Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200280
• Name: oriT_ICEKpnSCKP040074-1
• Organism: Klebsiella pneumoniae subsp. pneumoniae strain SCKP040074
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP029388 (46149..46272 [+], 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_ICEKpnSCKP040074-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGGGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_CVG30_10025_ICEKpnSCKP040074-1

• ID: 16804
• GenBank: AWL50721
• Name: t4cp2_CVG30_10025_ICEKpnSCKP040074-1
• 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

>AWL50721.1 ATPase [Klebsiella pneumoniae subsp. 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_CVG30_10090_ICEKpnSCKP040074-1

• ID: 16805
• GenBank: AWL50733
• Name: t4cp2_CVG30_10090_ICEKpnSCKP040074-1
• UniProt ID: _
• Length: 619 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 619 a.a.
• Molecular weight: 69593.94 Da
• Isoelectric Point: 6.8250

>AWL50733.1 MFS transporter [Klebsiella pneumoniae subsp. pneumoniae]
MILNKLAASLSPIVNGMLALLAFVQQQQLMLALLAGLTMPFFASMKSDERQKAPLWKKLIIAFSLLCFLS
GTLAPVVIGSFQWLYKIRPTSDNTVLAWSVRIAFTVTGIIFHIMLRRIFTPELDKIKKRLVKKTTLEREL
RTDVRTVKSLLPETLHYNPLDYIDLNKGIFTGMGRENKPMYFPLKDWQKQHADIIGTTGAGKGVAAGILL
YQSILAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARIAAQFVSDNPSTTIRDVYNGDYVQSIAEKIKAFFGKIEELALLNAINSPEGF
SLKHIFDEGGCCYVVGSMRNSKIITAQRMLLVRLYQLAEKRDRVTDVPRPIAVYLSELKYHLSRSALEGL
GAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKLVYRVMDPDTAEWVARMSGTILVDDEL
RKAKTDNMLTETIDCERTIRQAERFFIDSNMILNLPDFVSFIFTTKTLPSASLVSPIKVRKRQLKTFSVS
PDIAAAVAPVKIMLDFCEDDKPAMPDVMTTHPALFFDESEVKPVKPKPDDEEHLSPLDF

Protein domains

Predicted by InterproScan.

• Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind) (417-542)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1622634..1632585

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CVG30_09980	1619129..1620112	+	984	AWL50712	hypothetical protein	-
CVG30_09985	1620252..1620437	+	186	AWL50713	AlpA family transcriptional regulator	-
CVG30_09990	1620456..1620641	+	186	AWL50714	hypothetical protein	-
CVG30_09995	1620626..1621207	+	582	AWL50715	DUF2857 domain-containing protein	-
CVG30_10000	1621197..1621406	+	210	AWL50716	TraR/DksA family transcriptional regulator	-
CVG30_10005	1621610..1621777	+	168	AWL50717	transcriptional regulator	-
CVG30_10010	1622346..1622579	+	234	AWL50718	hypothetical protein	-
CVG30_10015	1622634..1623362	+	729	AWL50719	type VI secretion protein	virB1
CVG30_10020	1623362..1623655	+	294	AWL50720	TriB protein	virB2
CVG30_10025	1623668..1626406	+	2739	AWL50721	ATPase	virb4
CVG30_10030	1626424..1627131	+	708	AWL50722	type IV secretion system protein VirB5	-
CVG30_10035	1627139..1627381	+	243	AWL50723	hypothetical protein	-
CVG30_10040	1627385..1628458	+	1074	AWL50724	conjugal transfer protein TrbL	virB6
CVG30_10045	1628680..1629363	+	684	AWL50725	type IV secretion system protein	virB8
CVG30_10050	1629360..1630268	+	909	AWL50726	P-type conjugative transfer protein VirB9	virB9
CVG30_10055	1630314..1631570	+	1257	AWL50727	type VI secretion protein	virB10
CVG30_10060	1631560..1632585	+	1026	AWL50728	P-type DNA transfer ATPase VirB11	virB11
CVG30_10065	1632582..1632980	+	399	AWL50729	Cag pathogenicity island protein Cag12	-
CVG30_10070	1633016..1633321	+	306	AWL50730	conjugal transfer protein	-
CVG30_10075	1633355..1633660	+	306	AWL50731	dpoa decarboxylase	-
CVG30_10080	1633681..1634072	+	392	Protein_1651	hypothetical protein	-
CVG30_10085	1634091..1634372	+	282	AWL50732	hypothetical protein	-
CVG30_10090	1634369..1636228	+	1860	AWL50733	MFS transporter	-
CVG30_10095	1636238..1636984	+	747	AWL50734	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-

Host bacterium

• ID: 257
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnSCKP040074-1
• GenBank: CP029388
• Element size: 5288751 bp
• Coordinate of oriT [Strand]: 46149..46272 [+]
• Host bacterium: Klebsiella pneumoniae subsp. pneumoniae strain SCKP040074
• Coordinate of element: 1587852..1649621

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: -