Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 102676
• Name: oriT_700415|unnamed1
• Organism: Escherichia coli strain 700415
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_POTA01000023 (28509..28860 [+], 352 nt)
• oriT length: 352 nt
• IRs (inverted repeats): 192..198, 206..212 (TATAAAA..TTTTATA) 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_700415|unnamed1
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGAGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCCAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

oriT secondary structure

Predicted by RNAfold.

Relaxase

traI_C1X11_RS21920_700415|unnamed1

• ID: 1977
• GenBank: WP_000986969
• Name: traI_C1X11_RS21920_700415|unnamed1
• UniProt ID: A0A731Y7R8
• Length: 1756 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1756 a.a.
• Molecular weight: 191917.73 Da
• Isoelectric Point: 5.9718

>WP_000986969.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKTGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLLQRSGETPNFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
APVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVVAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVQIARDNPDSGVVVRIAGE
GRPWNPGTITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

Protein domains

Predicted by InterproScan.

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

• AAA domain (AAA_30) (969-1156)

• TrwC relaxase (TrwC) (10-283)

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

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

Protein structure

No available structure.

Auxiliary protein

WP_001151528_700415|unnamed1

• ID: 801
• GenBank: WP_001151528
• Name: WP_001151528_700415|unnamed1
• UniProt ID: A0A731UEV6
• Length: 127 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

Auxiliary protein sequence

• Length: 127 a.a.
• Molecular weight: 14577.51 Da
• Isoelectric Point: 5.0517

>WP_001151528.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVHEAQMERKESAFNQTEFNKLL
LEYVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDDE

Protein domains

Predicted by InterproScan.

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

Protein structure

• AlphaFold DB: A0A731UEV6

WP_223195105_700415|unnamed1

• ID: 802
• GenBank: WP_223195105
• Name: WP_223195105_700415|unnamed1
• UniProt ID: _
• Length: 133 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

Auxiliary protein sequence

• Length: 133 a.a.
• Molecular weight: 15423.73 Da
• Isoelectric Point: 9.9240

>WP_223195105.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Enterobacteriaceae]
MLLKRFGTRSATGKMVKLKLPLDVESLLIEASNRSGRSRSFEAVIRLKDHLHRYPKFNRAGNIYGKSLVK
YLTMRLDDETNQLLIAAKNRSGWCKTDEAADRVIDHLIKFPDFYNSEIFREADKEEDITFNTL

Protein domains

Predicted by InterproScan.

• TraY domain (TraY) (18-61)

• TraY domain (TraY) (72-119)

Protein structure

No available structure.

T4CP

traC_C1X11_RS21815_700415|unnamed1

• ID: 1615
• GenBank: WP_001064265
• Name: traC_C1X11_RS21815_700415|unnamed1
• UniProt ID: _
• Length: 875 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 875 a.a.
• Molecular weight: 99296.07 Da
• Isoelectric Point: 6.3032

>WP_001064265.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLREKGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKNRARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
AGGTYGRYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

Protein domains

Predicted by InterproScan.

• TraC protein (TraC_F_IV) (38-276)

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

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

Protein structure

No available structure.

traD_C1X11_RS21905_700415|unnamed1

• ID: 1616
• GenBank: WP_000009324
• Name: traD_C1X11_RS21905_700415|unnamed1
• UniProt ID: _
• Length: 717 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 717 a.a.
• Molecular weight: 81528.14 Da
• Isoelectric Point: 5.1126

>WP_000009324.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEITGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQNPDIQQKMQRREEVN
INVHRERGEDVEPGDDF

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: 27938..54396

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
C1X11_RS28630	23621..23809	-	189	WP_001299721	hypothetical protein	-
C1X11_RS21715 (C1X11_21720)	23866..25235	+	1370	WP_085947770	IS3-like element IS150 family transposase	-
C1X11_RS29420	25277..25426	+	150	Protein_34	plasmid maintenance protein Mok	-
C1X11_RS21720 (C1X11_21725)	25368..25493	+	126	WP_001372321	type I toxin-antitoxin system Hok family toxin	-
C1X11_RS29735	25713..25942	+	230	Protein_36	hypothetical protein	-
C1X11_RS29425	25940..26113	-	174	Protein_37	hypothetical protein	-
C1X11_RS29430 (C1X11_21735)	26183..26389	+	207	WP_015059635	hypothetical protein	-
C1X11_RS21735 (C1X11_21740)	26414..26700	+	287	Protein_39	hypothetical protein	-
C1X11_RS21740 (C1X11_21745)	26820..27641	+	822	WP_001234423	DUF932 domain-containing protein	-
C1X11_RS21745 (C1X11_21750)	27938..28528	-	591	WP_023565181	transglycosylase SLT domain-containing protein	virB1
C1X11_RS21750 (C1X11_21755)	28861..29244	+	384	WP_001151528	conjugal transfer relaxosome DNA-binding protein TraM	-
C1X11_RS21755 (C1X11_21760)	29431..30120	+	690	WP_000283383	conjugal transfer transcriptional regulator TraJ	-
C1X11_RS21760 (C1X11_21765)	30219..30614	+	396	WP_001366159	conjugal transfer relaxosome DNA-bindin protein TraY	-
C1X11_RS21765 (C1X11_21770)	30647..31009	+	363	WP_000994784	type IV conjugative transfer system pilin TraA	-
C1X11_RS21770 (C1X11_21775)	31014..31325	+	312	WP_000012106	type IV conjugative transfer system protein TraL	traL
C1X11_RS21775 (C1X11_21780)	31347..31913	+	567	WP_000399792	type IV conjugative transfer system protein TraE	traE
C1X11_RS21780 (C1X11_21785)	31900..32628	+	729	WP_001230805	type-F conjugative transfer system secretin TraK	traK
C1X11_RS21785 (C1X11_21790)	32628..34079	+	1452	WP_000146659	F-type conjugal transfer pilus assembly protein TraB	traB
C1X11_RS21790 (C1X11_21795)	34069..34629	+	561	WP_000896605	conjugal transfer pilus-stabilizing protein TraP	-
C1X11_RS21795 (C1X11_21800)	34616..34936	+	321	WP_001057304	conjugal transfer protein TrbD	virb4
C1X11_RS21800 (C1X11_21805)	34929..35180	+	252	WP_001038331	conjugal transfer protein TrbG	-
C1X11_RS21805 (C1X11_21810)	35177..35692	+	516	WP_000809885	type IV conjugative transfer system lipoprotein TraV	traV
C1X11_RS21810 (C1X11_21815)	35827..36048	+	222	WP_001278686	conjugal transfer protein TraR	-
C1X11_RS21815 (C1X11_21820)	36208..38835	+	2628	WP_001064265	type IV secretion system protein TraC	virb4
C1X11_RS21820 (C1X11_21825)	38832..39218	+	387	WP_000099693	type-F conjugative transfer system protein TrbI	-
C1X11_RS21825 (C1X11_21830)	39215..39847	+	633	WP_001203750	type-F conjugative transfer system protein TraW	traW
C1X11_RS21830 (C1X11_21835)	39844..40836	+	993	WP_000830835	conjugal transfer pilus assembly protein TraU	traU
C1X11_RS21835 (C1X11_21840)	40845..41483	+	639	WP_000777690	type-F conjugative transfer system pilin assembly protein TrbC	trbC
C1X11_RS21840 (C1X11_21845)	41480..43288	+	1809	WP_000821840	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
C1X11_RS21845 (C1X11_21850)	43315..43572	+	258	WP_000864318	conjugal transfer protein TrbE	-
C1X11_RS21850 (C1X11_21855)	43565..44308	+	744	WP_001030378	type-F conjugative transfer system pilin assembly protein TraF	traF
C1X11_RS21855 (C1X11_21860)	44324..44671	+	348	WP_001287910	conjugal transfer protein TrbA	-
C1X11_RS21860 (C1X11_21865)	44673..44987	-	315	WP_000415566	protein ArtA	-
C1X11_RS21865 (C1X11_21870)	45068..45352	+	285	WP_000624109	type-F conjugative transfer system pilin chaperone TraQ	-
C1X11_RS21870 (C1X11_21875)	45339..45884	+	546	WP_000059851	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
C1X11_RS21875 (C1X11_21880)	45814..46155	+	342	WP_001443031	P-type conjugative transfer protein TrbJ	-
C1X11_RS21880 (C1X11_21885)	46142..46522	+	381	WP_001366201	F-type conjugal transfer protein TrbF	-
C1X11_RS21885 (C1X11_21890)	46522..47895	+	1374	WP_001517790	conjugal transfer pilus assembly protein TraH	traH
C1X11_RS21890 (C1X11_21895)	47892..50714	+	2823	WP_001007016	conjugal transfer mating-pair stabilization protein TraG	traG
C1X11_RS21895 (C1X11_21900)	50730..51227	+	498	WP_000605859	entry exclusion protein	-
C1X11_RS21900 (C1X11_21905)	51259..51990	+	732	WP_023565183	conjugal transfer complement resistance protein TraT	-
C1X11_RS21905 (C1X11_21910)	52243..54396	+	2154	WP_000009324	type IV conjugative transfer system coupling protein TraD	virb4
C1X11_RS21910 (C1X11_21915)	54405..54803	-	399	WP_000911313	type II toxin-antitoxin system VapC family toxin	-
C1X11_RS21915 (C1X11_21920)	54803..55030	-	228	WP_000450520	toxin-antitoxin system antitoxin VapB	-

Host bacterium

• ID: 3120
• GenBank: NZ_POTA01000023
• Plasmid name: 700415|unnamed1
• Incompatibility group: IncFIA
• Plasmid size: 74832 bp
• Coordinate of oriT [Strand]: 28509..28860 [+]
• Host baterium: Escherichia coli strain 700415

Cargo genes

• Drug resistance gene: sul2
• Virulence gene: -
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -