Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200190
• Name: oriT_ICEKpnCRKP-1215-1
• Organism: Klebsiella pneumoniae strain CRKP-1215
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP024838 (11944..12067 [-], 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_ICEKpnCRKP-1215-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_CU074_20260_ICEKpnCRKP-1215-1

• ID: 16655
• GenBank: ATX31519
• Name: t4cp2_CU074_20260_ICEKpnCRKP-1215-1
• UniProt ID: _
• Length: 619 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 619 a.a.
• Molecular weight: 69574.86 Da
• Isoelectric Point: 6.6673

>ATX31519.1 MFS transporter [Klebsiella pneumoniae]
MILNKLTASLSPIVNGMLAVLAFVQQKQLVLALLAGLTMPFFASMKSDERQKAPLWKKLIIAFSLLCFLS
GTLAPVVIGSFQWLYKIRPTSDNTVLAWSVRIAFTVTGIIFHIMLRRIFTPELDKIKKRLVKKTTLEREL
RTDVRTVKSLLPETLHYNPLDYIDLNKGIFTGMGRENEPMYLPLKDWQKQHADIIGTTGAGKGVAAGILL
YQSILAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARIAAQFVSDNPSTTIRDVYNGDYVQSIAEKIKAFFGKIEELALLNAINSPEGF
SLKHIFDEGGCCYVVGSMRNSKIITAQRMLLVRLYQLAEKRDRVIDVPRPIAVYLSELKYHLSRSALEGL
GAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKLVYRVMDPDTAEWVARMSGTILVDDEL
RKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTKTLPSASLISPIKVRKRQLKTFSVS
PDIAATVAPVKIMLDFCEDDKPAMSDVMTTHPALFFDESEVKPVKPKPDDEEHLSPLDF

Protein domains

Predicted by InterproScan.

• Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind) (418-542)

Protein structure

No available structure.

t4cp2_CU074_20325_ICEKpnCRKP-1215-1

• ID: 16656
• GenBank: ATX31532
• Name: t4cp2_CU074_20325_ICEKpnCRKP-1215-1
• UniProt ID: _
• Length: 912 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 912 a.a.
• Molecular weight: 103068.02 Da
• Isoelectric Point: 7.4625

>ATX31532.1 ATPase [Klebsiella pneumoniae]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGNAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFAEETATGMMDS
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: 4068542..4078477

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
CU074_20255	4064142..4064888	-	747	ATX31518	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-
CU074_20260	4064898..4066757	-	1860	ATX31519	MFS transporter	-
CU074_20265	4066757..4067035	-	279	ATX31520	hypothetical protein	-
CU074_20270	4067054..4067356	-	303	ATX31521	hypothetical protein	-
CU074_20275	4067467..4067772	-	306	ATX31522	dpoa decarboxylase	-
CU074_20280	4067806..4068111	-	306	ATX31523	conjugal transfer protein	-
CU074_20285	4068147..4068545	-	399	ATX31524	Cag pathogenicity island protein Cag12	-
CU074_20290	4068542..4069567	-	1026	ATX31525	P-type DNA transfer ATPase VirB11	virB11
CU074_20295	4069557..4070813	-	1257	ATX31526	type VI secretion protein	virB10
CU074_20300	4070843..4071751	-	909	ATX31527	P-type conjugative transfer protein VirB9	virB9
CU074_20305	4071748..4072431	-	684	ATX31528	type IV secretion system protein	virB8
CU074_20310	4072653..4073726	-	1074	ATX31529	conjugal transfer protein TrbL	virB6
CU074_20315	4073730..4073972	-	243	ATX31530	hypothetical protein	-
CU074_20320	4073980..4074687	-	708	ATX31531	type IV secretion system protein VirB5	-
CU074_20325	4074705..4077443	-	2739	ATX31532	ATPase	virb4
CU074_20330	4077456..4077749	-	294	ATX31533	TriB protein	virB2
CU074_20335	4077749..4078477	-	729	ATX31534	type VI secretion protein	virB1
CU074_20340	4078532..4078765	-	234	ATX31535	hypothetical protein	-
CU074_20345	4079334..4079501	-	168	ATX31536	transcriptional regulator	-
CU074_20350	4079705..4079914	-	210	ATX31537	conjugal transfer protein TraR	-
CU074_20355	4079904..4080485	-	582	ATX31538	DUF2857 domain-containing protein	-
CU074_20360	4080470..4080655	-	186	ATX31539	hypothetical protein	-
CU074_20365	4080674..4080859	-	186	ATX31540	AlpA family transcriptional regulator	-
CU074_20370	4080999..4081982	-	984	ATX31541	hypothetical protein	-

Host bacterium

• ID: 181
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnCRKP-1215-1
• GenBank: CP024838
• Element size: 5420542 bp
• Coordinate of oriT [Strand]: 11944..12067 [-]
• Host bacterium: Klebsiella pneumoniae strain CRKP-1215
• Coordinate of element: 4055060..4113257

Cargo genes

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