Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 119622
• Name: oriT_SB18002|unnamed
• Organism: Escherichia sp. SB18002
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_CP141235 (71437..71509 [-], 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_SB18002|unnamed
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC

oriT secondary structure

Predicted by RNAfold.

Relaxase

Relaxase_VJF88_RS00435_SB18002|unnamed

• ID: 12399
• GenBank: WP_029391987
• Name: Relaxase_VJF88_RS00435_SB18002|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_SB18002|unnamed

• ID: 7055
• GenBank: WP_001291058
• Name: WP_001291058_SB18002|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_VJF88_RS00440_SB18002|unnamed

• ID: 14557
• GenBank: WP_029392471
• Name: trbC_VJF88_RS00440_SB18002|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: 77096..123296

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
VJF88_RS00440	74815..77115	-	2301	WP_029392471	F-type conjugative transfer protein TrbC	-
VJF88_RS00445	77096..78214	-	1119	WP_029391999	DsbC family protein	trbB
VJF88_RS00450	78211..79554	-	1344	WP_172686572	conjugal transfer protein TrbA	trbA
VJF88_RS00455	79865..79948	+	84	WP_271298668	DinQ-like type I toxin DqlB	-
VJF88_RS00460	80011..80187	-	177	WP_032172741	hypothetical protein	-
VJF88_RS00465	80338..80805	-	468	WP_000598962	thermonuclease family protein	-
VJF88_RS00470	80965..81588	+	624	WP_001155252	helix-turn-helix domain-containing protein	-
VJF88_RS00475	81786..82001	-	216	WP_000266543	hypothetical protein	-
VJF88_RS00480	82005..82373	-	369	WP_029391948	hypothetical protein	-
VJF88_RS00485	82672..82914	-	243	WP_029391947	hypothetical protein	-
VJF88_RS00490	83243..83395	+	153	WP_021532728	Hok/Gef family protein	-
VJF88_RS00495	83709..83840	-	132	Protein_98	ethanolamine utilization protein EutE	-
VJF88_RS00500	83935..84144	+	210	WP_000062946	HEAT repeat domain-containing protein	-
VJF88_RS00505	84209..84862	-	654	WP_029391946	plasmid IncI1-type surface exclusion protein ExcA	-
VJF88_RS00510	84950..87115	-	2166	WP_029391945	DotA/TraY family protein	traY
VJF88_RS00515	87188..87757	-	570	WP_000650755	conjugal transfer protein TraX	-
VJF88_RS00520	87754..88959	-	1206	WP_029391944	conjugal transfer protein TraW	traW
VJF88_RS00525	88920..89537	-	618	WP_029391943	hypothetical protein	traV
VJF88_RS00530	89537..92581	-	3045	WP_029391942	conjugal transfer protein	traU
VJF88_RS00535	92757..93137	-	381	WP_000690886	hypothetical protein	-
VJF88_RS00540	93137..93445	-	309	WP_029391941	hypothetical protein	-
VJF88_RS00545	93641..93958	+	318	WP_000118520	quaternary ammonium compound efflux SMR transporter SugE	-
VJF88_RS00550	93955..94488	-	534	WP_001221666	lipocalin family protein	-
VJF88_RS00555	94582..95727	-	1146	WP_000976514	extended-spectrum class C beta-lactamase CMY-2	-
VJF88_RS00560	96051..97313	-	1263	WP_000608644	IS1380-like element ISEcp1 family transposase	-
VJF88_RS00565	97650..98468	-	819	WP_072132149	conjugal transfer protein TraT	traT
VJF88_RS00570	98383..98634	-	252	WP_021532719	hypothetical protein	-
VJF88_RS00575	98691..99089	-	399	WP_029391936	DUF6750 family protein	traR
VJF88_RS00580	99136..99666	-	531	WP_000987022	conjugal transfer protein TraQ	traQ
VJF88_RS00585	99663..100376	-	714	WP_021532717	conjugal transfer protein TraP	traP
VJF88_RS00590	100373..101704	-	1332	WP_323873455	conjugal transfer protein TraO	traO
VJF88_RS00595	101708..102682	-	975	WP_029391933	DotH/IcmK family type IV secretion protein	traN
VJF88_RS00600	102693..103388	-	696	WP_029391932	DotI/IcmL family type IV secretion protein	traM
VJF88_RS00605	103400..103750	-	351	WP_021532713	hypothetical protein	traL
VJF88_RS00610	103767..107828	-	4062	WP_029391931	LPD7 domain-containing protein	-
VJF88_RS00615	107892..108182	-	291	WP_000817799	hypothetical protein	traK
VJF88_RS00620	108179..109327	-	1149	WP_000625247	plasmid transfer ATPase TraJ	virB11
VJF88_RS00625	109311..110147	-	837	WP_029391930	type IV secretory system conjugative DNA transfer family protein	traI
VJF88_RS00630	110144..110596	-	453	WP_001081199	DotD/TraH family lipoprotein	-
VJF88_RS00635	110955..112157	-	1203	WP_029391929	conjugal transfer protein TraF	-
VJF88_RS00640	112247..113068	-	822	WP_000804089	hypothetical protein	traE
VJF88_RS00645	113319..113864	-	546	WP_029391928	hypothetical protein	-
VJF88_RS00650	113983..114264	-	282	WP_029391927	hypothetical protein	-
VJF88_RS00655	114305..115474	-	1170	WP_029391926	site-specific integrase	-
VJF88_RS00660	115529..115888	+	360	WP_013307881	hypothetical protein	-
VJF88_RS00665	115893..116282	-	390	Protein_132	phage tail protein	-
VJF88_RS00670	117234..117656	+	423	WP_252347182	hypothetical protein	-
VJF88_RS00675	117653..118900	-	1248	WP_104209198	shufflon system plasmid conjugative transfer pilus tip adhesin PilV	-
VJF88_RS00680	118897..119604	-	708	WP_202110611	A24 family peptidase	-
VJF88_RS00685	119564..120040	-	477	WP_029391914	lytic transglycosylase domain-containing protein	virB1
VJF88_RS00690	120099..120635	-	537	WP_029391915	type 4 pilus major pilin	-
VJF88_RS00695	120686..121786	-	1101	WP_029391916	type II secretion system F family protein	-
VJF88_RS00700	121788..123296	-	1509	WP_021532701	GspE/PulE family protein	virB11
VJF88_RS00705	123393..123989	-	597	WP_029391917	hypothetical protein	-
VJF88_RS00710	124085..124639	-	555	WP_021532699	hypothetical protein	-
VJF88_RS00715	124688..125140	-	453	WP_029391918	type IV pilus biogenesis protein PilP	-
VJF88_RS00720	125130..126425	-	1296	WP_021532697	type 4b pilus protein PilO2	-
VJF88_RS00725	126446..128065	-	1620	WP_021532696	PilN family type IVB pilus formation outer membrane protein	-

Host bacterium

• ID: 20052
• GenBank: NZ_CP141235
• Plasmid name: SB18002|unnamed
• Incompatibility group: IncB/O/K/Z
• Plasmid size: 133297 bp
• Coordinate of oriT [Strand]: 71437..71509 [-]
• Host baterium: Escherichia sp. SB18002

Cargo genes

• Drug resistance gene: tet(A), dfrA1, blaTEM-1B, sul2, blaCMY-2
• Virulence gene: -
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -