Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200268
• Name: oriT_ICEKpnNH34-1
• Organism: Klebsiella pneumoniae strain NH34
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP034408 (46129..46252 [+], 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_ICEKpnNH34-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_EJC76_11000_ICEKpnNH34-1

• ID: 16780
• GenBank: QAZ96148
• Name: t4cp2_EJC76_11000_ICEKpnNH34-1
• 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

>QAZ96148.1 ATPase [Klebsiella 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_EJC76_11065_ICEKpnNH34-1

• ID: 16781
• GenBank: QAZ99427
• Name: t4cp2_EJC76_11065_ICEKpnNH34-1
• UniProt ID: _
• Length: 619 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 619 a.a.
• Molecular weight: 69522.72 Da
• Isoelectric Point: 6.7740

>QAZ99427.1 MFS transporter [Klebsiella pneumoniae]
MILNKLTASLSPIVNGMLAVLAFVQQKQLVLALLAGLTMPFFASMKSDERQKAPLWKRLIIAFSLLCFLS
GTLAPIVIGSFQWLYKTRLTSDNTVLVWSVRIAFTVTGIIFHIMLRRVFTPELDKIKKHLVKKTTLEREL
RTDVRTVKSLLPETLHYDPLDYIDLNKGIFTGMDRENEPMYLPLKDWQKQHADIIGTTGAGKGVATGILL
YQSILAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARMAAQFVSDNPSTTIRDVYNGDYVQGIAEKIKAFFGKIEELALLNAINSPEGF
SLKKIFDEGGCCYVIGSMRNSKIITAQRMLLVRLYQLAERRERVTDVPRPIAIYLSELKYHLSRPALEGL
GAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKMVYRVMDPDTADWIARMSGTILVDDEL
RKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTTTLPSASLISPIKVRKRRLKTFSVS
PDIAAAAAPVKIALDFGDDDKPTALDVMASHPALFFDKSEVKPTKPKPDDEKDLSPLDF

Protein domains

Predicted by InterproScan.

• TraM recognition site of TraD and TraG (TraG-D_C) (417-516)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1686886..1696802

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
EJC76_10950	1683364..1683777	+	414	Protein_1694	hypothetical protein	-
EJC76_10955	1683793..1684347	+	555	QAZ99426	hypothetical protein	-
EJC76_10960	1684487..1684672	+	186	QAZ96141	AlpA family transcriptional regulator	-
EJC76_10965	1684691..1684875	+	185	Protein_1697	hypothetical protein	-
EJC76_10970	1684860..1685441	+	582	QAZ96142	DUF2857 domain-containing protein	-
EJC76_10975	1685431..1685640	+	210	QAZ96143	TraR/DksA family transcriptional regulator	-
EJC76_10980	1685844..1686011	+	168	QAZ96144	transcriptional regulator	-
EJC76_10985	1686580..1686813	+	234	QAZ96145	hypothetical protein	-
EJC76_10990	1686886..1687596	+	711	QAZ96146	type VI secretion protein	virB1
EJC76_10995	1687596..1687889	+	294	QAZ96147	TriB protein	virB2
EJC76_11000	1687902..1690640	+	2739	QAZ96148	ATPase	virb4
EJC76_11005	1690658..1691365	+	708	QAZ96149	type IV secretion system protein VirB5	-
EJC76_11010	1691373..1691615	+	243	QAZ96150	hypothetical protein	-
EJC76_11015	1691619..1692692	+	1074	QAZ96151	type IV secretion system protein	virB6
EJC76_11020	1692914..1693597	+	684	QAZ96152	type IV secretion system protein	virB8
EJC76_11025	1693597..1694501	+	905	Protein_1709	P-type conjugative transfer protein VirB9	-
EJC76_11030	1694537..1695787	+	1251	QAZ96153	type VI secretion protein	virB10
EJC76_11035	1695777..1696802	+	1026	QAZ96154	P-type DNA transfer ATPase VirB11	virB11
EJC76_11040	1696799..1697197	+	399	QAZ96155	Cag pathogenicity island protein Cag12	-
EJC76_11045	1697233..1697538	+	306	QAZ96156	conjugal transfer protein	-
EJC76_11050	1697572..1697877	+	306	QAZ96157	dpoa decarboxylase	-
EJC76_11055	1697988..1698290	+	303	QAZ96158	hypothetical protein	-
EJC76_11060	1698309..1698587	+	279	QAZ96159	hypothetical protein	-
EJC76_11065	1698587..1700446	+	1860	QAZ99427	MFS transporter	-
EJC76_11070	1700456..1701202	+	747	QAZ96160	molybdopterin-guanine dinucleotide biosynthesis protein MobC	-

Host bacterium

• ID: 245
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnNH34-1
• GenBank: CP034408
• Element size: 5427547 bp
• Coordinate of oriT [Strand]: 46129..46252 [+]
• Host bacterium: Klebsiella pneumoniae strain NH34
• Coordinate of element: 1652090..1718310

Cargo genes

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