Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 111732
• Name: oriT_PS16002|unnamed
• Organism: Escherichia sp. PS16002
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_CP141250 (57500..57572 [-], 73 nt)
• oriT length: 73 nt
• IRs (inverted repeats): _
• Location of nic site: _
• Conserved sequence flanking the nic site: _
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 73 nt

>oriT_PS16002|unnamed
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC

oriT secondary structure

Predicted by RNAfold.

Relaxase

Relaxase_VJF82_RS00365_PS16002|unnamed

• ID: 7609
• GenBank: WP_029391987
• Name: Relaxase_VJF82_RS00365_PS16002|unnamed
• UniProt ID: A0A2H5C199
• Length: 906 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 906 a.a.
• Molecular weight: 105112.51 Da
• Isoelectric Point: 8.2682

>WP_029391987.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MNAIIPHKRRDGRSSFEDLIAYTSVRDDVQENELTEDSEIKSDVPHRNRFRRLVDYATRLRNEKFVSLID
VMKDGSQWVNFYGVTCFHNCNSLETAAEEMQYKADKAVFSRNDTDPVFHYILSWPAHESPRPEQLFDCVR
HTLKSLELSKHQYVAAVHTDTDNLHVHVAVNRVHPETGYINWLSWSQEKLSRACRELELKHGFAPDNGCF
VHAPGNRIVRKTALVRERRNAWRRGKKQTFREYIAQMSIAGLREEPAQDWLSLHKRLASDGLYITMQEGE
LVVKDGWDRAREGVALSSFGPSWTAEKLGRKLGEYQPVPTDIFSQVGTPGRYDPEAINVDIRPEKVAETE
SLKQYACRHFAERLPEMARNGELESCLDVHRTLAKAGLWMGIQHGHLVLHDGFDKQQTPVRADSVWPLMT
LDYMQDLDGGWQPVPKDIFTQVIPGERFRGHSIGTQAVSDYEWYRMRMGTGPQGAIKRELFSDKESLWGY
ALIQCRSQIEEMIAGGDFSWQACHEMFARKGLMLQKQHHGLVIVDAFNHELTPVKASSIHPDLTLSRAEP
QAGPFEIAGADIFERVKPECRYNPELAASDEVEPGFRRDPVLRRERREARAAAREDLRARYLAWKEHWRK
PDLRYGERLREIHAACRRRKAYIRVQFRDPQVRKLHYHIAEVQRMQALIRLKESVKEERLSLIAEGKWYP
LSYRQWVEQQAAQGDRAAVSQLRGWDYRDRRSRNKDKRRTTNADRCVVLCEPGGTPLFNNVAKLEARLQK
NGSVHFRDTRTGKNVCTDYGDRVVFYHHTDRNELAEKLDLIAPVLFSRNGKLGFEPEGSYQQFNDVFAEM
VAWHNAAGITGNGHFTITRPDVDLHRQRSEQYYREYIRQQTRLSESHDDNYTLRQEKTWEPPSPGM

Protein domains

Predicted by InterproScan.

• Relaxase/Mobilisation nuclease domain (Relaxase) (62-315)

Protein structure

• AlphaFold DB: A0A2H5C199

Auxiliary protein

WP_001291058_PS16002|unnamed

• ID: 4162
• GenBank: WP_001291058
• Name: WP_001291058_PS16002|unnamed
• UniProt ID: A0A7I0L241
• Length: 110 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

Auxiliary protein sequence

• Length: 110 a.a.
• Molecular weight: 12730.52 Da
• Isoelectric Point: 9.9656

>WP_001291058.1 MULTISPECIES: plasmid mobilization protein MobA [Enterobacteriaceae]
MSEKKTRTGSENRKRIVKFTARFTEDEAEIVREKAESSGQTVSTFIRSSSLDKVVNCRTDDRMIDEIMRL
GRLQKHLFVEGKRTGDKEYAEVLVAITEYVNALRRDLMGR

Protein domains

No domain identified.

Protein structure

• AlphaFold DB: A0A7I0L241

T4CP

trbC_VJF82_RS00370_PS16002|unnamed

• ID: 8678
• GenBank: WP_029392471
• Name: trbC_VJF82_RS00370_PS16002|unnamed
• UniProt ID: _
• Length: 766 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 766 a.a.
• Molecular weight: 87239.20 Da
• Isoelectric Point: 6.6676

>WP_029392471.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSQHHVNPDLIHRTAWGNPLWNALHNLNIIGLCLAGSIITALIWPLALPVCLLFTLVTSVIFTLQRWRCP
LRMPMTLSLDDPSQDRKVRRSLFSFWPTLFQYEADETSPARGIFYVGYRRINDIGRELWLSMDDLTRHII
FFSTTGGGKTETTFAWLLNPLCWGRGFTFVDGKAQNDTTRTIWYLSRRFGREDDIEVINFMNGGKSRSEI
IQSGEKSRPQSNTWNPFAFSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVRERKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDMSLVRTPSAWTEEPRKQHAYLSGQFSE
TFTTFAETFGDVFAADAGDIDIRDSIHSDRILIVMIPALDTSAHTTSALGRMFITQQSMILARDLGYRLE
GTDAQTLEVKKYKGRFPYICILDEVGAYYTDRIAVEATQVRSLEFSLIMMAQDQERIEGQTSATNTATLM
QNAGTKFAGRIVSDDKTARTVKNAAGEEARARMGSLQRHDGLMGESWVDGNQITIQMESKIDVQDLIRLN
AGEFFTVFQGDVVPSASVYIPDSEKSCDSDPVVINRYIAIEAPRLERLRRLVPRTVQRRLPTPEHVSSII
GVLTEKTSRKRRKKHTEPYRIIDTFQDQLKRTQTSLDLLPQYDTDIESRANELWKKAVHTINNTTREERR
VCYITLNRPEEEHSGPEDIPSVKAILNTLLPLEILLPVAENNKSQTINNDHPQKSCGAQPTTDEKY

Protein domains

Predicted by InterproScan.

• TraM recognition site of TraD and TraG (TraG-D_C) (439-528)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 63159..109377

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
VJF82_RS00370	60878..63178	-	2301	WP_029392471	F-type conjugative transfer protein TrbC	-
VJF82_RS00375	63159..64277	-	1119	WP_029391999	DsbC family protein	trbB
VJF82_RS00380	64274..65635	-	1362	WP_041498596	hypothetical protein	trbA
VJF82_RS00385	65946..66029	+	84	WP_271298668	DinQ-like type I toxin DqlB	-
VJF82_RS00390	66092..66268	-	177	WP_032172741	hypothetical protein	-
VJF82_RS00395	66419..66886	-	468	WP_000598962	thermonuclease family protein	-
VJF82_RS00400	67046..67669	+	624	WP_001155252	helix-turn-helix domain-containing protein	-
VJF82_RS00405	67867..68082	-	216	WP_000266543	hypothetical protein	-
VJF82_RS00410	68086..68454	-	369	WP_029391948	hypothetical protein	-
VJF82_RS00415	68753..68995	-	243	WP_029391947	hypothetical protein	-
VJF82_RS00420	69324..69476	+	153	WP_021532728	Hok/Gef family protein	-
VJF82_RS00425	69473..69634	-	162	WP_021580032	hypothetical protein	-
VJF82_RS00430	69790..69921	-	132	Protein_85	ethanolamine utilization protein EutE	-
VJF82_RS00435	70016..70225	+	210	WP_000062946	HEAT repeat domain-containing protein	-
VJF82_RS00440	70290..70943	-	654	WP_029391946	plasmid IncI1-type surface exclusion protein ExcA	-
VJF82_RS00445	71031..73196	-	2166	WP_029391945	DotA/TraY family protein	traY
VJF82_RS00450	73269..73838	-	570	WP_000650755	conjugal transfer protein TraX	-
VJF82_RS00455	73835..75040	-	1206	WP_029391944	conjugal transfer protein TraW	traW
VJF82_RS00460	75001..75618	-	618	WP_029391943	hypothetical protein	traV
VJF82_RS00465	75618..78662	-	3045	WP_029391942	conjugal transfer protein	traU
VJF82_RS00470	78838..79218	-	381	WP_000690886	hypothetical protein	-
VJF82_RS00475	79218..79526	-	309	WP_029391941	hypothetical protein	-
VJF82_RS00480	79722..80039	+	318	WP_000118520	quaternary ammonium compound efflux SMR transporter SugE	-
VJF82_RS00485	80036..80569	-	534	WP_001221666	lipocalin family protein	-
VJF82_RS00490	80663..81808	-	1146	WP_000976514	extended-spectrum class C beta-lactamase CMY-2	-
VJF82_RS00495	82132..83394	-	1263	WP_000608644	IS1380-like element ISEcp1 family transposase	-
VJF82_RS00500	83731..84357	-	627	WP_001597015	hypothetical protein	traT
VJF82_RS00505	84464..84715	-	252	WP_021532719	hypothetical protein	-
VJF82_RS00510	84772..85170	-	399	WP_029391936	DUF6750 family protein	traR
VJF82_RS00515	85217..85747	-	531	WP_000987022	conjugal transfer protein TraQ	traQ
VJF82_RS00520	85744..86457	-	714	WP_021532717	conjugal transfer protein TraP	traP
VJF82_RS00525	86454..87785	-	1332	WP_029391934	conjugal transfer protein TraO	traO
VJF82_RS00530	87789..88763	-	975	WP_029391933	DotH/IcmK family type IV secretion protein	traN
VJF82_RS00535	88774..89469	-	696	WP_029391932	DotI/IcmL family type IV secretion protein	traM
VJF82_RS00540	89481..89831	-	351	WP_021532713	hypothetical protein	traL
VJF82_RS00545	89848..93909	-	4062	WP_029391931	LPD7 domain-containing protein	-
VJF82_RS00550	93973..94263	-	291	WP_000817799	hypothetical protein	traK
VJF82_RS00555	94260..95408	-	1149	WP_000625247	plasmid transfer ATPase TraJ	virB11
VJF82_RS00560	95392..96228	-	837	WP_029391930	type IV secretory system conjugative DNA transfer family protein	traI
VJF82_RS00565	96225..96677	-	453	WP_001081199	DotD/TraH family lipoprotein	-
VJF82_RS00570	96915..97046	+	132	WP_257792844	hypothetical protein	-
VJF82_RS00575	97036..98238	-	1203	WP_029391929	conjugal transfer protein TraF	-
VJF82_RS00580	98328..99149	-	822	WP_000804089	hypothetical protein	traE
VJF82_RS00585	99400..99945	-	546	WP_029391928	hypothetical protein	-
VJF82_RS00590	100064..100345	-	282	WP_029391927	hypothetical protein	-
VJF82_RS00595	100386..101555	-	1170	WP_029391926	site-specific integrase	-
VJF82_RS00600	102018..102377	+	360	WP_227854476	shufflon protein B	-
VJF82_RS00605	102556..103041	+	486	WP_250193838	prepilin, shufflon protein A	-
VJF82_RS00610	103046..103435	-	390	Protein_121	phage tail protein	-
VJF82_RS00615	103737..104981	-	1245	WP_119799357	shufflon system plasmid conjugative transfer pilus tip adhesin PilV	-
VJF82_RS00620	104978..105685	-	708	WP_202110611	A24 family peptidase	-
VJF82_RS00625	105645..106121	-	477	WP_029391914	lytic transglycosylase domain-containing protein	virB1
VJF82_RS00630	106180..106716	-	537	WP_029391915	type 4 pilus major pilin	-
VJF82_RS00635	106767..107867	-	1101	WP_029391916	type II secretion system F family protein	-
VJF82_RS00640	107869..109377	-	1509	WP_021532701	ATPase, T2SS/T4P/T4SS family	virB11
VJF82_RS00645	109474..110070	-	597	WP_029391917	hypothetical protein	-
VJF82_RS00650	110166..110720	-	555	WP_021532699	hypothetical protein	-
VJF82_RS00655	110769..111221	-	453	WP_029391918	type IV pilus biogenesis protein PilP	-
VJF82_RS00660	111211..112506	-	1296	WP_021532697	type 4b pilus protein PilO2	-
VJF82_RS00665	112527..114146	-	1620	WP_021532696	PilN family type IVB pilus formation outer membrane protein	-

Host bacterium

• ID: 12167
• GenBank: NZ_CP141250
• Plasmid name: PS16002|unnamed
• Incompatibility group: IncB/O/K/Z
• Plasmid size: 119378 bp
• Coordinate of oriT [Strand]: 57500..57572 [-]
• Host baterium: Escherichia sp. PS16002

Cargo genes

• Drug resistance gene: tet(A), sul1, qacE, aac(3)-VIa, ant(3'')-Ia, blaCMY-2
• Virulence gene: -
• Metal resistance gene: merR, merT, merP, merA, merD, merE
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -