Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 119611
• Name: oriT_SB17040|unnamed
• Organism: Escherichia sp. SB17040
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_CP141243 (58836..58908 [-], 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_SB17040|unnamed
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC

oriT secondary structure

Predicted by RNAfold.

Relaxase

Relaxase_VJF74_RS00370_SB17040|unnamed

• ID: 12389
• GenBank: WP_029391987
• Name: Relaxase_VJF74_RS00370_SB17040|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_SB17040|unnamed

• ID: 7045
• GenBank: WP_001291058
• Name: WP_001291058_SB17040|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_VJF74_RS00375_SB17040|unnamed

• ID: 14548
• GenBank: WP_029392471
• Name: trbC_VJF74_RS00375_SB17040|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: 64495..110713

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
VJF74_RS00375	62214..64514	-	2301	WP_029392471	F-type conjugative transfer protein TrbC	-
VJF74_RS00380	64495..65613	-	1119	WP_029391999	DsbC family protein	trbB
VJF74_RS00385	65610..66971	-	1362	WP_041498596	hypothetical protein	trbA
VJF74_RS00390	67282..67365	+	84	WP_271298668	DinQ-like type I toxin DqlB	-
VJF74_RS00395	67428..67604	-	177	WP_032172741	hypothetical protein	-
VJF74_RS00400	67755..68222	-	468	WP_000598962	thermonuclease family protein	-
VJF74_RS00405	68382..69005	+	624	WP_001155252	helix-turn-helix domain-containing protein	-
VJF74_RS00410	69203..69418	-	216	WP_000266543	hypothetical protein	-
VJF74_RS00415	69422..69790	-	369	WP_029391948	hypothetical protein	-
VJF74_RS00420	70089..70331	-	243	WP_029391947	hypothetical protein	-
VJF74_RS00425	70660..70812	+	153	WP_021532728	Hok/Gef family protein	-
VJF74_RS00430	70809..70970	-	162	WP_021580032	hypothetical protein	-
VJF74_RS00435	71126..71257	-	132	Protein_86	ethanolamine utilization protein EutE	-
VJF74_RS00440	71352..71561	+	210	WP_000062946	HEAT repeat domain-containing protein	-
VJF74_RS00445	71626..72279	-	654	WP_029391946	plasmid IncI1-type surface exclusion protein ExcA	-
VJF74_RS00450	72367..74532	-	2166	WP_029391945	DotA/TraY family protein	traY
VJF74_RS00455	74605..75174	-	570	WP_000650755	conjugal transfer protein TraX	-
VJF74_RS00460	75171..76376	-	1206	WP_029391944	conjugal transfer protein TraW	traW
VJF74_RS00465	76337..76954	-	618	WP_029391943	hypothetical protein	traV
VJF74_RS00470	76954..79998	-	3045	WP_029391942	conjugal transfer protein	traU
VJF74_RS00475	80174..80554	-	381	WP_000690886	hypothetical protein	-
VJF74_RS00480	80554..80862	-	309	WP_029391941	hypothetical protein	-
VJF74_RS00485	81058..81375	+	318	WP_000118520	quaternary ammonium compound efflux SMR transporter SugE	-
VJF74_RS00490	81372..81905	-	534	WP_001221666	lipocalin family protein	-
VJF74_RS00495	81999..83144	-	1146	WP_000976514	extended-spectrum class C beta-lactamase CMY-2	-
VJF74_RS00500	83468..84730	-	1263	WP_000608644	IS1380-like element ISEcp1 family transposase	-
VJF74_RS00505	85067..85885	-	819	WP_072132149	conjugal transfer protein TraT	traT
VJF74_RS00510	85800..86051	-	252	WP_021532719	hypothetical protein	-
VJF74_RS00515	86108..86506	-	399	WP_029391936	DUF6750 family protein	traR
VJF74_RS00520	86553..87083	-	531	WP_000987022	conjugal transfer protein TraQ	traQ
VJF74_RS00525	87080..87793	-	714	WP_021532717	conjugal transfer protein TraP	traP
VJF74_RS00530	87790..89121	-	1332	WP_029391934	conjugal transfer protein TraO	traO
VJF74_RS00535	89125..90099	-	975	WP_029391933	DotH/IcmK family type IV secretion protein	traN
VJF74_RS00540	90110..90805	-	696	WP_029391932	DotI/IcmL family type IV secretion protein	traM
VJF74_RS00545	90817..91167	-	351	WP_021532713	hypothetical protein	traL
VJF74_RS00550	91184..95245	-	4062	WP_029391931	LPD7 domain-containing protein	-
VJF74_RS00555	95309..95599	-	291	WP_000817799	hypothetical protein	traK
VJF74_RS00560	95596..96744	-	1149	WP_000625247	plasmid transfer ATPase TraJ	virB11
VJF74_RS00565	96728..97564	-	837	WP_029391930	type IV secretory system conjugative DNA transfer family protein	traI
VJF74_RS00570	97561..98013	-	453	WP_001081199	DotD/TraH family lipoprotein	-
VJF74_RS00575	98251..98382	+	132	WP_257792844	hypothetical protein	-
VJF74_RS00580	98372..99574	-	1203	WP_029391929	conjugal transfer protein TraF	-
VJF74_RS00585	99664..100485	-	822	WP_000804089	hypothetical protein	traE
VJF74_RS00590	100736..101281	-	546	WP_029391928	hypothetical protein	-
VJF74_RS00595	101400..101693	-	294	WP_236918885	hypothetical protein	-
VJF74_RS00600	101722..102891	-	1170	WP_029391926	site-specific integrase	-
VJF74_RS00605	102946..103218	+	273	WP_048227902	hypothetical protein	-
VJF74_RS00610	103228..103611	-	384	WP_236926536	shufflon protein D'	-
VJF74_RS00615	104589..104978	+	390	Protein_122	phage tail protein	-
VJF74_RS00620	104983..106317	-	1335	WP_059327959	shufflon system plasmid conjugative transfer pilus tip adhesin PilV	-
VJF74_RS00625	106314..107021	-	708	WP_202110611	A24 family peptidase	-
VJF74_RS00630	106981..107457	-	477	WP_029391914	lytic transglycosylase domain-containing protein	virB1
VJF74_RS00635	107516..108052	-	537	WP_029391915	type 4 pilus major pilin	-
VJF74_RS00640	108103..109203	-	1101	WP_029391916	type II secretion system F family protein	-
VJF74_RS00645	109205..110713	-	1509	WP_021532701	GspE/PulE family protein	virB11
VJF74_RS00650	110810..111406	-	597	WP_029391917	hypothetical protein	-
VJF74_RS00655	111502..112056	-	555	WP_021532699	hypothetical protein	-
VJF74_RS00660	112105..112557	-	453	WP_029391918	type IV pilus biogenesis protein PilP	-
VJF74_RS00665	112547..113842	-	1296	WP_021532697	type 4b pilus protein PilO2	-
VJF74_RS00670	113863..115482	-	1620	WP_021532696	PilN family type IVB pilus formation outer membrane protein	-

Host bacterium

• ID: 20041
• GenBank: NZ_CP141243
• Plasmid name: SB17040|unnamed
• Incompatibility group: IncB/O/K/Z
• Plasmid size: 120714 bp
• Coordinate of oriT [Strand]: 58836..58908 [-]
• Host baterium: Escherichia sp. SB17040

Cargo genes

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