oriTDB

Detailed information of oriT

oriT
Relaxase
Auxiliary protein
T4CP
T4SS
Host bacterium
Cargo genes

oriT

The information of the oriT region

oriTDB ID	102448
Name	oriT_SMG008F11\|unnamed1
Organism	Escherichia coli strain SMG008F11
Sequence Completeness	-
*NCBI accession of oriT* (coordinates [strand])**	NZ_JALEBI010000023 (41613..41736 [-], 124 nt)
oriT length	124 nt
IRs (inverted repeats)	92..99, 113..120 (ATAATGTA..TACATTAT) 90..95, 107..112 (AAATAA..TTATTT) 39..46, 49..56 (GCAAAAAC..GTTTTTGC) 3..10, 15..22 (TTGGTGGT..ACCACCAA)
*Location of nic* site**	_
Conserved sequence flanking the nic site	_
Note	Predicted by oriTfinder 2.0

oriT sequence

Download Length: 124 nt

                        >oriT_SMG008F11|unnamed1
GGTTGGTGGTTCTCACCACCAAAAGCACCACACACTACGCAAAAACAAGTTTTTGCTGATTTGCTATTTGAATCATTAACTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATAAAA                      

Visualization of oriT structure

oriT secondary structure

Predicted by RNAfold.

Download structure file

Relaxase

traI_MRT17_RS19275_SMG008F11|unnamed1

ID	1831	GenBank	WP_000948348
Name	traI_MRT17_RS19275_SMG008F11\|unnamed1	UniProt ID	A0A7I0KNL8
Length	1756 a.a.	PDB ID
Note	Predicted by oriTfinder 2.0

Relaxase protein sequence

Download Length: 1756 a.a. Molecular weight: 191759.33 Da Isoelectric Point: 5.7433

          >WP_000948348.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]

MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ

DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV

MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA

LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT

LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE

NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS

DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR

RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW

QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT

MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS

SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL

ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI

KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA

QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI

LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT

QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA

ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA

QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM

EPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT

LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI

TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL

EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG

IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE

GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP

DGKTELAVRDIAGQERDRSAISERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE

KTLGGD

Protein domains

Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

AAA domain (AAA_30)

(968-1156)

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

(575-626)

Protein structure

No available structure.

ID	749	GenBank	WP_001254388
Name	WP_001254388_SMG008F11\|unnamed1	UniProt ID	W9A0Z2
Length	75 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

Auxiliary protein sequence

Download Length: 75 a.a. Molecular weight: 9072.20 Da Isoelectric Point: 10.2071

                        >WP_001254388.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Enterobacterales]

MRRRNARGGISRTVSVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVIEENES

TFKEL

Protein domains

Predicted by InterproScan.

TraY domain (TraY)

(14-61)

Protein structure

Source	ID	Structure
AlphaFold DB	W9A0Z2

ID	750	GenBank	WP_001151562
Name	WP_001151562_SMG008F11\|unnamed1	UniProt ID	A0A7I0KNG1
Length	127 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

Auxiliary protein sequence

Download Length: 127 a.a. Molecular weight: 14420.36 Da Isoelectric Point: 4.8624

                        >WP_001151562.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]

MAKVQAYVSDEIVYKINKIVERRRAEGAKSTDVSFSSISTMLLELGLRVHEAQMERKESAFNQAEFNKVL

LECAVKTQSTVAKILGIESLSPHVSGNPKFEYANMVEDIRDKVSSEMERFFPENDEE

Protein domains

Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)

Protein structure

Source	ID	Structure
AlphaFold DB	A0A7I0KNG1

T4CP

traD_MRT17_RS19280_SMG008F11|unnamed1
traC_MRT17_RS19380_SMG008F11|unnamed1

ID	1420	GenBank	WP_032164615
Name	traD_MRT17_RS19280_SMG008F11\|unnamed1	UniProt ID	_
Length	753 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

T4CP protein sequence

Download Length: 753 a.a. Molecular weight: 85681.49 Da Isoelectric Point: 5.1644

                        >WP_032164615.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]

MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLILWVKISWQTFVNGCIYWWCTTLEGMR

DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ

QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR

QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG

SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA

IRYLQGIEHNGDPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV

WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA

EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL

KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEDVTQAEQPQQPQQPQQPQQ

PQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPVSSVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPP

GISESGEVVDMAAYEAWQQENHPDIQQHMQRREEVNINVHRERGEDVEPGDDF

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)

(173-560)

Protein structure

No available structure.

ID	1421	GenBank	WP_000069778
Name	traC_MRT17_RS19380_SMG008F11\|unnamed1	UniProt ID	_
Length	876 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

T4CP protein sequence

Download Length: 876 a.a. Molecular weight: 99300.06 Da Isoelectric Point: 6.3461

                        >WP_000069778.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]

MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI

PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA

ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASIATQTVDAQAFIDIV

GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF

LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG

ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK

GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG

AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS

VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY

TANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRTLKKLNVIDEGW

RLLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY

NQLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRREG

MSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

Protein domains

Predicted by InterproScan.

TraC protein (TraC_F_IV)

(39-277)

TraG P-loop domain (P-loop_TraG)

(468-772)

Family of unknown function (DUF5934) (DUF5934)

(290-447)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 13801..42308

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
MRT17_RS19280 (MRT17_19305)	13801..16062	-	2262	WP_032164615	type IV conjugative transfer system coupling protein TraD	virb4
MRT17_RS19285 (MRT17_19310)	16113..16850	-	738	WP_000199901	hypothetical protein	-
MRT17_RS19290 (MRT17_19315)	17053..17784	-	732	WP_000782451	conjugal transfer complement resistance protein TraT	-
MRT17_RS19295 (MRT17_19320)	17833..18318	-	486	WP_000605869	hypothetical protein	-
MRT17_RS19300 (MRT17_19325)	18334..21156	-	2823	WP_001007080	conjugal transfer mating-pair stabilization protein TraG	traG
MRT17_RS19305 (MRT17_19330)	21153..22526	-	1374	WP_000944331	conjugal transfer pilus assembly protein TraH	traH
MRT17_RS19310 (MRT17_19335)	22513..22905	-	393	WP_000660700	F-type conjugal transfer protein TrbF	-
MRT17_RS19315 (MRT17_19340)	22886..23233	-	348	WP_001309242	P-type conjugative transfer protein TrbJ	-
MRT17_RS19320 (MRT17_19345)	23163..23708	-	546	WP_000059830	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
MRT17_RS19325 (MRT17_19350)	23695..23979	-	285	WP_000624107	type-F conjugative transfer system pilin chaperone TraQ	-
MRT17_RS19330 (MRT17_19355)	24060..24395	+	336	WP_000736414	hypothetical protein	-
MRT17_RS19335 (MRT17_19360)	24376..24717	-	342	WP_001298557	conjugal transfer protein TrbA	-
MRT17_RS19340 (MRT17_19365)	24731..25474	-	744	WP_001030385	type-F conjugative transfer system pilin assembly protein TraF	traF
MRT17_RS19345 (MRT17_19370)	25467..25724	-	258	WP_000864314	conjugal transfer protein TrbE	-
MRT17_RS19350 (MRT17_19375)	25751..27601	-	1851	WP_000821859	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
MRT17_RS19355 (MRT17_19380)	27598..28236	-	639	WP_001080251	type-F conjugative transfer system pilin assembly protein TrbC	trbC
MRT17_RS19360 (MRT17_19385)	28245..28550	-	306	WP_000224418	hypothetical protein	-
MRT17_RS19365 (MRT17_19390)	28580..29572	-	993	WP_000830838	conjugal transfer pilus assembly protein TraU	traU
MRT17_RS19370 (MRT17_19395)	29569..30201	-	633	WP_001203736	type-F conjugative transfer system protein TraW	traW
MRT17_RS19375 (MRT17_19400)	30198..30584	-	387	WP_000214082	type-F conjugative transfer system protein TrbI	-
MRT17_RS19380 (MRT17_19405)	30581..33211	-	2631	WP_000069778	type IV secretion system protein TraC	virb4
MRT17_RS26145	33337..33550	-	214	Protein_38	hypothetical protein	-
MRT17_RS19385 (MRT17_19410)	33578..33796	-	219	WP_000556746	hypothetical protein	-
MRT17_RS19390 (MRT17_19415)	33876..34349	-	474	WP_000549566	hypothetical protein	-
MRT17_RS19395 (MRT17_19420)	34342..34563	-	222	WP_001278694	conjugal transfer protein TraR	-
MRT17_RS19400 (MRT17_19425)	34698..35213	-	516	WP_000809888	type IV conjugative transfer system lipoprotein TraV	traV
MRT17_RS19405 (MRT17_19430)	35210..35462	-	253	Protein_43	conjugal transfer protein TrbG	-
MRT17_RS19410 (MRT17_19435)	35455..35775	-	321	WP_001057275	conjugal transfer protein TrbD	virb4
MRT17_RS19415 (MRT17_19440)	35762..36352	-	591	WP_000002787	conjugal transfer pilus-stabilizing protein TraP	-
MRT17_RS19420 (MRT17_19445)	36342..37769	-	1428	WP_000146665	F-type conjugal transfer pilus assembly protein TraB	traB
MRT17_RS19425 (MRT17_19450)	37769..38497	-	729	WP_001230787	type-F conjugative transfer system secretin TraK	traK
MRT17_RS19430 (MRT17_19455)	38484..39050	-	567	WP_000399776	type IV conjugative transfer system protein TraE	traE
MRT17_RS19435 (MRT17_19460)	39072..39383	-	312	WP_000012100	type IV conjugative transfer system protein TraL	traL
MRT17_RS19440 (MRT17_19465)	39398..39757	-	360	WP_001098988	type IV conjugative transfer system pilin TraA	-
MRT17_RS19445 (MRT17_19470)	39791..40018	-	228	WP_001254388	conjugal transfer relaxosome protein TraY	-
MRT17_RS19450 (MRT17_19475)	40112..40798	-	687	WP_000332487	PAS domain-containing protein	-
MRT17_RS19455 (MRT17_19480)	40992..41375	-	384	WP_001151562	conjugal transfer relaxosome DNA-binding protein TraM	-
MRT17_RS19460 (MRT17_19485)	41706..42308	+	603	WP_001323326	transglycosylase SLT domain-containing protein	virB1
MRT17_RS19465 (MRT17_19490)	42604..43425	-	822	WP_001234489	DUF932 domain-containing protein	-
MRT17_RS19470 (MRT17_19495)	43544..43831	-	288	WP_000107526	hypothetical protein	-
MRT17_RS19475 (MRT17_19500)	44132..44429	+	298	Protein_57	hypothetical protein	-
MRT17_RS19480 (MRT17_19505)	44747..44872	-	126	WP_096937776	type I toxin-antitoxin system Hok family toxin	-
MRT17_RS19485 (MRT17_19510)	44814..44963	-	150	Protein_59	DUF5431 family protein	-
MRT17_RS19490 (MRT17_19515)	45137..45900	-	764	Protein_60	plasmid SOS inhibition protein A	-
MRT17_RS19495 (MRT17_19520)	45897..46331	-	435	WP_000845910	conjugation system SOS inhibitor PsiB	-

Host bacterium

ID	2892	GenBank	NZ_JALEBI010000023
Plasmid name	SMG008F11\|unnamed1	Incompatibility group	IncFII
Plasmid size	86591 bp	Coordinate of oriT [Strand]	41613..41736 [-]
Host baterium	Escherichia coli strain SMG008F11

Cargo genes

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