Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200187
• Name: oriT_ICEKpnCAV1016-1
• Organism: Klebsiella pneumoniae strain CAV1016
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP017934 (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_ICEKpnCAV1016-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_AGE75_25645_ICEKpnCAV1016-1

• ID: 16649
• GenBank: APB53232
• Name: t4cp2_AGE75_25645_ICEKpnCAV1016-1
• 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

>APB53232.1 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_AGE75_25685_ICEKpnCAV1016-1

• ID: 16650
• GenBank: APB53239
• Name: t4cp2_AGE75_25685_ICEKpnCAV1016-1
• 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

>APB53239.1 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: 5174336..5184253

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
AGE75_25640	5169936..5170682	-	747	APB53231	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-
AGE75_25645	5170692..5172551	-	1860	APB53232	MFS transporter	-
AGE75_25650	5173261..5173566	-	306	APB53233	dpoa decarboxylase	-
AGE75_25655	5174336..5175361	-	1026	APB53234	P-type DNA transfer ATPase VirB11	virB11
AGE75_25660	5175351..5176601	-	1251	APB53235	type VI secretion protein	virB10
AGE75_25665	5176637..5177542	-	906	APB53638	P-type conjugative transfer protein VirB9	virB9
AGE75_25670	5177542..5178225	-	684	APB53236	hypothetical protein	virB8
AGE75_25675	5178447..5179520	-	1074	APB53237	conjugal transfer protein TrbL	virB6
AGE75_25680	5179774..5180481	-	708	APB53238	type IV secretion system protein VirB5	-
AGE75_25685	5180499..5183237	-	2739	APB53239	ATPase	virb4
AGE75_25690	5183250..5183543	-	294	APB53240	TriB protein	virB2
AGE75_25695	5183543..5184253	-	711	APB53241	type VI secretion protein	virB1
AGE75_25700	5184326..5184559	-	234	APB53242	hypothetical protein	-
AGE75_25705	5185128..5185256	-	129	APB53243	transcriptional regulator	-
AGE75_25710	5185698..5186279	-	582	APB53244	hypothetical protein	-
AGE75_25715	5186468..5186653	-	186	APB53245	DNA-binding protein	-
AGE75_25720	5186793..5187719	-	927	APB53246	hypothetical protein	-

Host bacterium

• ID: 178
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnCAV1016-1
• GenBank: CP017934
• Element size: 5387681 bp
• Coordinate of oriT [Strand]: 11944..12067 [-]
• Host bacterium: Klebsiella pneumoniae strain CAV1016
• Coordinate of element: 5160854..5219052

Cargo genes

• Drug resistance gene: -
• Virulence gene: fyuA, ybtE, ybtT, ybtU, irp1, irp2, ybtA, ybtP, ybtQ, ybtX, ybtS
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -