oriTDB

Detailed information of oriT

oriT
Relaxase
Auxiliary protein
T4CP
T4SS
Host bacterium
Cargo genes

oriT

The information of the oriT region

oriTDB ID	102656
Name	oriT_pT22
Organism	Escherichia coli O157:H43 strain T22
Sequence Completeness	-
*NCBI accession of oriT* (coordinates [strand])**	NZ_LYNF01000004 (33924..34047 [+], 124 nt)
oriT length	124 nt
IRs (inverted repeats)	101..106, 119..124 (TTTAAT..ATTAAA) 91..99, 113..121 (AATAATGTA..TACATTATT) 90..95, 107..112 (AAATAA..TTATTT) 57..62, 70..75 (TGATTT..AAATCA) 41..48, 61..68 (AAAAACAA..TTGTTTTT) 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_pT22
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGTTTTTTAAATCATTAGTTTATGTTCTAAATAATGTATTTTAATTTATTTTACATTATTAAA                      

Visualization of oriT structure

oriT secondary structure

Predicted by RNAfold.

Download structure file

Relaxase

traI_A8O33_RS26005_pT22

ID	1967	GenBank	WP_021578359
Name	traI_A8O33_RS26005_pT22	UniProt ID	_
Length	1756 a.a.	PDB ID
Note	Predicted by oriTfinder 2.0

Relaxase protein sequence

Download Length: 1756 a.a. Molecular weight: 192217.11 Da Isoelectric Point: 6.0918

          >WP_021578359.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]

MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ

DGRNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIEAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV

MALFNHDTSRDQEPQLHTHAVAANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA

LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT

LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE

NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTIHPEKSVPRTAGYS

DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR

RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW

QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHQEVT

MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETHVVRISSLDS

SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL

ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI

KARAGETLLETAISLQKAWLHTPAQQAIHLALPVVESKNLAFSMVDLLTEVKSFAAEGTSFTELGGEINA

QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI

LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT

QLLQRSGETPNFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA

ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEA

QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM

VPVLNTANIRDGELRRLSTWETHRDALAQVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT

LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI

TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL

EPKSDREVMNAERLFSTARELRDVVAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG

IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE

GRPWNPGTITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP

DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKE

KTLGGD

Protein domains

Predicted by InterproScan.

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

(633-712)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(969-1156)

DNA helicase TraI (TraI_C)

(1434-1557)

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

(575-627)

Protein structure

No available structure.

ID	791	GenBank	WP_000124980
Name	WP_000124980_pT22	UniProt ID	_
Length	127 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

Auxiliary protein sequence

Download Length: 127 a.a. Molecular weight: 14528.56 Da Isoelectric Point: 5.0278

                        >WP_000124980.1 conjugal transfer relaxosome DNA-binding protein TraM [Escherichia coli]

MARVNLYISNEVHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL

LECVVKTQSSVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSVEMDRFFPKNDDE

Protein domains

Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)

Protein structure

No available structure.

ID	792	GenBank	WP_001254386
Name	WP_001254386_pT22	UniProt ID	A0A3Z6KJB5
Length	75 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

Auxiliary protein sequence

Download Length: 75 a.a. Molecular weight: 9005.11 Da Isoelectric Point: 10.1422

                        >WP_001254386.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Gammaproteobacteria]

MRRRNARGGISRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTEESES

TFKEL

Protein domains

Predicted by InterproScan.

TraY domain (TraY)

(14-61)

Protein structure

Source	ID	Structure
AlphaFold DB	A0A3Z6KJB5

T4CP

traC_A8O33_RS25900_pT22
traD_A8O33_RS25990_pT22

ID	1604	GenBank	WP_001064245
Name	traC_A8O33_RS25900_pT22	UniProt ID	_
Length	875 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

T4CP protein sequence

Download Length: 875 a.a. Molecular weight: 99159.81 Da Isoelectric Point: 5.8486

                        >WP_001064245.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]

MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP

INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA

TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG

EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL

WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE

LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG

LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA

GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV

MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT

ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR

LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN

QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL

SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

Protein domains

Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(467-771)

Protein structure

No available structure.

ID	1605	GenBank	WP_076033906
Name	traD_A8O33_RS25990_pT22	UniProt ID	_
Length	717 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

T4CP protein sequence

Download Length: 717 a.a. Molecular weight: 81462.95 Da Isoelectric Point: 5.0504

                        >WP_076033906.1 type IV conjugative transfer system coupling protein TraD [Escherichia coli]

MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWIKISWQTFVNGCIYWWCTTLEGMR

DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCSEQLWSAFVLAAVVALVICLITFFVVSWILGRQGKQ

QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR

QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG

SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA

IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSLAIRGLLAMGENRNRRV

WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAASLFDVMNTRAFFRSPSHKIA

EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL

KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI

NDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVN

INVHRERGEDVEPGDDF

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.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 36281..59553

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
A8O33_RS25815 (A8O33_24500)	31844..32131	+	288	WP_000107547	hypothetical protein	-
A8O33_RS25820 (A8O33_24505)	32248..33069	+	822	WP_001234477	DUF932 domain-containing protein	-
A8O33_RS25825 (A8O33_24510)	33364..33942	-	579	WP_283572736	transglycosylase SLT domain-containing protein	-
A8O33_RS25835 (A8O33_24515)	34288..34671	+	384	WP_000124980	conjugal transfer relaxosome DNA-binding protein TraM	-
A8O33_RS25840 (A8O33_24520)	34861..35546	+	686	Protein_35	PAS domain-containing protein	-
A8O33_RS25845 (A8O33_24525)	35640..35867	+	228	WP_001254386	conjugal transfer relaxosome protein TraY	-
A8O33_RS25850 (A8O33_24530)	35901..36266	+	366	WP_000340267	type IV conjugative transfer system pilin TraA	-
A8O33_RS25855 (A8O33_24535)	36281..36592	+	312	WP_000012110	type IV conjugative transfer system protein TraL	traL
A8O33_RS25860 (A8O33_24540)	36614..37180	+	567	WP_000399792	type IV conjugative transfer system protein TraE	traE
A8O33_RS25865 (A8O33_24545)	37167..37895	+	729	WP_001230810	type-F conjugative transfer system secretin TraK	traK
A8O33_RS25870 (A8O33_24550)	37895..39322	+	1428	WP_000146689	F-type conjugal transfer pilus assembly protein TraB	traB
A8O33_RS25875 (A8O33_24555)	39312..39902	+	591	WP_000002791	conjugal transfer pilus-stabilizing protein TraP	-
A8O33_RS25880 (A8O33_24560)	39889..40086	+	198	WP_001324648	conjugal transfer protein TrbD	-
A8O33_RS25885 (A8O33_24565)	40098..40349	+	252	WP_001038342	conjugal transfer protein TrbG	-
A8O33_RS25890 (A8O33_24570)	40346..40861	+	516	WP_000809906	type IV conjugative transfer system lipoprotein TraV	traV
A8O33_RS25895	40996..41217	+	222	WP_001278689	conjugal transfer protein TraR	-
A8O33_RS25900 (A8O33_24575)	41377..44004	+	2628	WP_001064245	type IV secretion system protein TraC	virb4
A8O33_RS25905 (A8O33_24580)	44001..44387	+	387	WP_000099690	type-F conjugative transfer system protein TrbI	-
A8O33_RS25910 (A8O33_24585)	44384..45016	+	633	WP_001203716	type-F conjugative transfer system protein TraW	traW
A8O33_RS25915 (A8O33_24590)	45013..46005	+	993	WP_000830186	conjugal transfer pilus assembly protein TraU	traU
A8O33_RS25920 (A8O33_24595)	46014..46652	+	639	WP_001406992	type-F conjugative transfer system pilin assembly protein TrbC	trbC
A8O33_RS25925 (A8O33_24600)	46649..48457	+	1809	WP_000821074	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
A8O33_RS25930 (A8O33_24605)	48484..48741	+	258	WP_000864346	conjugal transfer protein TrbE	-
A8O33_RS25935 (A8O33_24610)	48734..49477	+	744	WP_001030388	type-F conjugative transfer system pilin assembly protein TraF	traF
A8O33_RS25940 (A8O33_24615)	49493..49840	+	348	WP_001287678	conjugal transfer protein TrbA	-
A8O33_RS25945 (A8O33_24620)	49842..50117	-	276	WP_001513501	hypothetical protein	-
A8O33_RS25950 (A8O33_24625)	50198..50482	+	285	WP_000624103	type-F conjugative transfer system pilin chaperone TraQ	-
A8O33_RS25955 (A8O33_24630)	50469..51014	+	546	WP_000059833	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
A8O33_RS25960 (A8O33_24635)	50944..51285	+	342	WP_001406994	P-type conjugative transfer protein TrbJ	-
A8O33_RS25965 (A8O33_24640)	51272..51664	+	393	WP_001208952	F-type conjugal transfer protein TrbF	-
A8O33_RS25970 (A8O33_24645)	51651..53024	+	1374	WP_000944319	conjugal transfer pilus assembly protein TraH	traH
A8O33_RS25975 (A8O33_24650)	53021..55837	+	2817	WP_001007052	conjugal transfer mating-pair stabilization protein TraG	traG
A8O33_RS25980	55870..56391	+	522	WP_000632670	conjugal transfer entry exclusion protein TraS	-
A8O33_RS25985 (A8O33_24660)	56416..57147	+	732	WP_000850422	conjugal transfer complement resistance protein TraT	-
A8O33_RS25990 (A8O33_24665)	57400..59553	+	2154	WP_076033906	type IV conjugative transfer system coupling protein TraD	virb4
A8O33_RS25995 (A8O33_24670)	59562..59960	-	399	WP_000911317	type II toxin-antitoxin system VapC family toxin	-
A8O33_RS26000 (A8O33_24675)	59960..60187	-	228	WP_000450521	toxin-antitoxin system antitoxin VapB	-

Host bacterium

ID	3100	GenBank	NZ_LYNF01000004
Plasmid name	pT22	Incompatibility group	IncFIB
Plasmid size	82444 bp	Coordinate of oriT [Strand]	33924..34047 [+]
Host baterium	Escherichia coli O157:H43 strain T22

Cargo genes

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