Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200245
• Name: oriT_ICEKpnKp52.145-1
• Organism: Klebsiella pneumoniae str. Kp52.145
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): FO834906 (81697..81820 [+], 124 nt)
• oriT length: 124 nt
• IRs (inverted repeats): 95..102, 106..113 (GTCGCGCG..CGCGCGAC) 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_ICEKpnKp52.145-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCGCGACGGTGTGCCGCC

oriT secondary structure

Predicted by RNAfold.

T4CP

virB3-4_BN49_3600_ICEKpnKp52.145-1

• ID: 16737
• GenBank: CDO15352
• Name: virB3-4_BN49_3600_ICEKpnKp52.145-1
• 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

>CDO15352.1 virB3-4 [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.

mobB_BN49_3611_ICEKpnKp52.145-1

• ID: 16738
• GenBank: CDO15363
• Name: mobB_BN49_3611_ICEKpnKp52.145-1
• UniProt ID: _
• Length: 584 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 584 a.a.
• Molecular weight: 66196.58 Da
• Isoelectric Point: 7.7657

>CDO15363.1 mobB [Klebsiella pneumoniae]
MEKIDMGSHLMQRLNAFADAFSFFLLWLQNSPVILSLFAGLTLPFIVNLPREERKNAPFWLKSVACVSIF
FFIFGTISPLTIQGLSYFFKLLDNNILFRIPLWIMTVTFTTAGLFFHIAARRVLAGEIDNLKHRIIKKTK
LERNTRTDVRKVKELLPESIEYNPLDYIDLKKGAFIGLNKDDQPQYITIKEFKTQHAAIIGTTGSGKGVT
ATVLLYQAILAGEAVFVEDPKDDEWAPHILREACKKAGKKFTLINLNKLNFQLDLLADISHEQLEELFNA
GFSLAKKGEASDFYRISDRRAARNTSAIYEKGMTLYDLFNTDFVQSLRQAAPAFFGELEEVALVNSINAT
NGFSLKEVFDEGGCCYIIGSTRNQKIISAQRMILTRLIQIAETRDRINSTPRTVAIFLDELKYHLSRPAL
EGLGTARDKGVHIFMAFQAIDDLRDCPSDLNGDAVIGAIIENAKFKLIYKIQNPETAEWAAKMTGSILVD
DEMRKVRTDLSLTEKMDTDRMIRQAESYYVDSNMFLNLPEKVGFVFTTKELAKATKMSHILVKKKHIELL
SFENPQSVQPQPEINEQNKPSINL

Protein domains

Predicted by InterproScan.

• Helicase HerA, central domain (DUF87) (179-233)

• TraM recognition site of TraD and TraG (TraG-D_C) (404-495)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 3748954..3762471

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
BN49_3593	3745620..3746414	+	795	CDO15345	-	-
BN49_3594	3746554..3746739	+	186	CDO15346	-	-
BN49_3595	3746928..3747509	+	582	CDO15347	-	-
BN49_3596	3747858..3748118	-	261	CDO15348	-	-
BN49_3597	3748646..3748930	-	285	CDO15349	-	-
BN49_3598	3748954..3749664	+	711	CDO15350	-	virB1
BN49_3599	3749664..3749957	+	294	CDO15351	-	virB2
BN49_3600	3749970..3752708	+	2739	CDO15352	-	virb4
BN49_3601	3752726..3753433	+	708	CDO15353	-	-
BN49_3602	3753441..3753683	+	243	CDO15354	-	-
BN49_3603	3753687..3754760	+	1074	CDO15355	-	virB6
BN49_3604	3754981..3755664	+	684	CDO15356	-	virB8
BN49_3605	3755661..3756569	+	909	CDO15357	-	virB9
BN49_3606	3756607..3757863	+	1257	CDO15358	-	virB10
BN49_3607	3757853..3758878	+	1026	CDO15359	-	virB11
BN49_3608	3758875..3759282	+	408	CDO15360	-	-
BN49_3609	3759648..3759953	+	306	CDO15361	-	-
BN49_3610	3760064..3760366	+	303	CDO15362	-	-
BN49_3611	3760717..3762471	+	1755	CDO15363	-	virb4
BN49_3612	3762468..3763244	+	777	CDO15364	-	-
BN49_3613	3764513..3765025	-	513	CDO15365	-	-
BN49_3614	3765060..3765782	-	723	CDO15366	-	-
BN49_3615	3765775..3767289	-	1515	CDO15367	-	-

Host bacterium

• ID: 224
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEKpnKp52.145-1
• GenBank: FO834906
• Element size: 5438894 bp
• Coordinate of oriT [Strand]: 81697..81820 [+]
• Host bacterium: Klebsiella pneumoniae str. Kp52.145
• Coordinate of element: 3678598..3813272

Cargo genes

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