBH60874	hypothetical protein	-
C3E96_011390	2252534..2252719	+	186	QBH57939	AlpA family transcriptional regulator	-
C3E96_011395	2252738..2252923	+	186	QBH57940	hypothetical protein	-
C3E96_011400	2252908..2253489	+	582	QBH57941	DUF2857 domain-containing protein	-
C3E96_011405	2253479..2253688	+	210	QBH57942	TraR/DksA family transcriptional regulator	-
C3E96_011410	2253892..2254059	+	168	QBH57943	transcriptional regulator	-
C3E96_011415	2254628..2254861	+	234	QBH57944	hypothetical protein	-
C3E96_011420	2254934..2255644	+	711	QBH57945	type VI secretion protein	virB1
C3E96_011425	2255644..2255937	+	294	QBH57946	TriB protein	virB2
C3E96_011430	2255950..2258688	+	2739	QBH57947	ATPase	virb4
C3E96_011435	2258706..2259413	+	708	QBH57948	type IV secretion system protein VirB5	-
C3E96_011440	2259421..2259663	+	243	QBH57949	hypothetical protein	-
C3E96_011445	2259667..2260740	+	1074	QBH57950	type IV secretion system protein	virB6
C3E96_011450	2260962..2261645	+	684	QBH57951	type IV secretion system protein	virB8
C3E96_011455	2261645..2262550	+	906	QBH60875	P-type conjugative transfer protein VirB9	virB9
C3E96_011460	2262586..2263836	+	1251	QBH57952	type VI secretion protein	virB10
C3E96_011465	2263826..2264851	+	1026	QBH57953	P-type DNA transfer ATPase VirB11	virB11
C3E96_011470	2264848..2265246	+	399	QBH57954	Cag pathogenicity island protein Cag12	-
C3E96_011475	2265282..2265587	+	306	QBH57955	conjugal transfer protein	-
C3E96_011480	2265621..2265926	+	306	QBH57956	dpoa decarboxylase	-
C3E96_011485	2265947..2266339	+	393	QBH57957	hypothetical protein	-
C3E96_011490	2266358..2266636	+	279	QBH57958	hypothetical protein	-
C3E96_011495	2266636..2268495	+	1860	QBH60876	MFS transporter	-
C3E96_011500	2268505..2269251	+	747	QBH57959	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-

Host bacterium

• ID: 173
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnBA28434-1
• GenBank: CP036327
• Element size: 5438017 bp
• Coordinate of oriT [Strand]: 81506..81629 [+]
• Host bacterium: Klebsiella pneumoniae strain BA28434
• Coordinate of element: 2184762..2287697

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: -