Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 106784
• Name: oriT_pI9455333_MCR10
• Organism: Enterobacter ludwigii strain I9455333cz
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_CP122443 (94594..94642 [-], 49 nt)
• oriT length: 49 nt
• IRs (inverted repeats): 6..13, 16..23 (GCAAAATT..AATTTTGC)
• Location of nic site: 32..33
• Conserved sequence flanking the nic site: GGTGTGGTGA
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 49 nt

>oriT_pI9455333_MCR10
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

oriT secondary structure

Predicted by RNAfold.

Relaxase

traI_QCL67_RS26335_pI9455333_MCR10

• ID: 4473
• GenBank: WP_023332871
• Name: traI_QCL67_RS26335_pI9455333_MCR10
• UniProt ID: _
• Length: 1751 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1751 a.a.
• Molecular weight: 191031.21 Da
• Isoelectric Point: 6.0768

>WP_023332871.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKSAGKAGDYYTKEDNYYVIGSMDERWQGKGAEALGLEGKTVDKALFTELLKGKLPDGSDLSRI
QDGMNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIEAHNQAVTEAIRQVETLAATRVMVDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDTVGKTGFIENVYANQIAFGKIYREVLKPLVE
GLGYETEVVGKHGMWEMKDVPVEPFSTRTQEINAAAGPDASLKSRDVATLDTRKAKETLDPAQKVTEWLS
TLKETGFNLKEYREAADQRAKTQREVPSPEAPAGPNVDDIVTQAISGLSDRKVQFTYTELLARTVSQMEA
RPGVIETARAGIEAAIGREQLIPLDREKGIFTSGIHVLDELSVRALSQEVLRQNHVSMVPEKATARQTSF
SDAVTVLAQDRPAIGIVSGQGGAAGQRERVTEMAMMAREQGRDVHIIAADNRSLEFLLKEEKLAGEIITG
KSALQDGTAFVPGGTLIIDQAEKLSLKETINLLDGAMRNNVQILMSDSGKRSGTGSALTVMKESGVTAYK
WQGGKQTTASVISEPDRNQRFTRMASDFVASVRDGQESVVQIRGPREQGILTGLIRENLRNEGLIGSHEE
TITALTPVWLDSKNRGIRDNYREGMVMERWDPEKRIHDRFIIDRVTAVSNTLTLKDEKGESLNLKVSAVD
NTWTLFRPQQLPVAEGERLAILGKIPETRLKGGDTVQVLKAENGVLTVQHPGQKTTQKLAAGNTPFTGIK
VGHGWVENPGRSVSETATVFASLSQRELDNATLNALAQSGSQVRLYSAQNEQKTVEKLGRHTAFSVVTEQ
LKTRAGEQDISAAIAHQKSQLHTPAEQAIHLAVPSLESDKLTFTRPQLLVAAHEFSDGTVPFSDIEKTIG
EQIKSGDLLHVPVAAGHGNDLLISRQTWDAEKSLLTMVLEGKNAVTPLMAKVPGSLMEGLTSGQRNATRM
ILETRDRFTLVQGYAGVGKTTQFRAVMSAVNLLPEDSRPKVIGLGPTHRAVGEMQSAGVEAQTTASFLHD
TQLLMRSGQTPDFSNTLFLVDESSMLGLSDTAKAMSLIAAGGGRAVSSGDTDQLQSIAPGQPFRLMQKRS
AADVAIMQEIVRQVPELRPAVYSLIDRDIHSALSTIERVEPAQVPRKENAWVPESSVMEFTPEQEKAIQK
AIGEGEVLPDISPVSLYDAIVRDYTGRTESAQAQTLIITHLNDDRRVLNRMIHDEKMRNGELGEDSVTLP
VLVTSNIRDGELRKVSTWEAHKGAIALVDNQYHQIVGVSKADQLITLRSDEGTERLISPREASAEGVTLY
RQESITVSPGDRMRFSKSDTERGYVANSVWRVESISGDSVTLNDGKSTRTVTPAADKAEAHVDLAYAITT
HGAQGASEPFSIELEGVTGARERMVSFESAYVALSRMKQHTQVYTDDRKGWTDAVSRSQEKASAHDVLEP
LNDRAVKSAEQLFGRAIPLTESPAGRAALQQSGIARGQSTGKFISPGKKYPLPHVALPAFDRNGKSAGIW
LSPLTDKDGRLQAIGGEGRVMGNEEARFVALQGSRNGESLLAGNMGEGVRIARDNPDSGVVVRLAGDDRP
WNPGAITGGRVWGDIDAVVTGGSGANIPLPPDLLAQKTAEELQRKQIEKQAQETARELTGEKRKQDEVGE
QIKDIITDVVRGLERQKGQHERFQLPDEPENRLRNEAVQKVVADNQQQDRLQQIERDMVRDLTREKTLGG
D

Protein domains

Predicted by InterproScan.

• DNA relaxase TraI 2B/2B-like domain (TraI_2B) (634-713)

• TrwC relaxase (TrwC) (10-284)

• AAA domain (AAA_30) (970-1156)

• DNA helicase TraI (TraI_C) (1432-1554)

• single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N) (576-627)

Protein structure

No available structure.

Auxiliary protein

WP_001568107_pI9455333_MCR10

• ID: 1990
• GenBank: WP_001568107
• Name: WP_001568107_pI9455333_MCR10
• UniProt ID: _
• Length: 128 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

Auxiliary protein sequence

• Length: 128 a.a.
• Molecular weight: 14784.78 Da
• Isoelectric Point: 4.6362

>WP_001568107.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MARVQAYPSDEVVDKINAIVEKRRAEGAKEKDISFSSVATMLLELGLRVYEAQMERKESGFNQKEFNKVL
LENVMKTQFTISKVLAMDSLSPHINGDDRFDFKSMVMNIRDDAREVVERFFPSQDEEE

Protein domains

Predicted by InterproScan.

• TraM protein, DNA-binding (Tra_M) (1-125)

Protein structure

No available structure.

T4CP

traD_QCL67_RS26330_pI9455333_MCR10

• ID: 4521
• GenBank: WP_023332870
• Name: traD_QCL67_RS26330_pI9455333_MCR10
• UniProt ID: _
• Length: 735 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 735 a.a.
• Molecular weight: 82700.58 Da
• Isoelectric Point: 5.9222

>WP_023332870.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRFRMFGQIANIILYVLFLFFWVLCGLILMYRLSWQTFVNGAVYWWCTTLGPMR
DIIRSQPVYTINYYGQQLQYTSEQILKDKYTIWCGEQLWTGFVFAGTVSLIICIVAFFVASWVLGHQGKQ
QSEDEVTGGRQLSEKPKEVARKMKRDGMASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSIDKILNPLDSRCAAWDLWKECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRSVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKGIA
EFAAGEIGEKEIKKASENYSYGADPVRDGVSTGKEQKRETIVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRQLNQAIDDKLAAVLAAREAEGQSARILFMPDPVETVPVEKTDEKPASPVAAVPTP
QEDKAKVPPVTASNTFHKPASAAAAAASASVTQAGGVEQELHEKPEEQLPLPPGVNKDGEIEDMNAWDEW
QSSSDVLRDMHRREEVNINHSHHVDRDDINLGSNF

Protein domains

Predicted by InterproScan.

• Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind) (172-560)

• F sex factor protein N terminal (TraD_N) (32-128)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 94035..120881

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
QCL67_RS26140 (QCL67_26140)	89088..89375	+	288	WP_000323025	type II toxin-antitoxin system mRNA interferase RelE	-
QCL67_RS26145 (QCL67_26145)	89426..90460	-	1035	Protein_107	IS481 family transposase	-
QCL67_RS26585	90561..90623	+	63	Protein_108	hypothetical protein	-
QCL67_RS26590	90595..90693	+	99	Protein_109	Hok/Gef family protein	-
QCL67_RS26155 (QCL67_26155)	90788..91996	+	1209	WP_015386429	IS256 family transposase	-
QCL67_RS26160 (QCL67_26160)	92278..92409	-	132	WP_255344245	hypothetical protein	-
QCL67_RS26170 (QCL67_26170)	92807..93628	+	822	WP_023332864	DUF932 domain-containing protein	-
QCL67_RS26175 (QCL67_26175)	93694..94002	+	309	WP_023332865	DUF5983 family protein	-
QCL67_RS26180 (QCL67_26180)	94035..94520	-	486	WP_032629900	transglycosylase SLT domain-containing protein	virB1
QCL67_RS26185 (QCL67_26185)	94943..95329	+	387	WP_001568107	conjugal transfer relaxosome DNA-binding protein TraM	-
QCL67_RS26190 (QCL67_26190)	95549..96238	+	690	WP_001568106	helix-turn-helix domain-containing protein	-
QCL67_RS26195 (QCL67_26195)	96413..96577	+	165	WP_071594636	TraY domain-containing protein	-
QCL67_RS26200 (QCL67_26200)	96656..97024	+	369	WP_001568105	type IV conjugative transfer system pilin TraA	-
QCL67_RS26205 (QCL67_26205)	97104..97472	+	369	WP_001568104	type IV conjugative transfer system pilin TraA	-
QCL67_RS26210 (QCL67_26210)	97486..97791	+	306	WP_024191986	type IV conjugative transfer system protein TraL	traL
QCL67_RS26215 (QCL67_26215)	97810..98376	+	567	WP_001568102	type IV conjugative transfer system protein TraE	traE
QCL67_RS26220 (QCL67_26220)	98363..99103	+	741	WP_001568101	type-F conjugative transfer system secretin TraK	traK
QCL67_RS26225 (QCL67_26225)	99103..100515	+	1413	WP_001568100	F-type conjugal transfer pilus assembly protein TraB	traB
QCL67_RS26230 (QCL67_26230)	100508..100744	+	237	WP_001568098	hypothetical protein	virb4
QCL67_RS26235 (QCL67_26235)	100763..101332	+	570	WP_001568094	type IV conjugative transfer system lipoprotein TraV	traV
QCL67_RS26240 (QCL67_26240)	101446..101859	+	414	WP_001568093	hypothetical protein	-
QCL67_RS26245 (QCL67_26245)	101864..102262	+	399	WP_001568092	hypothetical protein	-
QCL67_RS26250 (QCL67_26250)	102725..105364	+	2640	WP_001568090	type IV secretion system protein TraC	virb4
QCL67_RS26255 (QCL67_26255)	105364..105741	+	378	WP_001568089	type-F conjugative transfer system protein TrbI	-
QCL67_RS26260 (QCL67_26260)	105738..106367	+	630	WP_023332867	type-F conjugative transfer system protein TraW	traW
QCL67_RS26265 (QCL67_26265)	106399..107370	+	972	WP_176602138	conjugal transfer pilus assembly protein TraU	traU
QCL67_RS26270 (QCL67_26270)	107383..108009	+	627	WP_001568086	type-F conjugative transfer system pilin assembly protein TrbC	trbC
QCL67_RS26275 (QCL67_26275)	108006..109898	+	1893	WP_001568085	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
QCL67_RS26280 (QCL67_26280)	109911..110171	+	261	WP_001568084	conjugal transfer protein TrbE	-
QCL67_RS26285 (QCL67_26285)	110168..110500	+	333	WP_001568083	hypothetical protein	-
QCL67_RS26290 (QCL67_26290)	110516..111265	+	750	WP_001568082	type-F conjugative transfer system pilin assembly protein TraF	traF
QCL67_RS26295 (QCL67_26295)	111276..111509	+	234	WP_001568081	type-F conjugative transfer system pilin chaperone TraQ	-
QCL67_RS26300 (QCL67_26300)	111529..112065	+	537	WP_032160235	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
QCL67_RS26305 (QCL67_26305)	112052..113422	+	1371	WP_023332869	conjugal transfer pilus assembly protein TraH	traH
QCL67_RS26310 (QCL67_26310)	113422..116271	+	2850	WP_001568078	conjugal transfer mating-pair stabilization protein TraG	traG
QCL67_RS26315 (QCL67_26315)	116274..116468	+	195	WP_250128443	hypothetical protein	-
QCL67_RS26325 (QCL67_26325)	117758..118489	+	732	WP_001568076	conjugal transfer complement resistance protein TraT	-
QCL67_RS26330 (QCL67_26330)	118674..120881	+	2208	WP_023332870	type IV conjugative transfer system coupling protein TraD	virb4

Host bacterium

• ID: 7221
• GenBank: NZ_CP122443
• Plasmid name: pI9455333_MCR10
• Incompatibility group: IncFIA
• Plasmid size: 129863 bp
• Coordinate of oriT [Strand]: 94594..94642 [-]
• Host baterium: Enterobacter ludwigii strain I9455333cz

Cargo genes

• Drug resistance gene: mcr-10
• Virulence gene: mrkA, mrkB, mrkC, mrkF
• Metal resistance gene: ncrY, ncrC, ncrB, ncrA
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -