Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 102930
• Name: oriT_p13P484A-2
• Organism: Escherichia coli strain 13P484A
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_CP019282 (113923..114274 [+], 352 nt)
• oriT length: 352 nt
• IRs (inverted repeats): 255..262, 271..278 (ACCGCTAG..CTAGCGGT) 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_p13P484A-2
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGAGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

oriT secondary structure

Predicted by RNAfold.

Relaxase

traI_BWI90_RS26015_p13P484A-2

• ID: 2200
• GenBank: WP_000986962
• Name: traI_BWI90_RS26015_p13P484A-2
• UniProt ID: A0A0K2B7B9
• Length: 1756 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1756 a.a.
• Molecular weight: 192018.92 Da
• Isoelectric Point: 5.8722

>WP_000986962.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQDETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKTGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLLQRSGETPNFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQIRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVVAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPRTITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
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)

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

• TrwC relaxase (TrwC) (10-283)

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

Protein structure

No available structure.

Auxiliary protein

WP_001151524_p13P484A-2

• ID: 900
• GenBank: WP_001151524
• Name: WP_001151524_p13P484A-2
• UniProt ID: A0A5W2DT22
• Length: 127 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

Auxiliary protein sequence

• Length: 127 a.a.
• Molecular weight: 14517.48 Da
• Isoelectric Point: 5.0516

>WP_001151524.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVHEAQMERKESAFNQTEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDDE

Protein domains

Predicted by InterproScan.

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

Protein structure

• AlphaFold DB: A0A5W2DT22

WP_001369361_p13P484A-2

• ID: 901
• GenBank: WP_001369361
• Name: WP_001369361_p13P484A-2
• UniProt ID: B7LI64
• Length: 133 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

Auxiliary protein sequence

• Length: 133 a.a.
• Molecular weight: 15409.70 Da
• Isoelectric Point: 9.9240

>WP_001369361.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Gammaproteobacteria]
MLLKRFGTRSATGKMVKLKLPVDVESLLIEASNRSGRSRSFEAVIRLKDHLHRYPKFNRAGNIYGKSLVK
YLTMRLDDETNQLLIAAKNRSGWCKTDEAADRVIDHLIKFPDFYNSEIFREADKEEDITFNTL

Protein domains

Predicted by InterproScan.

• TraY domain (TraY) (18-61)

• TraY domain (TraY) (72-119)

Protein structure

• AlphaFold DB: B7LI64

T4CP

traC_BWI90_RS25910_p13P484A-2

• ID: 1877
• GenBank: WP_001064245
• Name: traC_BWI90_RS25910_p13P484A-2
• UniProt ID: _
• Length: 875 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• 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.

traD_BWI90_RS26000_p13P484A-2

• ID: 1878
• GenBank: WP_000009324
• Name: traD_BWI90_RS26000_p13P484A-2
• 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: 113352..139725

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
BWI90_RS25795 (BWI90_25745)	108807..109040	+	234	WP_000005987	DUF905 family protein	-
BWI90_RS25800 (BWI90_25750)	109068..109265	+	198	Protein_115	hypothetical protein	-
BWI90_RS25805 (BWI90_25755)	109320..109754	+	435	WP_000845936	conjugation system SOS inhibitor PsiB	-
BWI90_RS25810 (BWI90_25760)	109751..110513	+	763	Protein_117	plasmid SOS inhibition protein A	-
BWI90_RS27730	110482..110670	-	189	WP_001299721	hypothetical protein	-
BWI90_RS28470	110692..110841	+	150	Protein_119	plasmid maintenance protein Mok	-
BWI90_RS25815 (BWI90_25765)	110783..110908	+	126	WP_001372321	type I toxin-antitoxin system Hok family toxin	-
BWI90_RS28475	111128..111358	+	231	WP_071586998	hypothetical protein	-
BWI90_RS28480	111356..111528	-	173	Protein_122	hypothetical protein	-
BWI90_RS28485	111598..111804	+	207	WP_000547968	hypothetical protein	-
BWI90_RS25830 (BWI90_25775)	111829..112116	+	288	WP_000107535	hypothetical protein	-
BWI90_RS25835 (BWI90_25780)	112234..113055	+	822	Protein_125	DUF932 domain-containing protein	-
BWI90_RS25840 (BWI90_25785)	113352..113942	-	591	WP_001376243	transglycosylase SLT domain-containing protein	-
BWI90_RS25845 (BWI90_25790)	114275..114658	+	384	WP_001151524	conjugal transfer relaxosome DNA-binding protein TraM	-
BWI90_RS25850 (BWI90_25795)	114845..115534	+	690	WP_000283385	conjugal transfer transcriptional regulator TraJ	-
BWI90_RS25855 (BWI90_25800)	115633..116028	+	396	WP_001309237	conjugal transfer relaxosome DNA-bindin protein TraY	-
BWI90_RS25860 (BWI90_25805)	116061..116426	+	366	WP_000994779	type IV conjugative transfer system pilin TraA	-
BWI90_RS25865 (BWI90_25810)	116441..116752	+	312	WP_000012106	type IV conjugative transfer system protein TraL	traL
BWI90_RS25870 (BWI90_25815)	116774..117340	+	567	WP_000399792	type IV conjugative transfer system protein TraE	traE
BWI90_RS25875 (BWI90_25820)	117327..118055	+	729	WP_001230787	type-F conjugative transfer system secretin TraK	traK
BWI90_RS25880 (BWI90_25825)	118055..119482	+	1428	WP_000146685	F-type conjugal transfer pilus assembly protein TraB	traB
BWI90_RS25885 (BWI90_25830)	119472..120062	+	591	WP_001376242	conjugal transfer pilus-stabilizing protein TraP	-
BWI90_RS25890 (BWI90_25835)	120049..120246	+	198	WP_001324648	conjugal transfer protein TrbD	-
BWI90_RS25895 (BWI90_25840)	120258..120509	+	252	WP_001038342	conjugal transfer protein TrbG	-
BWI90_RS25900 (BWI90_25845)	120506..121021	+	516	WP_000809838	type IV conjugative transfer system lipoprotein TraV	traV
BWI90_RS25905 (BWI90_25850)	121156..121377	+	222	WP_001278689	conjugal transfer protein TraR	-
BWI90_RS25910 (BWI90_25855)	121537..124164	+	2628	WP_001064245	type IV secretion system protein TraC	virb4
BWI90_RS25915 (BWI90_25860)	124161..124547	+	387	WP_000099686	type-F conjugative transfer system protein TrbI	-
BWI90_RS25920 (BWI90_25865)	124544..125176	+	633	WP_001203720	type-F conjugative transfer system protein TraW	traW
BWI90_RS25925 (BWI90_25870)	125173..126165	+	993	WP_000830183	conjugal transfer pilus assembly protein TraU	traU
BWI90_RS25930 (BWI90_25875)	126174..126812	+	639	WP_000777700	type-F conjugative transfer system pilin assembly protein TrbC	trbC
BWI90_RS25935 (BWI90_25880)	126809..128617	+	1809	WP_000821841	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
BWI90_RS25940 (BWI90_25885)	128644..128901	+	258	WP_000864318	conjugal transfer protein TrbE	-
BWI90_RS25945 (BWI90_25890)	128894..129637	+	744	WP_001030393	type-F conjugative transfer system pilin assembly protein TraF	traF
BWI90_RS25950 (BWI90_25895)	129653..130000	+	348	WP_001287910	conjugal transfer protein TrbA	-
BWI90_RS25955 (BWI90_25900)	130002..130316	-	315	WP_001324103	hypothetical protein	-
BWI90_RS25960 (BWI90_25905)	130397..130681	+	285	WP_000624109	type-F conjugative transfer system pilin chaperone TraQ	-
BWI90_RS25965 (BWI90_25910)	130668..131213	+	546	WP_000059851	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
BWI90_RS25970 (BWI90_25915)	131143..131484	+	342	WP_001443031	P-type conjugative transfer protein TrbJ	-
BWI90_RS25975 (BWI90_25920)	131471..131851	+	381	WP_001389370	F-type conjugal transfer protein TrbF	-
BWI90_RS25980 (BWI90_25925)	131851..133224	+	1374	WP_001517790	conjugal transfer pilus assembly protein TraH	traH
BWI90_RS25985 (BWI90_25930)	133221..136043	+	2823	WP_001007018	conjugal transfer mating-pair stabilization protein TraG	traG
BWI90_RS25990 (BWI90_25935)	136059..136556	+	498	WP_000605857	entry exclusion protein	-
BWI90_RS25995 (BWI90_25940)	136588..137319	+	732	WP_023565183	conjugal transfer complement resistance protein TraT	-
BWI90_RS26000 (BWI90_25945)	137572..139725	+	2154	WP_000009324	type IV conjugative transfer system coupling protein TraD	virb4
BWI90_RS26005 (BWI90_25950)	139734..140132	-	399	WP_000911313	type II toxin-antitoxin system VapC family toxin	-
BWI90_RS26010 (BWI90_25955)	140132..140359	-	228	WP_000450520	toxin-antitoxin system antitoxin VapB	-

Host bacterium

• ID: 3373
• GenBank: NZ_CP019282
• Plasmid name: p13P484A-2
• Incompatibility group: IncFIC
• Plasmid size: 149520 bp
• Coordinate of oriT [Strand]: 113923..114274 [+]
• Host baterium: Escherichia coli strain 13P484A

Cargo genes

• Drug resistance gene: blaTEM-1B, blaCTX-M-15, fosA3, mph(A), qacE, aadA2, dfrA12, oqxB, oqxA, tet(A), sitABCD
• Virulence gene: iroN, iroE, iroD, iroC, iroB, iucA, iucB, iucC, iutA
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -