Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200159
• Name: oriT_ICEKpn6-1
• Organism: Klebsiella pneumoniae strain 6
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP034316 (79030..79153 [+], 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_ICEKpn6-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGGGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_EJB20_22470_ICEKpn6-1

• ID: 16605
• GenBank: QIH93987
• Name: t4cp2_EJB20_22470_ICEKpn6-1
• 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

>QIH93987.1 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_EJB20_22535_ICEKpn6-1

• ID: 16606
• GenBank: QIH93999
• Name: t4cp2_EJB20_22535_ICEKpn6-1
• UniProt ID: _
• Length: 619 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 619 a.a.
• Molecular weight: 69572.49 Da
• Isoelectric Point: 5.9283

>QIH93999.1 MFS transporter [Klebsiella pneumoniae]
MILNKLAASLSPIVNGMLALLAFVQQQQLMLALLAGLTMPFFVSMKSDERQKAPLWKRLIISFSLLCFLS
GTLAPIVIGSFQWLYKTRLTSDNTVLAWSVRIAFTVTGIIFHIMLRRVFTPELDKIKKRLVKKTTLEREL
RTDVRTVNSLLPETLHYDPLDYIDLNKGIFTGINRENEPMYLPLKDWQKQHADIIGTTGAGKGVATGILL
YQSILAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARIAAQFVSDNPSTTIRDVYNGDYVQSIAEKIKAFFGKIEELALLNAINAPTGF
SLNEIFDEGGCCYVIGSMRNSKIITSQRMLLVRLYQLAERRDRVTNVPRPIAIYLSELKYHLSRPALEGL
GAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKLVYRVMDPDTAEWVARMSGTILVDDEL
RKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTKTLPSASLISPIKIRKRQLKIFSVS
PDITASAAPVKIALDFDEDDKPSIQDVMTTHPGLFFNESEVKPAEPQPDAGEHLSPLDF

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: 4517778..4531347

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
EJB20_22420	4514255..4514668	+	414	Protein_4363	hypothetical protein	-
EJB20_22425	4514684..4515238	+	555	QIH94587	hypothetical protein	-
EJB20_22430	4515378..4515563	+	186	QIH93979	AlpA family transcriptional regulator	-
EJB20_22435	4515582..4515767	+	186	QIH93980	hypothetical protein	-
EJB20_22440	4515752..4516333	+	582	QIH93981	DUF2857 domain-containing protein	-
EJB20_22445	4516323..4516532	+	210	QIH93982	TraR/DksA family transcriptional regulator	-
EJB20_22450	4516736..4516903	+	168	QIH93983	transcriptional regulator	-
EJB20_22455	4517472..4517705	+	234	QIH93984	hypothetical protein	-
EJB20_22460	4517778..4518488	+	711	QIH93985	type VI secretion protein	virB1
EJB20_22465	4518488..4518781	+	294	QIH93986	TriB protein	virB2
EJB20_22470	4518794..4521532	+	2739	QIH93987	ATPase	virb4
EJB20_22475	4521550..4522257	+	708	QIH93988	type IV secretion system protein VirB5	-
EJB20_22480	4522265..4522507	+	243	QIH93989	hypothetical protein	-
EJB20_22485	4522511..4523584	+	1074	QIH93990	type IV secretion system protein	virB6
EJB20_22490	4523806..4524489	+	684	QIH93991	type IV secretion system protein	virB8
EJB20_22495	4524489..4525394	+	906	QIH94588	P-type conjugative transfer protein VirB9	virB9
EJB20_22500	4525438..4526688	+	1251	QIH93992	type VI secretion protein	virB10
EJB20_22505	4526678..4527703	+	1026	QIH93993	P-type DNA transfer ATPase VirB11	virB11
EJB20_22510	4527700..4528098	+	399	QIH93994	Cag pathogenicity island protein Cag12	-
EJB20_22515	4528134..4528439	+	306	QIH93995	conjugal transfer protein	-
EJB20_22520	4528473..4528778	+	306	QIH93996	dpoa decarboxylase	-
EJB20_22525	4528889..4529191	+	303	QIH93997	hypothetical protein	-
EJB20_22530	4529210..4529491	+	282	QIH93998	hypothetical protein	-
EJB20_22535	4529488..4531347	+	1860	QIH93999	MFS transporter	virb4
EJB20_22540	4531357..4532103	+	747	QIH94000	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-
EJB20_22545	4532297..4533244	-	948	QIH94001	DUF1738 domain-containing protein	-
EJB20_22550	4533582..4534172	+	591	QIH94002	hypothetical protein	-
EJB20_22555	4534169..4535128	+	960	QIH94003	DUF4868 domain-containing protein	-

Host bacterium

• ID: 156
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpn6-1
• GenBank: CP034316
• Element size: 4978738 bp
• Coordinate of oriT [Strand]: 79030..79153 [+]
• Host bacterium: Klebsiella pneumoniae strain 6
• Coordinate of element: 4450090..4542433

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: -