Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 108400
• Name: oriT_p143-3
• Organism: Salmonella enterica strain 143
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_CP091565 (31263..31614 [+], 352 nt)
• oriT length: 352 nt
• IRs (inverted repeats): 192..198, 206..212 (TATAAAA..TTTTATA) 104..109, 119..124 (TTTAAA..TTTAAA) 93..98, 106..111 (GATTTA..TAAATC) 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_p143-3
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACACTACGCAAAAACAAGTTTTTGCTGATTTATCTTTAATATCATTGAGTTGTATTTGTGGATTTATATTGTTTAAATCTGATTTTTTTAAAGCAGCGTCGTTAACGCAGCTACAGCAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGTCAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCACTATGAATTCTAGTGTTTCGAAATTAACTTTGTTTTATGTTTAAAAAAGGTAATATCTA

oriT secondary structure

Predicted by RNAfold.

Relaxase

traI_INN77_RS26745_p143-3

• ID: 5615
• GenBank: WP_249004962
• Name: traI_INN77_RS26745_p143-3
• UniProt ID: _
• Length: 1756 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1756 a.a.
• Molecular weight: 191676.30 Da
• Isoelectric Point: 5.7421

>WP_249004962.1 conjugative transfer relaxase/helicase TraI [Salmonella enterica]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GCPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
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)

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

• AAA domain (AAA_30) (968-1156)

Protein structure

No available structure.

Auxiliary protein

WP_001151529_p143-3

• ID: 2702
• GenBank: WP_001151529
• Name: WP_001151529_p143-3
• UniProt ID: A0A7I0L277
• Length: 127 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

Auxiliary protein sequence

• Length: 127 a.a.
• Molecular weight: 14497.49 Da
• Isoelectric Point: 4.8662

>WP_001151529.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVYEAQMERKESAFNQAEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSAEMERFFPKNDDE

Protein domains

Predicted by InterproScan.

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

Protein structure

• AlphaFold DB: A0A7I0L277

T4CP

traC_INN77_RS26640_p143-3

• ID: 6000
• GenBank: WP_000069772
• Name: traC_INN77_RS26640_p143-3
• UniProt ID: _
• Length: 876 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 876 a.a.
• Molecular weight: 99344.15 Da
• Isoelectric Point: 6.4096

>WP_000069772.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASFHGAKITTQTVDAQAFIEIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRTLKKLNVIDEGW
RLLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRREG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

Protein domains

Predicted by InterproScan.

• Family of unknown function (DUF5934) (DUF5934) (291-447)

• TraG P-loop domain (P-loop_TraG) (468-764)

• TraC protein (TraC_F_IV) (39-277)

Protein structure

No available structure.

traD_INN77_RS26740_p143-3

• ID: 6001
• GenBank: WP_249004961
• Name: traD_INN77_RS26740_p143-3
• UniProt ID: _
• Length: 756 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 756 a.a.
• Molecular weight: 85938.69 Da
• Isoelectric Point: 5.1008

>WP_249004961.1 type IV conjugative transfer system coupling protein TraD [Salmonella enterica]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILIGLVLWVKISWQTFINGCIYWWCTSLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGHQGKQ
QSENEVTGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEGVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPVSSVINDKKSDAGVSVPAGGIEQELNMKPEEEMEQQ
LPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

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: 30692..59070

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
INN77_RS26525 (INN77_26550)	26682..27116	+	435	WP_000845953	conjugation system SOS inhibitor PsiB	-
INN77_RS26530 (INN77_26555)	27113..27832	+	720	WP_001276217	plasmid SOS inhibition protein A	-
INN77_RS26535 (INN77_26560)	28054..28203	+	150	Protein_39	plasmid maintenance protein Mok	-
INN77_RS26540 (INN77_26565)	28145..28270	+	126	WP_001372321	type I toxin-antitoxin system Hok family toxin	-
INN77_RS26545 (INN77_26570)	28571..28867	-	297	Protein_41	hypothetical protein	-
INN77_RS26550 (INN77_26575)	29167..29463	+	297	WP_001272251	hypothetical protein	-
INN77_RS26555 (INN77_26580)	29574..30395	+	822	WP_001234445	DUF932 domain-containing protein	-
INN77_RS26560 (INN77_26585)	30692..31294	-	603	WP_000243713	transglycosylase SLT domain-containing protein	virB1
INN77_RS26565 (INN77_26590)	31615..31998	+	384	WP_001151529	conjugal transfer relaxosome DNA-binding protein TraM	-
INN77_RS26570 (INN77_26595)	32190..32837	+	648	WP_000332523	transcriptional regulator TraJ family protein	-
INN77_RS26575 (INN77_26600)	32957..33184	+	228	WP_000589556	conjugal transfer relaxosome protein TraY	-
INN77_RS26580 (INN77_26605)	33218..33580	+	363	WP_012881131	type IV conjugative transfer system pilin TraA	-
INN77_RS26585 (INN77_26610)	33595..33906	+	312	WP_000012100	type IV conjugative transfer system protein TraL	traL
INN77_RS26590 (INN77_26615)	33928..34494	+	567	WP_000399780	type IV conjugative transfer system protein TraE	traE
INN77_RS26595 (INN77_26620)	34481..35209	+	729	WP_001230769	type-F conjugative transfer system secretin TraK	traK
INN77_RS26600 (INN77_26625)	35209..36636	+	1428	WP_012881130	F-type conjugal transfer pilus assembly protein TraB	traB
INN77_RS26605 (INN77_26630)	36626..37216	+	591	WP_012881129	conjugal transfer pilus-stabilizing protein TraP	-
INN77_RS26610 (INN77_26635)	37203..37523	+	321	WP_012881128	conjugal transfer protein TrbD	-
INN77_RS26615 (INN77_26640)	37520..38035	+	516	WP_000809881	type IV conjugative transfer system lipoprotein TraV	traV
INN77_RS26620 (INN77_26645)	38170..38391	+	222	WP_001278683	conjugal transfer protein TraR	-
INN77_RS26625 (INN77_26650)	38384..38860	+	477	WP_012881127	hypothetical protein	-
INN77_RS26630 (INN77_26655)	38959..39177	+	219	WP_000556745	hypothetical protein	-
INN77_RS26635 (INN77_26660)	39205..39552	+	348	WP_000836682	hypothetical protein	-
INN77_RS26640 (INN77_26665)	39678..42308	+	2631	WP_000069772	type IV secretion system protein TraC	virb4
INN77_RS26645 (INN77_26670)	42305..42691	+	387	WP_000214084	type-F conjugative transfer system protein TrbI	-
INN77_RS26650 (INN77_26675)	42688..43320	+	633	WP_001203720	type-F conjugative transfer system protein TraW	traW
INN77_RS26655 (INN77_26680)	43317..44309	+	993	WP_000830849	conjugal transfer pilus assembly protein TraU	traU
INN77_RS26660 (INN77_26685)	44339..44644	+	306	WP_249004959	hypothetical protein	-
INN77_RS26665 (INN77_26690)	44653..45291	+	639	WP_249004960	type-F conjugative transfer system pilin assembly protein TrbC	trbC
INN77_RS26670 (INN77_26695)	45288..47138	+	1851	WP_012881125	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
INN77_RS26675 (INN77_26700)	47165..47422	+	258	WP_000864353	conjugal transfer protein TrbE	-
INN77_RS26680 (INN77_26705)	47415..48158	+	744	WP_001030371	type-F conjugative transfer system pilin assembly protein TraF	traF
INN77_RS26685 (INN77_26710)	48172..48513	+	342	WP_000556795	conjugal transfer protein TrbA	-
INN77_RS26690 (INN77_26715)	48494..48829	-	336	WP_000736414	hypothetical protein	-
INN77_RS26695 (INN77_26720)	48910..49194	+	285	WP_000624107	type-F conjugative transfer system pilin chaperone TraQ	-
INN77_RS26700 (INN77_26725)	49181..49726	+	546	WP_000059830	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
INN77_RS26705 (INN77_26730)	49656..50003	+	348	WP_011666494	P-type conjugative transfer protein TrbJ	-
INN77_RS26710 (INN77_26735)	49984..50376	+	393	WP_000659962	F-type conjugal transfer protein TrbF	-
INN77_RS26715 (INN77_26740)	50363..51736	+	1374	WP_000944331	conjugal transfer pilus assembly protein TraH	traH
INN77_RS26720 (INN77_26745)	51733..54558	+	2826	WP_012881124	conjugal transfer mating-pair stabilization protein TraG	traG
INN77_RS26725 (INN77_26750)	54555..55064	+	510	WP_000628111	conjugal transfer entry exclusion protein TraS	-
INN77_RS26730 (INN77_26755)	55078..55809	+	732	WP_012881123	conjugal transfer complement resistance protein TraT	-
INN77_RS26735 (INN77_26760)	56012..56749	+	738	WP_012881122	hypothetical protein	-
INN77_RS26740 (INN77_26765)	56800..59070	+	2271	WP_249004961	type IV conjugative transfer system coupling protein TraD	prgC

Host bacterium

• ID: 8835
• GenBank: NZ_CP091565
• Plasmid name: p143-3
• Incompatibility group: -
• Plasmid size: 70486 bp
• Coordinate of oriT [Strand]: 31263..31614 [+]
• Host baterium: Salmonella enterica strain 143

Cargo genes

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