Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200274
• Name: oriT_ICEKpn1158-1
• Organism: Klebsiella pneumoniae subsp. pneumoniae 1158
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP006722 (62490..62613 [-], 124 nt)
• oriT length: 124 nt
• IRs (inverted repeats): 42..47, 59..64 (TTTTTC..GAAAAA)
• Location of nic site: _
• Conserved sequence flanking the nic site: _
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 124 nt

>oriT_ICEKpn1158-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCGATTTTTTCGAGCTTGCGAGGAAAAATAGGCTAAACGCAGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCAAGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_P243_1841_ICEKpn1158-1

• ID: 16792
• GenBank: AJC03920
• Name: t4cp2_P243_1841_ICEKpn1158-1
• UniProt ID: _
• Length: 579 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 579 a.a.
• Molecular weight: 65600.95 Da
• Isoelectric Point: 8.0502

>AJC03920.1 MobB protein [Klebsiella pneumoniae subsp. pneumoniae 1158]
MGSHLMQRLNAFADAFSFFLLWLQNSPVILSLLAGLTLPFILHLPREERKNAPFWLKSVACVSIFFFIFG
TISPLTIQGLSYFFKSLDNNILFRVPLWMMTIIFTAAGLIFHIAARRLFAGEIDNLKHRMIKKSKLERNT
RTDVRKVKELLPESIEYNPLDYIDLKKGAFIGLNKNDQPQYITIKEFKTQHAAIIGTTGSGKSVTAAILL
YQAILAGEAVFVEDPKDDEWAPHVLREACKKAGKKFTLINLNKPNFQLDLLADISHEQLEELFNAGFSLA
KKGEASDFYRISDRRAARNTSAIYEKGMTLYDLFNTDFVQSLRQAAPAFFGELEEVALVNSINATNGFSL
KEVFDEGGCCYIIGSTRNQKIISAQRMILTRLIQIAEIRDRINSKPRTAAIFLDELKYHISRPALEGLGT
ARDKGVHIFMAFQAIDDLRDCPADLNPESVIGAVVENAKFKLVYQLQNPETAEWVARMTGSILVDDEMRK
VKTDIALTEKMETDRMIRQAESYYVDSNMFLNLPEKVGFVFTTKELAKATKMSPILVKKKHIELLSFENP
QSEQPQTEINEQNKPSINL

Protein domains

Predicted by InterproScan.

• Helicase HerA, central domain (DUF87) (174-227)

• TraM recognition site of TraD and TraG (TraG-D_C) (401-490)

Protein structure

No available structure.

t4cp2_P243_1852_ICEKpn1158-1

• ID: 16793
• GenBank: AJC03931
• Name: t4cp2_P243_1852_ICEKpn1158-1
• UniProt ID: _
• Length: 912 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 912 a.a.
• Molecular weight: 103110.06 Da
• Isoelectric Point: 7.2990

>AJC03931.1 VirB4 [Klebsiella pneumoniae subsp. pneumoniae 1158]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGAWPLGTFTEGSAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYWRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL

Protein domains

Predicted by InterproScan.

• TraG P-loop domain (P-loop_TraG) (535-813)

• CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB) (269-470)

• Type IV secretory pathway, VirB3-like protein (VirB3) (3-79)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1946837..1960688

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
P243_1837	1942027..1943532	+	1506	AJC03916	Beta-lactamase	-
P243_1838	1943678..1944247	+	570	AJC03917	iron aquisition yersiniabactin synthesis enzyme (YbtT,resembles thioesterases)	-
P243_1839	1944282..1944794	+	513	AJC03918	hypothetical protein	-
P243_1840	1946064..1946828	-	765	AJC03919	hypothetical protein	-
P243_1841	1946837..1948576	-	1740	AJC03920	MobB protein	virb4
P243_1842	1949353..1949658	-	306	AJC03921	hypothetical protein	-
P243_1843	1950434..1951459	-	1026	AJC03922	VirB11	virB11
P243_1844	1951449..1951769	-	321	AJC03923	hypothetical protein	-
P243_1845	1951781..1953025	-	1245	AJC03924	VirB10	virB10
P243_1846	1953072..1953980	-	909	AJC03925	VirB9	virB9
P243_1847	1953977..1954660	-	684	AJC03926	VirB8	virB8
P243_1848	1954690..1954809	+	120	AJC03927	hypothetical protein	-
P243_1849	1954882..1955955	-	1074	AJC03928	Inner membrane protein of type IV secretion of T-DNA complex, VirB6	virB6
P243_1850	1955959..1956201	-	243	AJC03929	IncQ plasmid conjugative transfer protein TraG	-
P243_1851	1956209..1956916	-	708	AJC03930	Minor pilin of type IV secretion complex (VirB5)	-
P243_1852	1956934..1959672	-	2739	AJC03931	VirB4	virb4
P243_1853	1959685..1959864	-	180	AJC03932	hypothetical protein	virB2
P243_1854	1959978..1960688	-	711	AJC03933	VirB1	virB1
P243_1855	1960761..1960994	-	234	AJC03934	hypothetical protein	-
P243_1856	1961255..1961395	+	141	AJC03935	hypothetical protein	-
P243_1857	1961563..1961691	-	129	AJC03936	hypothetical protein	-
P243_1858	1962133..1962714	-	582	AJC03937	hypothetical protein	-
P243_1859	1963228..1964154	-	927	AJC03938	hypothetical protein	-

Host bacterium

• ID: 251
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpn1158-1
• GenBank: CP006722
• Element size: 5341039 bp
• Coordinate of oriT [Strand]: 62490..62613 [-]
• Host bacterium: Klebsiella pneumoniae subsp. pneumoniae 1158
• Coordinate of element: 1886399..1995488

Cargo genes

• Drug resistance gene: -
• Virulence gene: clbA, clbB, clbC, clbD, clbE, clbF, clbG, clbH, clbI, clbJ, clbK, clbL, clbM, clbN, clbO, clbP, clbQ, clbS, fyuA, ybtE, ybtT, ybtU, irp1, irp2, ybtA, ybtP, ybtQ, ybtX, ybtS
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -