oriTDB

Detailed information of oriT

oriT
Relaxase
T4CP
T4SS
Host bacterium
Cargo genes

oriT

The information of the oriT region

oriTDB ID	108501
Name	oriT_pEk140_mcr-10
Organism	Enterobacter roggenkampii strain Ek140
Sequence Completeness	-
*NCBI accession of oriT* (coordinates [strand])**	NZ_CP095181 (36789..36891 [-], 103 nt)
oriT length	103 nt
IRs (inverted repeats)	89..94, 96..101 (AAATAA..TTATTT) 28..33, 40..45 (GCAAAA..TTTTGC)
*Location of nic* site**	_
Conserved sequence flanking the nic site	_
Note	Predicted by oriTfinder 2.0

oriT sequence

Download Length: 103 nt

                        >oriT_pEk140_mcr-10
CTCACCACCAAAAGCTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA                      

Visualization of oriT structure

oriT secondary structure

Predicted by RNAfold.

Download structure file

Relaxase

traI_MUY32_RS23880_pEk140_mcr-10

ID	5684	GenBank	WP_188074406
Name	traI_MUY32_RS23880_pEk140_mcr-10	UniProt ID	_
Length	1746 a.a.	PDB ID
Note	Predicted by oriTfinder 2.0

Relaxase protein sequence

Download Length: 1746 a.a. Molecular weight: 189176.42 Da Isoelectric Point: 6.1111

          >WP_188074406.1 conjugative transfer relaxase/helicase TraI [Enterobacter roggenkampii]

MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ

DGANKHRPGYDFTFSAPKSVSVMAMLGGDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV

MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA

MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMHT

LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG

MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNILVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA

VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG

LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG

GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREALKAEKVLGEREVSIT

TLEPVWLDSRHQQVRDHYREGMVMERWNAEARSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW

SLYRTGMLHVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPVGDSPFTAAKVGQ

GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWSVVSEQIKD

AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV

RSGDLLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMNKVPDAQLAGLTDGQQNATRMILE

SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ

QQLRGGERPDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI

DVAVMQEIVRQTPELKPAVYSLINRDIGSALTTIERVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV

AAGDLMPGGQPATLLEAIVKDYTGRTPEAQAQTIVITALNADRRQVNAMIHDARQDAGEVGEKDVTLPVL

TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVTLKDAQGNTRSLSPAQAATEGVTLYRQ

DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG

SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWVAAMEKSQAKSTAHDILEPRG

DRAVANAARLTATAKALGEVPAGRAALRQAGLQPEGSMAKFISPGRKYPQPHVALPAFDRNGRQAGVWLS

ALTSGDGQLKGLAGEGRVMGSGDAVFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVRLAGEARPWN

PGAITGGRVWADGLPDGTGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDGPAGGADVAV

RDVVRDMERIKETPASPLTLPDAPEERRRDEAVSQVVRENVQRDRLQQMERETVRDLEREKTLGGD

Protein domains

Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1430-1551)

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

(573-625)

AAA domain (AAA_30)

(967-1152)

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

(631-710)

TrwC relaxase (TrwC)

(10-283)

Protein structure

No available structure.

ID	6063	GenBank	WP_220393344
Name	traD_MUY32_RS23885_pEk140_mcr-10	UniProt ID	_
Length	744 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

T4CP protein sequence

Download Length: 744 a.a. Molecular weight: 83410.04 Da Isoelectric Point: 5.0372

                        >WP_220393344.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]

MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR

DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ

QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR

QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG

SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA

IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV

WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA

EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL

KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVIAPEGGAENAGQPQQPQQPQQ

PQQPQQPQQPQQPQQPQQLQQPAPCAADTASASASVAGAAGTGGVEPELKTKAEEAEQLPPGISESGEVV

DMAAWEAWQAEQDELSPQERQRREEVNINVYRAPEKDLEPGGYI

Protein domains

Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(172-560)

Protein structure

No available structure.

ID	6064	GenBank	WP_008324134
Name	traC_MUY32_RS23955_pEk140_mcr-10	UniProt ID	_
Length	876 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

T4CP protein sequence

Download Length: 876 a.a. Molecular weight: 98841.51 Da Isoelectric Point: 5.7676

                        >WP_008324134.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacterales]

MSNPLDSVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP

INGANETIVSSLENLMRTKLPREVPVAVHLVSSHLVGQDIEYGLRELSWTGEKADTFNAITRAYYLRAAE

EGFPLPDHLNLPLTLRNYRVYISCCVPRKRGSKASVMEMENQVKIIRASLQGAQIATRSVDADAFIRIAG

EMINHNPDALYPTERELDPLKDLNYQCVDDTFDLKVKADYMTLGLRGNGRNSTARIMNFQLTKNPELAFL

WNMADNYSNLLNPELSVSCPFILTLVLSVEDQVKAQNEANLKFMDLEKKSKTSYAKFFPGVAQEAKEWGD

LRQRLSSGQSSLVSYFLNVTLFCRDDQETALKVEQDVLNSFRKNGFELISPRFNHMRNFLVNLPFMAGGG

LFKQLRESGVLQRAESFNVANLMPVVADSPLATSGLLAPTYRNQLAFIDLFSRGMGNTNFNMAVCGTSGA

GKTGLIQPLIRSVIDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLKFNPFANVTDDTIDEMAERLRDQL

SVMASPNGNLDEVHEGLLLKAVKATWLTKKNQARIDDVVDYLMMARDSEEYSGSPTIRSRLDEMVVLLTQ

YTRDGVYGSYFNSDEPSLKDEARMVVLELGGLEDRPSLLVAVMFSLILYIENRMYRTPRSLKKLNVIDEG

WRLLDFKNNKVGAFIEKGYRTARRHTGSYITITQNIVDFDSETASSAARAAWGNSSYKIILKQSAKEFAK

YNQLYPDQYSQLQRDMIKGFGSAKDNWFSSFMLSVEHLTSWHRLFVDPLSRAMYSSDGPDFEFLQQRRRE

GLSIHEAVWELAWKKSGPEMAALERWLHEHEGKTIS

Protein domains

Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(470-765)

TraC protein (TraC_F_IV)

(38-276)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 12315..37439

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
MUY32_RS23885 (MUY32_23885)	12315..14549	-	2235	WP_220393344	type IV conjugative transfer system coupling protein TraD	virb4
MUY32_RS23890 (MUY32_23890)	14921..15646	-	726	WP_140157827	conjugal transfer complement resistance protein TraT	-
MUY32_RS23895 (MUY32_23895)	15722..16219	-	498	WP_063132060	hypothetical protein	-
MUY32_RS23900 (MUY32_23900)	16238..19060	-	2823	WP_060446835	conjugal transfer mating-pair stabilization protein TraG	traG
MUY32_RS23905 (MUY32_23905)	19060..20394	-	1335	WP_230199841	conjugal transfer pilus assembly protein TraH	traH
MUY32_RS23910 (MUY32_23910)	20433..20978	-	546	WP_060446834	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
MUY32_RS23915 (MUY32_23915)	20968..21216	-	249	WP_008324126	type-F conjugative transfer system pilin chaperone TraQ	-
MUY32_RS23920 (MUY32_23920)	21233..21976	-	744	WP_060446849	type-F conjugative transfer system pilin assembly protein TraF	traF
MUY32_RS23925 (MUY32_23925)	22013..22201	-	189	WP_025759809	conjugal transfer protein TrbE	-
MUY32_RS23930 (MUY32_23930)	22233..24113	-	1881	WP_086551402	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
MUY32_RS23935 (MUY32_23935)	24110..24739	-	630	WP_086551401	type-F conjugative transfer system pilin assembly protein TrbC	trbC
MUY32_RS23940 (MUY32_23940)	24756..25742	-	987	WP_188074411	conjugal transfer pilus assembly protein TraU	traU
MUY32_RS23945 (MUY32_23945)	25745..26392	-	648	WP_008324132	type-F conjugative transfer system protein TraW	traW
MUY32_RS23950 (MUY32_23950)	26392..26739	-	348	WP_008324133	type-F conjugative transfer system protein TrbI	-
MUY32_RS23955 (MUY32_23955)	26736..29366	-	2631	WP_008324134	type IV secretion system protein TraC	virb4
MUY32_RS23960 (MUY32_23960)	29359..29925	-	567	WP_008324135	conjugal transfer pilus-stabilizing protein TraP	-
MUY32_RS23965 (MUY32_23965)	29915..30316	-	402	WP_008324137	hypothetical protein	-
MUY32_RS23970 (MUY32_23970)	30300..30485	-	186	WP_008324139	hypothetical protein	-
MUY32_RS23975 (MUY32_23975)	30489..30713	-	225	WP_008324141	TraR/DksA C4-type zinc finger protein	-
MUY32_RS23980 (MUY32_23980)	30833..31372	-	540	WP_008324154	type IV conjugative transfer system lipoprotein TraV	traV
MUY32_RS23985 (MUY32_23985)	31394..32788	-	1395	WP_249494761	F-type conjugal transfer pilus assembly protein TraB	traB
MUY32_RS23990 (MUY32_23990)	32775..33518	-	744	WP_008324157	type-F conjugative transfer system secretin TraK	traK
MUY32_RS23995 (MUY32_23995)	33505..34071	-	567	WP_008324158	type IV conjugative transfer system protein TraE	traE
MUY32_RS24000 (MUY32_24000)	34086..34391	-	306	WP_008324160	type IV conjugative transfer system protein TraL	traL
MUY32_RS24005 (MUY32_24005)	34542..34892	-	351	WP_008324162	type IV conjugative transfer system pilin TraA	-
MUY32_RS24010 (MUY32_24010)	34950..35174	-	225	WP_008324165	TraY domain-containing protein	-
MUY32_RS24015 (MUY32_24015)	35261..35950	-	690	WP_008324166	hypothetical protein	-
MUY32_RS24020 (MUY32_24020)	36139..36531	-	393	WP_008324167	conjugal transfer relaxosome DNA-binding protein TraM	-
MUY32_RS24025 (MUY32_24025)	36963..37439	+	477	WP_008324168	transglycosylase SLT domain-containing protein	virB1
MUY32_RS24030 (MUY32_24030)	37486..38016	-	531	WP_008324170	antirestriction protein	-
MUY32_RS24035 (MUY32_24035)	38643..39473	-	831	WP_008324171	N-6 DNA methylase	-
MUY32_RS24040 (MUY32_24040)	39516..39779	-	264	WP_008324174	hypothetical protein	-
MUY32_RS24045 (MUY32_24045)	39865..40209	-	345	WP_008324177	hypothetical protein	-
MUY32_RS24050 (MUY32_24050)	40256..40543	-	288	WP_008324178	hypothetical protein	-
MUY32_RS24055 (MUY32_24055)	40597..40971	-	375	WP_008324180	hypothetical protein	-
MUY32_RS24060 (MUY32_24060)	41598..41957	-	360	WP_249494762	hypothetical protein	-
MUY32_RS24065 (MUY32_24065)	42019..42342	-	324	WP_008324183	hypothetical protein	-

Host bacterium

ID	8936	GenBank	NZ_CP095181
Plasmid name	pEk140_mcr-10	Incompatibility group	IncFII
Plasmid size	201356 bp	Coordinate of oriT [Strand]	36789..36891 [-]
Host baterium	Enterobacter roggenkampii strain Ek140

Cargo genes

Drug resistance gene	mcr-10
Virulence gene	-
Metal resistance gene	-
Degradation gene	-
Symbiosis gene	-
Anti-CRISPR	-