Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200170
• Name: oriT_ICEKpnAR_0138-1
• Organism: Klebsiella pneumoniae strain AR_0138
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP021757 (46133..46256 [+], 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_ICEKpnAR_0138-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_AM385_06685_ICEKpnAR_0138-1

• ID: 16621
• GenBank: ASA08443
• Name: t4cp2_AM385_06685_ICEKpnAR_0138-1
• 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

>ASA08443.1 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.

t4cp2_AM385_06750_ICEKpnAR_0138-1

• ID: 16622
• GenBank: ASA08455
• Name: t4cp2_AM385_06750_ICEKpnAR_0138-1
• 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

>ASA08455.1 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.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1286884..1296801

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AM385_06635	1283361..1283774	+	414	Protein_1309	hypothetical protein	-
AM385_06640	1283790..1284344	+	555	ASA12203	hypothetical protein	-
AM385_06645	1284484..1284669	+	186	ASA08436	transcriptional regulator	-
AM385_06650	1284691..1284873	+	183	ASA12204	hypothetical protein	-
AM385_06655	1284858..1285439	+	582	ASA08437	hypothetical protein	-
AM385_06660	1285429..1285638	+	210	ASA08438	conjugal transfer protein TraR	-
AM385_06665	1285881..1286009	+	129	ASA08439	transcriptional regulator	-
AM385_06670	1286578..1286811	+	234	ASA08440	hypothetical protein	-
AM385_06675	1286884..1287594	+	711	ASA08441	type VI secretion protein	virB1
AM385_06680	1287594..1287887	+	294	ASA08442	TriB protein	virB2
AM385_06685	1287900..1290638	+	2739	ASA08443	ATPase	virb4
AM385_06690	1290656..1291363	+	708	ASA08444	type IV secretion system protein VirB5	-
AM385_06695	1291371..1291613	+	243	ASA08445	hypothetical protein	-
AM385_06700	1291617..1292690	+	1074	ASA08446	conjugal transfer protein TrbL	virB6
AM385_06705	1292912..1293595	+	684	ASA08447	hypothetical protein	virB8
AM385_06710	1293595..1294500	+	906	ASA12205	P-type conjugative transfer protein VirB9	virB9
AM385_06715	1294536..1295786	+	1251	ASA08448	type VI secretion protein	virB10
AM385_06720	1295776..1296801	+	1026	ASA08449	P-type DNA transfer ATPase VirB11	virB11
AM385_06725	1296798..1297196	+	399	ASA08450	Cag pathogenicity island protein Cag12	-
AM385_06730	1297232..1297537	+	306	ASA08451	conjugal transfer protein	-
AM385_06735	1297571..1297876	+	306	ASA08452	dpoa decarboxylase	-
AM385_06740	1297897..1298289	+	393	ASA08453	hypothetical protein	-
AM385_06745	1298308..1298586	+	279	ASA08454	hypothetical protein	-
AM385_06750	1298586..1300445	+	1860	ASA08455	MFS transporter	-
AM385_06755	1300455..1301201	+	747	ASA08456	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-

Host bacterium

• ID: 164
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnAR_0138-1
• GenBank: CP021757
• Element size: 5406723 bp
• Coordinate of oriT [Strand]: 46133..46256 [+]
• Host bacterium: Klebsiella pneumoniae strain AR_0138
• Coordinate of element: 1252085..1310283

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: -