oriTDB

oriT

The information of the oriT region

oriTDB ID	101911
Name	oriT_FWSEC0541\|unnamed5
Organism	Escherichia coli strain FWSEC0541
Sequence Completeness	-
*NCBI accession of oriT* (coordinates [strand])**	NZ_RRSH01000250 (2480..2603 [+], 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_FWSEC0541|unnamed5
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTATTTGAATCATTAACTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATAAAA                      

Visualization of oriT structure

oriT secondary structure

Predicted by RNAfold.

Download structure file

Relaxase

traI_C9308_RS27890_FWSEC0541|unnamed5

ID	1556	GenBank	WP_136866494
Name	traI_C9308_RS27890_FWSEC0541\|unnamed5	UniProt ID	_
Length	1027 a.a.	PDB ID
Note	Predicted by oriTfinder 2.0

Relaxase protein sequence

Download Length: 1027 a.a. Molecular weight: 111900.45 Da Isoelectric Point: 6.5264

          >WP_136866494.1 conjugative transfer relaxase/helicase TraI, partial [Escherichia coli]

MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGKGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ

DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRGMTDGQSETVLTGNLV

MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA

LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT

LKETGFDIRAYRDAADQRTEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE

NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS

DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR

RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW

QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT

MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS

SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFTALKL

ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI

KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA

QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI

LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTH

Protein domains

Predicted by InterproScan.

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

(633-712)

AAA domain (AAA_30)

(968-1026)

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

(575-626)

TrwC relaxase (TrwC)

(10-283)

Protein structure

No available structure.

ID	629	GenBank	WP_001151564
Name	WP_001151564_FWSEC0541\|unnamed5	UniProt ID	A0AA36PD43
Length	127 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

Auxiliary protein sequence

Download Length: 127 a.a. Molecular weight: 14446.39 Da Isoelectric Point: 4.7197

                        >WP_001151564.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacterales]

MAKVQAYVSDEIVYKINKIVERRRAEGAKSTDVSFSSISTMLLELGLRVYEAQMERKESAFNQAEFNKVL

LECAVKTQSTVAKILGIESLSPHVSGNPKFEYANMVEDIRDKVSSEMERFFPENDEE

Protein domains

Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)

Protein structure

No available structure.

ID	630	GenBank	WP_001254388
Name	WP_001254388_FWSEC0541\|unnamed5	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

T4CP

traC_C9308_RS27795_FWSEC0541|unnamed5
traD_C9308_RS27885_FWSEC0541|unnamed5

ID	1228	GenBank	WP_001064239
Name	traC_C9308_RS27795_FWSEC0541\|unnamed5	UniProt ID	_
Length	875 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

T4CP protein sequence

Download Length: 875 a.a. Molecular weight: 99485.47 Da Isoelectric Point: 6.6265

                        >WP_001064239.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]

MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP

INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA

TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASFHGAKITTQTVDAQAFIEIVG

EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL

WNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE

LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG

LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSGA

GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV

MASPNGNLDEVHEGLLLQAVRASWLAKKKQARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT

ANGTYGRYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRTLKKLNVIDEGWR

LLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN

QLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRREGM

SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

Protein domains

Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(467-771)

Family of unknown function (DUF5934) (DUF5934)

(290-446)

TraC protein (TraC_F_IV)

(38-276)

Protein structure

No available structure.

ID	1229	GenBank	WP_049077307
Name	traD_C9308_RS27885_FWSEC0541\|unnamed5	UniProt ID	_
Length	723 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

T4CP protein sequence

Download Length: 723 a.a. Molecular weight: 82233.92 Da Isoelectric Point: 5.1048

                        >WP_049077307.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]

MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR

DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ

QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVSTGKSEVIRRLANYAR

KRGDMVVIYDRSCEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNVANTLIPMGTKEDPFWQG

SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA

IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVVSMWLSIAIRGLLAMGENRNRRV

WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVLNTRAFFRSPSHQIA

EFAAGEIGEKEHLKASLQYSYGADPVRDGISTGKEMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL

KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ

PVSPAINDKKSDSGVNIPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQ

RREEVNINVHRERGEDVEPGDDF

Protein domains

Predicted by InterproScan.

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

(173-560)

F sex factor protein N terminal (TraD_N)

(32-128)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1908..24572

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C9308_RS31960	1..84	-	84	Protein_0	hypothetical protein	-
C9308_RS27715 (C9308_27745)	382..669	+	288	WP_000107537	hypothetical protein	-
C9308_RS27720 (C9308_27750)	790..1611	+	822	WP_001234469	DUF932 domain-containing protein	-
C9308_RS27725 (C9308_27755)	1908..2555	-	648	WP_000614282	transglycosylase SLT domain-containing protein	virB1
C9308_RS27730 (C9308_27760)	2841..3224	+	384	WP_001151564	conjugal transfer relaxosome DNA-binding protein TraM	-
C9308_RS27735 (C9308_27765)	3418..4104	+	687	WP_000332487	PAS domain-containing protein	-
C9308_RS27740 (C9308_27770)	4198..4425	+	228	WP_001254388	conjugal transfer relaxosome protein TraY	-
C9308_RS27745 (C9308_27775)	4459..4821	+	363	WP_001098998	type IV conjugative transfer system pilin TraA	-
C9308_RS27750 (C9308_27780)	4826..5137	+	312	WP_000012106	type IV conjugative transfer system protein TraL	traL
C9308_RS27755 (C9308_27785)	5159..5725	+	567	WP_000399804	type IV conjugative transfer system protein TraE	traE
C9308_RS27760 (C9308_27790)	5712..6440	+	729	WP_001230787	type-F conjugative transfer system secretin TraK	traK
C9308_RS27765 (C9308_27795)	6440..7867	+	1428	WP_000146638	F-type conjugal transfer pilus assembly protein TraB	traB
C9308_RS27770 (C9308_27800)	7857..8441	+	585	WP_000002795	conjugal transfer pilus-stabilizing protein TraP	-
C9308_RS27775 (C9308_27805)	8428..8748	+	321	WP_001057302	conjugal transfer protein TrbD	virb4
C9308_RS27780 (C9308_27810)	8741..8992	+	252	WP_001038341	conjugal transfer protein TrbG	-
C9308_RS27785 (C9308_27815)	8989..9504	+	516	WP_000809893	type IV conjugative transfer system lipoprotein TraV	traV
C9308_RS27790 (C9308_27820)	9639..9860	+	222	WP_001278978	conjugal transfer protein TraR	-
C9308_RS27795 (C9308_27825)	10020..12647	+	2628	WP_001064239	type IV secretion system protein TraC	virb4
C9308_RS27800 (C9308_27830)	12644..13030	+	387	WP_000214082	type-F conjugative transfer system protein TrbI	-
C9308_RS27805 (C9308_27835)	13027..13659	+	633	WP_001203720	type-F conjugative transfer system protein TraW	traW
C9308_RS27810 (C9308_27840)	13656..14648	+	993	WP_000830838	conjugal transfer pilus assembly protein TraU	traU
C9308_RS27815 (C9308_27845)	14678..14983	+	306	WP_000224411	hypothetical protein	-
C9308_RS27820 (C9308_27850)	14992..15630	+	639	WP_001080257	type-F conjugative transfer system pilin assembly protein TrbC	trbC
C9308_RS27825 (C9308_27855)	15627..17435	+	1809	WP_000821863	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
C9308_RS27830 (C9308_27860)	17462..17719	+	258	WP_000864320	conjugal transfer protein TrbE	-
C9308_RS27835 (C9308_27865)	17712..18455	+	744	WP_001030371	type-F conjugative transfer system pilin assembly protein TraF	traF
C9308_RS27840 (C9308_27870)	18471..18809	+	339	WP_001287905	conjugal transfer protein TrbA	-
C9308_RS27845 (C9308_27875)	18936..19220	+	285	WP_001448202	type-F conjugative transfer system pilin chaperone TraQ	-
C9308_RS27850 (C9308_27880)	19207..19752	+	546	WP_000059824	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
C9308_RS27855 (C9308_27885)	19682..20023	+	342	WP_001448115	P-type conjugative transfer protein TrbJ	-
C9308_RS27860 (C9308_27890)	20004..20396	+	393	WP_000660703	F-type conjugal transfer protein TrbF	-
C9308_RS27865 (C9308_27895)	20383..21756	+	1374	WP_001137364	conjugal transfer pilus assembly protein TraH	traH
C9308_RS27870 (C9308_27900)	21753..24572	+	2820	WP_001007057	conjugal transfer mating-pair stabilization protein TraG	traG
C9308_RS27875 (C9308_27905)	24591..25088	+	498	WP_000605861	hypothetical protein	-
C9308_RS27880 (C9308_27910)	25120..25851	+	732	WP_000850422	conjugal transfer complement resistance protein TraT	-
C9308_RS27885 (C9308_27915)	26104..28275	+	2172	WP_049077307	type IV conjugative transfer system coupling protein TraD	-

Host bacterium

ID	2355	GenBank	NZ_RRSH01000250
Plasmid name	FWSEC0541\|unnamed5	Incompatibility group	-
Plasmid size	31355 bp	Coordinate of oriT [Strand]	2480..2603 [+]
Host baterium	Escherichia coli strain FWSEC0541

Cargo genes

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

Detailed information of oriT

oriT

The information of the oriT region

oriT sequence

oriT secondary structure

Relaxase

Relaxase protein sequence

Protein domains

Protein structure

Auxiliary protein

Auxiliary protein sequence

Protein domains

Protein structure

Auxiliary protein sequence

Protein domains

Protein structure

T4CP

T4CP protein sequence

Protein domains

Protein structure

T4CP protein sequence

Protein domains

Protein structure

T4SS

Host bacterium

Cargo genes