Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 104076
• Name: oriT_pEA24_2
• Organism: Escherichia albertii strain BIA_24
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_CP117622 (60687..61038 [+], 352 nt)
• oriT length: 352 nt
• IRs (inverted repeats): 260..268, 279..287 (CAGGGGCGC..GCGCCCCTG) 192..198, 206..212 (TATAAAA..TTTTATA) 104..110, 118..124 (TTTAAAT..ATTTAAA) 40..47, 50..57 (GCAAAAAC..GTTTTTGC) 4..11, 16..23 (TTGGTGGT..ACCACCAA)
• Location of nic site: _
• Conserved sequence flanking the nic site: _
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 352 nt

>oriT_pEA24_2
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTATCTTTAATATCATTGAGTTGTATTTGTGGATTTATATTGTTTAAATTTGATTTATTTAAAGCAGCGTCGTTAACGCAGCTACAGCAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGTCAGGGGCGCTGCTAACGGTGCGCCCCTGTTTGCACTATGAATTCTAGTGTTTCGAAATTAACTTTGTTTTATGTTTAAAAAAGGTAATATCTA

oriT secondary structure

Predicted by RNAfold.

Relaxase

traI_PS039_RS24820_pEA24_2

• ID: 3016
• GenBank: WP_273810618
• Name: traI_PS039_RS24820_pEA24_2
• UniProt ID: _
• Length: 1756 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1756 a.a.
• Molecular weight: 192035.86 Da
• Isoelectric Point: 5.7616

>WP_273810618.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMPGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQDETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTSFIDLGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALMDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDIIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRAIRPGQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSTARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGRGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSIQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRAAITEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

Protein domains

Predicted by InterproScan.

• single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N) (575-626)

• DNA relaxase TraI 2B/2B-like domain (TraI_2B) (633-712)

• AAA domain (AAA_30) (969-1156)

• DNA helicase TraI (TraI_C) (1434-1557)

• TrwC relaxase (TrwC) (10-283)

Protein structure

No available structure.

Auxiliary protein

WP_001151530_pEA24_2

• ID: 1279
• GenBank: WP_001151530
• Name: WP_001151530_pEA24_2
• UniProt ID: A0A385JKG6
• Length: 127 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

Auxiliary protein sequence

• Length: 127 a.a.
• Molecular weight: 14525.54 Da
• Isoelectric Point: 4.8662

>WP_001151530.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVYEAQMERKESAFNQAEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSVEMERFFPKNDDE

Protein domains

Predicted by InterproScan.

• TraM protein, DNA-binding (Tra_M) (1-126)

Protein structure

• AlphaFold DB: A0A385JKG6

T4CP

traC_PS039_RS24705_pEA24_2

• ID: 2894
• GenBank: WP_181668576
• Name: traC_PS039_RS24705_pEA24_2
• UniProt ID: _
• Length: 875 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 875 a.a.
• Molecular weight: 99144.73 Da
• Isoelectric Point: 5.7326

>WP_181668576.1 MULTISPECIES: type IV secretion system protein TraC [Escherichia]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
AGGTYGRYFNSDEPSLQDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

Protein domains

Predicted by InterproScan.

• TraG P-loop domain (P-loop_TraG) (467-771)

• Family of unknown function (DUF5934) (DUF5934) (289-446)

• TraC protein (TraC_F_IV) (38-276)

Protein structure

No available structure.

traD_PS039_RS24815_pEA24_2

• ID: 2895
• GenBank: WP_273810590
• Name: traD_PS039_RS24815_pEA24_2
• UniProt ID: _
• Length: 717 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 717 a.a.
• Molecular weight: 81376.96 Da
• Isoelectric Point: 5.1676

>WP_273810590.1 type IV conjugative transfer system coupling protein TraD [Escherichia albertii]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKNSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTYLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDKKNGWLFISSNADTHASLKPVVSMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVLNTRAFFRSPSHQIA
EFAAGEIGEKEHLKASLQYSYGADPVRDGISTGKEMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKIAPEFIPREINPEMENRLSAVLAAREAEGRQVASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDAGVNVPAGGIEPELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVN
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: 60116..88309

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
PS039_RS24605 (PS039_24605)	55175..55408	+	234	WP_071588969	hypothetical protein	-
PS039_RS24610 (PS039_24610)	55649..55909	+	261	WP_042046747	hypothetical protein	-
PS039_RS24615 (PS039_24615)	56026..57012	-	987	WP_273810655	IS110 family transposase	-
PS039_RS24625 (PS039_24625)	58593..58880	+	288	WP_000107535	hypothetical protein	-
PS039_RS24630 (PS039_24630)	58998..59819	+	822	WP_001234426	DUF932 domain-containing protein	-
PS039_RS24635 (PS039_24635)	60116..60763	-	648	WP_155953419	transglycosylase SLT domain-containing protein	virB1
PS039_RS24640 (PS039_24640)	61039..61422	+	384	WP_001151530	conjugal transfer relaxosome DNA-binding protein TraM	-
PS039_RS24645 (PS039_24645)	61614..62261	+	648	WP_096040777	transcriptional regulator TraJ family protein	-
PS039_RS24650 (PS039_24650)	62381..62608	+	228	WP_000589558	conjugal transfer relaxosome protein TraY	-
PS039_RS24655 (PS039_24655)	62642..63034	+	393	WP_024127870	type IV conjugative transfer system pilin TraA	-
PS039_RS24660 (PS039_24660)	63049..63360	+	312	WP_001585108	type IV conjugative transfer system protein TraL	traL
PS039_RS24665 (PS039_24665)	63382..63948	+	567	WP_000399792	type IV conjugative transfer system protein TraE	traE
PS039_RS24670 (PS039_24670)	63935..64663	+	729	WP_001230809	type-F conjugative transfer system secretin TraK	traK
PS039_RS24675 (PS039_24675)	64663..66090	+	1428	WP_096937179	F-type conjugal transfer pilus assembly protein TraB	traB
PS039_RS24680 (PS039_24680)	66080..66670	+	591	WP_001376242	conjugal transfer pilus-stabilizing protein TraP	-
PS039_RS24685 (PS039_24685)	66657..66854	+	198	WP_001324648	conjugal transfer protein TrbD	-
PS039_RS24690 (PS039_24690)	66867..67118	+	252	WP_001038341	conjugal transfer protein TrbG	-
PS039_RS24695 (PS039_24695)	67115..67630	+	516	WP_016241856	type IV conjugative transfer system lipoprotein TraV	traV
PS039_RS24700 (PS039_24700)	67765..67986	+	222	WP_001278685	conjugal transfer protein TraR	-
PS039_RS24705 (PS039_24705)	68146..70773	+	2628	WP_181668576	type IV secretion system protein TraC	virb4
PS039_RS24710 (PS039_24710)	70770..71156	+	387	WP_181668575	type-F conjugative transfer system protein TrbI	-
PS039_RS24715 (PS039_24715)	71153..71785	+	633	WP_001203749	type-F conjugative transfer system protein TraW	traW
PS039_RS24720 (PS039_24720)	71782..72774	+	993	WP_000830839	conjugal transfer pilus assembly protein TraU	traU
PS039_RS24725 (PS039_24725)	72800..73264	+	465	WP_096948751	hypothetical protein	-
PS039_RS24730 (PS039_24730)	73275..73589	+	315	WP_273810609	hypothetical protein	-
PS039_RS24735 (PS039_24735)	73582..74034	+	453	WP_000069432	hypothetical protein	-
PS039_RS24740 (PS039_24740)	74062..74700	+	639	WP_273810610	type-F conjugative transfer system pilin assembly protein TrbC	trbC
PS039_RS24745 (PS039_24745)	74697..75077	+	381	WP_273810611	hypothetical protein	-
PS039_RS24750 (PS039_24750)	75313..77175	+	1863	WP_273810612	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
PS039_RS24755 (PS039_24755)	77202..77459	+	258	WP_000864328	conjugal transfer protein TrbE	-
PS039_RS24760 (PS039_24760)	77452..78195	+	744	WP_273810613	type-F conjugative transfer system pilin assembly protein TraF	traF
PS039_RS24765 (PS039_24765)	78211..78558	+	348	WP_001287677	conjugal transfer protein TrbA	-
PS039_RS24770 (PS039_24770)	78560..78874	-	315	WP_000415566	protein ArtA	-
PS039_RS24775 (PS039_24775)	78955..79239	+	285	WP_273810614	type-F conjugative transfer system pilin chaperone TraQ	-
PS039_RS24780 (PS039_24780)	79226..79771	+	546	WP_000059851	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
PS039_RS24785 (PS039_24785)	79701..80042	+	342	WP_273810615	P-type conjugative transfer protein TrbJ	-
PS039_RS24790 (PS039_24790)	80029..80421	+	393	WP_000138368	F-type conjugal transfer protein TrbF	-
PS039_RS24795 (PS039_24795)	80408..81781	+	1374	WP_273810616	conjugal transfer pilus assembly protein TraH	traH
PS039_RS24800 (PS039_24800)	81778..84621	+	2844	WP_273810617	conjugal transfer mating-pair stabilization protein TraG	traG
PS039_RS24805 (PS039_24805)	84636..85139	+	504	WP_000605510	hypothetical protein	-
PS039_RS24810 (PS039_24810)	85171..85902	+	732	WP_000850424	conjugal transfer complement resistance protein TraT	-
PS039_RS24815 (PS039_24815)	86156..88309	+	2154	WP_273810590	type IV conjugative transfer system coupling protein TraD	virb4

Host bacterium

• ID: 4515
• GenBank: NZ_CP117622
• Plasmid name: pEA24_2
• Incompatibility group: -
• Plasmid size: 98343 bp
• Coordinate of oriT [Strand]: 60687..61038 [+]
• Host baterium: Escherichia albertii strain BIA_24

Cargo genes

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