Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 106500
• Name: oriT_Stebra 1|unnamed2
• Organism: Hafnia paralvei strain Stebra
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_JAMBPL010000019 (30382..30464 [-], 83 nt)
• oriT length: 83 nt
• IRs (inverted repeats): 27..34, 37..44 (AGTGCGAT..ATCGCACT) 13..18, 32..37 (TAAATC..GATTTA)
• Location of nic site: 55..56
• Conserved sequence flanking the nic site: GGTGTATAGC
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 83 nt

>oriT_Stebra 1|unnamed2
TTTTTTGTTTTTTAAATCAGTTAGTTAGTGCGATTTATCGCACTGCGTTAGGTGTATAGCAGGTTAAGGGCTAAAAAATAATC

oriT secondary structure

Predicted by RNAfold.

Relaxase

mobF_MXF75_RS21245_Stebra 1|unnamed2

• ID: 4329
• GenBank: WP_014014966
• Name: mobF_MXF75_RS21245_Stebra 1|unnamed2
• UniProt ID: I7CZU5
• Length: 1068 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1068 a.a.
• Molecular weight: 118452.14 Da
• Isoelectric Point: 6.4309

>WP_014014966.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRIDIASVVGYYADAKDDYYSKDSSFTAWHGQGAEALGLSGEVSSQRFKELLVGEIDPFTQMK
RSSGDATKERLGYDLTFSAPKGVSMQALIHGDKAIIAAHEKAVAAAVQEAEKLAQARTTHAGKTITQNTG
NLVVASFRHETSRALDPELHTHAFVMNMTQRGDGQWRALKNDELMRAKMHLGDVYKQELALELTKAGYEL
RYNNKNNTFDMAHFTDEQIRGFSRRSAQIEEGLAAMGLTRETADAQTKSRVSMATRDKKTDDYSREDIHK
EWVNRANELGIDFNDLSWAGKGKDGPQTSMNTVPNFTSPEVKADRAIQFALKSLSERDASFDQSRLLAVA
NKKAIGQASKQDIEAAYYRAVAKGAIIEGEARYTTTTDQRSKDAPPLPAMTKAEWQAQLTDKKGMNNDQA
KALVAEGIKSGRLKKTSHRVTTVEGIRVEKAVLNIEARGRGKVIAALTSEQVTAQLVGKTLKAEQQKSVV
DICTTTDRFVAAHGFAGTGKSYMTMSAKAVLESQGFNVTALAPYGTQKKSLEDEGMPARTVAAFVKAKDK
KIDEKSVVFIDEAGVIPARQMKVLMETIEKAGARAVFLGDTSQTKAVEAGKPFEQLISAGMQTSYMKDIQ
RQKNDVLLEAVKLAAEGHISGSLARLSNISAEKDQDKRLEAVANRWLSFSPEQREGTLIISGTNESRVIL
NSQIREALQLQGKGVEVNFLERVDSTQAERRDSKYYQVGQIIIPEKDYKNGLQRGESYRVLDTGPGNLLT
VAGSDGQKISFSPRTHKNLSVYTSVAAELAVGDKVMVTRNDKTLDVANGDRFTVTGTTEKGTFTLTNAKG
REIELDQKQAAYLSYAYATTVHKAQGLTCDRVLFNIDTRSLTTSKDVFYVGISRARHEVEIFTDDKKRLL
SSASRNSPKTTASEIDRFLGMEERYKDVNRSDGQQEKSYGHDAGHQTEEKENTMKNATEAAHDGPDTSGT
ENTSQDLRQREQEEVNAAIRYEQRQEATPEMEANPYHDYERYADEGPDYGDMQDYSTYEEYERARDVELP
QHEHENHQHDHDKEGYGL

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: I7CZU5

T4CP

t4cp2_MXF75_RS21240_Stebra 1|unnamed2

• ID: 4352
• GenBank: WP_014014965
• Name: t4cp2_MXF75_RS21240_Stebra 1|unnamed2
• UniProt ID: _
• Length: 510 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 510 a.a.
• Molecular weight: 58174.11 Da
• Isoelectric Point: 9.7081

>WP_014014965.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MTEQERGLIFLCSLLGPIPFVWFITAKFVYGINSETAHYLVPYLLKNTFNLWPLWVAIIAGAVIGLCGFI
GFIIYDKGRVYKGPRFKRVLRGTKLVRASSLAERTKERGHKQLTVAGVPVPTEYETLHFSIGGATGTGKS
TIIKEAIYSSLKRGRDKRVILDPNGEYVETFYRENDIILNPYDKRSPGWSMFNEIRDEFDYDLYAVSIIQ
ESKERSAEEWYRYGRLLYREVSKKLLTHKRNPSMEEVLYWCNVAEYDKVKDFVKGTPAESLFIKGAERAT
GSARFVLGDKLASHLKMPEGNFSLRDWLEDDKPGTLFITWQEQMKKSLNPLISCWLDIMFSSLLGMGKRD
QRTLFFIDELESLEYLPNLQDLLTKGRKSGASVWAGYQTFSQLVERYGINIAETLLGSMRSGIVMGSSRL
GKATLEHMSRALGEIEGEIERRQGGILQSGPNNRPRIETRTVRAVTPTEISELRNLTGYIYFPGDLPVGK
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: 5488..15770

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
MXF75_RS21040	841..1653	-	813	WP_004201164	subclass B1 metallo-beta-lactamase NDM-1	-
MXF75_RS21045	1949..2980	+	1032	WP_001395480	IS630-like element ISEc33 family transposase	-
MXF75_RS21050	2999..3745	-	747	Protein_4	IS30-like element ISAba125 family transposase	-
MXF75_RS21055	4964..5476	-	513	WP_029697418	phospholipase D family protein	-
MXF75_RS21060	5488..6489	-	1002	WP_001076634	ATPase, T2SS/T4P/T4SS family	virB11
MXF75_RS21065	6540..7679	-	1140	WP_014014945	type IV secretion system protein VirB10	virB10
MXF75_RS21070	7679..8566	-	888	WP_014014946	TrbG/VirB9 family P-type conjugative transfer protein	virB9
MXF75_RS21075	8577..9272	-	696	WP_014014947	type IV secretion system protein	virB8
MXF75_RS22755	9283..9414	-	132	WP_072000589	conjugal transfer protein TraN	-
MXF75_RS21080	9491..10528	-	1038	WP_014014948	type IV secretion system protein	virB6
MXF75_RS21085	10545..10787	-	243	WP_000858958	EexN family lipoprotein	-
MXF75_RS21090	10797..11498	-	702	WP_014014949	type IV secretion system protein	virB5
MXF75_RS21095	11514..14087	-	2574	WP_014014950	VirB4 family type IV secretion/conjugal transfer ATPase	virb4
MXF75_RS21100	14088..14405	-	318	WP_000462629	VirB3 family type IV secretion system protein	virB3
MXF75_RS21105	14445..14741	-	297	WP_015060075	TrbC/VirB2 family protein	virB2
MXF75_RS21110	14988..15770	-	783	WP_014014952	lytic transglycosylase domain-containing protein	virB1
MXF75_RS21115	15870..16187	+	318	WP_000960955	H-NS family nucleoid-associated regulatory protein	-
MXF75_RS21120	16191..16541	+	351	WP_014014953	hypothetical protein	-
MXF75_RS21125	16538..16876	+	339	WP_000040982	hypothetical protein	-
MXF75_RS21130	16880..17188	+	309	WP_000733764	hypothetical protein	-
MXF75_RS21135	17473..17658	+	186	WP_014014955	ribbon-helix-helix domain-containing protein	-
MXF75_RS21140	17655..18263	-	609	WP_000275218	recombinase family protein	-
MXF75_RS21145	18429..18761	-	333	WP_015060077	hypothetical protein	-
MXF75_RS21150	18901..19785	+	885	WP_000807122	replication protein RepA	-

Host bacterium

• ID: 6937
• GenBank: NZ_JAMBPL010000019
• Plasmid name: Stebra 1|unnamed2
• Incompatibility group: IncN2
• Plasmid size: 41182 bp
• Coordinate of oriT [Strand]: 30382..30464 [-]
• Host baterium: Hafnia paralvei strain Stebra

Cargo genes

• Drug resistance gene: blaNDM-1
• Virulence gene: -
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -