Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 102428
• Name: oriT_pIncN2
• Organism: Klebsiella pneumoniae strain BA9984
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_JACWHM010000027 (18606..18695 [-], 90 nt)
• oriT length: 90 nt
• IRs (inverted repeats): 34..41, 44..51 (AGTGCGAT..ATCGCACT)
• Location of nic site: 62..63
• Conserved sequence flanking the nic site: GGTGTATAGC
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 90 nt

>oriT_pIncN2
TATTTCATTTTTTGTTTTTTTAATCAGTTAGTTAGTGCGATTCATCGCACTGCGTTAGGTGTATAGCAGGTTAAGGGCTAAAAAATAATC

oriT secondary structure

Predicted by RNAfold.

Relaxase

mobF_IDM42_RS26120_pIncN2

• ID: 1816
• GenBank: WP_024561907
• Name: mobF_IDM42_RS26120_pIncN2
• UniProt ID: H1ZMV6
• Length: 1072 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1072 a.a.
• Molecular weight: 118896.59 Da
• Isoelectric Point: 6.4636

>WP_024561907.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRIDIASVVGYYADAKDDYYSKDSSFTAWHGQGAEALGLSGEVSSQRFKELLVGEIDPFTQMK
RSSGDATKERLGYDLTFSAPKGVSMQALIHGDKAIIAAHEKAVAAAVQEAEKLAQARTTHAGKTITQNTG
NLVVASFRHETSRALDPELHTHAFVMNMTQRGDGQWRALKNDELMRAKMHLGDVYKQELALELTKAGYEL
RYNNKNNTFDMAHFTDEQIRGFSRRSAQIEEGLAAMGLTRETADAQTKSRVSMATRDKKTDDYSREDIHK
EWVNRANELGIDFNDLSWAGKGKDGPQTSMNTVPNFTSPEVKADRAIQFALKSLSERDASFDQSRLLAVA
NKKAIGQASKQDIEAAYYRAVAKGAIIEGEARYTTTTDQRSKDAPPLPAMTKAEWQAQLTDKKGMNNDQA
KALVAEGIKSGRLKKTSHRVTTVEGIRVEKAVLNIEARGRGKVIAALTSEQVTAQLVGKTLKAEQQKSVV
DICTTTDRFVAAHGFAGTGKSYMTMSAKAVLESQGFNVTALAPYGTQKKSLEDEGMPARTVAAFVKAKDK
KIDEKSVVFIDEAGVIPARQMKVLMETIEKAGARAVFLGDTSQTKAVEAGKPFEQLISAGMQTSYMKDIQ
RQKNDVLLEAVKLAAEGHISGSLARLSNISAEKDQDKRLEAVANRWLSFSPEQREGTLIISGTNESRVIL
NSQIREALQLQGKGVEVNFLERVDSTQAERRDSKYYQVGQIIIPEKDYKNGLQRGESYRVLDTGPGNLLT
VAGSDGQKISFSPRTHKNLSVYTSVAAELAVGDKVMVTRNDKTLDVANGDRFTVTGTTEKGTFTLTNAKG
REIELDQKQAAYLSYAYATTVHKAQGLTCDRVLFNIDTRSLTTSKDVFYVGISRARHEVEIFTDDKKRLL
SSASRNSPKTTASEIDRFLGMEERYKDVNRSYGHSDGQQEKSYGHDAGHQTEEKENTMKNATEAAHDGPD
TSGTENTSQDLRQREQEEVNAAIRYEQRQEATPEMEANPYHDYERYADEGPDYGDMQDYSTYEEYERARD
VELPQHEHENHQHDHDKEGYGL

Protein domains

Predicted by InterproScan.

• TrwC relaxase (TrwC) (16-288)

• AAA domain (AAA_30) (480-656)

• UvrD-like helicase C-terminal domain (UvrD_C_2) (855-899)

Protein structure

• AlphaFold DB: H1ZMV6

T4CP

t4cp2_IDM42_RS26115_pIncN2

• ID: 1404
• GenBank: WP_063131939
• Name: t4cp2_IDM42_RS26115_pIncN2
• UniProt ID: _
• Length: 510 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 510 a.a.
• Molecular weight: 57872.95 Da
• Isoelectric Point: 9.5852

>WP_063131939.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MTEQERGLIFLCSLLGPIPFVWFITAKFVYGINSETAHYLVPYLLKNTFNLWPLWVAIIAGAVIGLCGFI
GFIIYDKGRVYKGPRFKRVLRGTKLVRASSLAEKTKERGHKQLTVAGVPVPTEYETLHFSIGGATGTGKS
TIIKEAIYSSMKRGTDKRIVLDPNGEYVETFYRPGDVILSPYDKRSPGWSMFNEIRDDFDYDLYAVSIIQ
ESKERSAEEWYRYGRLIYREVSKKLLTLKRSPTMEEVMHWCTIVENEKLKEFVKGTPAEALFIKGAERAT
GSARFVLGDKLAPHLKMPAGDFSLRDWLEDDKPGTLFITWQEQMKKSLNPLISCWLDIMFSSLLGMGKRD
QRTLFFIDELESLEYLPNLQDLLTKGRKSGASVWAGYQTYSQLIERYGINIAETLLGSMRSGIVMGSSRL
GKETLEQMSRALGEIEGEVEHKQGNPFQAGIGNRPRIETRTVRAVTPTEISELKNLTGYVYFPGDLPVGK
FKTKHVQYTRKNPVPGIIMR

Protein domains

Predicted by InterproScan.

• Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind) (113-492)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 34041..44329

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
IDM42_RS26150 (IDM42_26140)	31805..32380	+	576	WP_000904911	recombinase family protein	-
IDM42_RS26160 (IDM42_26150)	33209..33520	-	312	WP_000570332	hypothetical protein	-
IDM42_RS26165 (IDM42_26155)	33517..34029	-	513	WP_029697418	phospholipase D family protein	-
IDM42_RS26170 (IDM42_26160)	34041..35042	-	1002	WP_001076634	ATPase, T2SS/T4P/T4SS family	virB11
IDM42_RS26175 (IDM42_26165)	35093..36226	-	1134	WP_000101920	type IV secretion system protein VirB10	virB10
IDM42_RS26180 (IDM42_26170)	36226..37113	-	888	WP_000758230	TrbG/VirB9 family P-type conjugative transfer protein	virB9
IDM42_RS26185 (IDM42_26175)	37124..37819	-	696	WP_001208352	type IV secretion system protein	virB8
IDM42_RS28735	37830..37961	-	132	WP_032493177	hypothetical protein	-
IDM42_RS26190 (IDM42_26180)	38038..39075	-	1038	WP_014014948	type IV secretion system protein	virB6
IDM42_RS26195 (IDM42_26185)	39092..39334	-	243	WP_000858958	EexN family lipoprotein	-
IDM42_RS26200 (IDM42_26190)	39344..40057	-	714	WP_000644929	type IV secretion system protein	virB5
IDM42_RS26205 (IDM42_26195)	40073..42646	-	2574	WP_032493176	VirB4 family type IV secretion/conjugal transfer ATPase	virb4
IDM42_RS26210 (IDM42_26200)	42647..42964	-	318	WP_000462629	VirB3 family type IV secretion system protein	virB3
IDM42_RS26215 (IDM42_26205)	43004..43345	-	342	WP_001121032	TrbC/VirB2 family protein	virB2
IDM42_RS26220 (IDM42_26210)	43547..44329	-	783	WP_024562119	lytic transglycosylase domain-containing protein	virB1
IDM42_RS26225 (IDM42_26215)	44429..44746	+	318	WP_000960955	H-NS family nucleoid-associated regulatory protein	-
IDM42_RS26230 (IDM42_26220)	44750..45100	+	351	WP_000528713	hypothetical protein	-
IDM42_RS26235 (IDM42_26225)	45097..45435	+	339	WP_000040982	hypothetical protein	-
IDM42_RS26240 (IDM42_26230)	45439..45747	+	309	WP_000733764	hypothetical protein	-
IDM42_RS26245 (IDM42_26235)	46032..46217	+	186	WP_024562121	ribbon-helix-helix domain-containing protein	-
IDM42_RS26250 (IDM42_26240)	46214..46822	-	609	WP_000275218	recombinase family protein	-
IDM42_RS26255 (IDM42_26245)	46988..47320	-	333	WP_000140165	hypothetical protein	-

Host bacterium

• ID: 2872
• GenBank: NZ_JACWHM010000027
• Plasmid name: pIncN2
• Incompatibility group: IncN2
• Plasmid size: 47459 bp
• Coordinate of oriT [Strand]: 18606..18695 [-]
• Host baterium: Klebsiella pneumoniae strain BA9984

Cargo genes

• Drug resistance gene: -
• Virulence gene: -
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -