Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 107326
• Name: oriT_pE20-FIIA
• Organism: Klebsiella aerogenes strain E20
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_MG288681 (67400..67485 [-], 86 nt)
• oriT length: 86 nt
• IRs (inverted repeats): 61..68, 73..80 (TTGGTGGT..ACCACCAA) 27..34, 37..44 (GCAAAAAC..GTTTTTGC) 8..14, 20..26 (TGATTTA..TAAATCA)
• Location of nic site: 53..54
• Conserved sequence flanking the nic site: TGTGTGGTGC
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 86 nt

>oriT_pE20-FIIA
AATTACATGATTTAAAACGTAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTT

oriT secondary structure

Predicted by RNAfold.

Relaxase

traI_HTP76_RS00650_pE20-FIIA

• ID: 4880
• GenBank: WP_172691999
• Name: traI_HTP76_RS00650_pE20-FIIA
• UniProt ID: _
• Length: 1756 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1756 a.a.
• Molecular weight: 191811.46 Da
• Isoelectric Point: 5.8929

>WP_172691999.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
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_001354030_pE20-FIIA

• ID: 2252
• GenBank: WP_001354030
• Name: WP_001354030_pE20-FIIA
• UniProt ID: A0A734M5H3
• Length: 127 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

Auxiliary protein sequence

• Length: 127 a.a.
• Molecular weight: 14508.47 Da
• Isoelectric Point: 4.7116

>WP_001354030.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MARVILYISNDVYDKVNAIVEQRRQEGARDKDISVSGTASMLLELGLRVYEAQMERKESAFNQTEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDEE

Protein domains

Predicted by InterproScan.

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

Protein structure

• AlphaFold DB: A0A734M5H3

WP_000089263_pE20-FIIA

• ID: 2253
• GenBank: WP_000089263
• Name: WP_000089263_pE20-FIIA
• UniProt ID: A0A3U3XJL9
• Length: 75 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

Auxiliary protein sequence

• Length: 75 a.a.
• Molecular weight: 8541.74 Da
• Isoelectric Point: 8.6796

>WP_000089263.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Gammaproteobacteria]
MSRNIIRPAPGNKVLLVLDDATNHKLLGARERSGRTKTNEVLVRLRDHLNRFPDFYNLDAIKEGAEETDS
IIKDL

Protein domains

Predicted by InterproScan.

• TraY domain (TraY) (14-60)

Protein structure

• AlphaFold DB: A0A3U3XJL9

T4CP

traC_HTP76_RS00550_pE20-FIIA

• ID: 5072
• GenBank: WP_000069777
• Name: traC_HTP76_RS00550_pE20-FIIA
• UniProt ID: _
• Length: 876 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 876 a.a.
• Molecular weight: 99195.86 Da
• Isoelectric Point: 6.1126

>WP_000069777.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASIATQTVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGW
RLLDFKNRKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLYPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

Protein domains

Predicted by InterproScan.

• Family of unknown function (DUF5934) (DUF5934) (290-447)

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

• TraC protein (TraC_F_IV) (39-277)

Protein structure

No available structure.

traD_HTP76_RS00645_pE20-FIIA

• ID: 5073
• GenBank: WP_172691998
• Name: traD_HTP76_RS00645_pE20-FIIA
• UniProt ID: _
• Length: 780 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 780 a.a.
• Molecular weight: 88848.85 Da
• Isoelectric Point: 5.1059

>WP_172691998.1 type IV conjugative transfer system coupling protein TraD [Klebsiella aerogenes]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILIGLVLWVKISWQTFINGCIYWWCTSLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGDPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEDVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPEQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPVSSVINDKKSDA
GVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQHMQRREEVNINVHRER
GEDVEPGDDF

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: 66832..95056

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HTP76_RS00440	62804..63238	+	435	WP_000845953	conjugation system SOS inhibitor PsiB	-
HTP76_RS00445	63235..63954	+	720	WP_001276217	plasmid SOS inhibition protein A	-
HTP76_RS00725	64176..64325	+	150	Protein_87	plasmid maintenance protein Mok	-
HTP76_RS00450	64267..64392	+	126	WP_001372321	type I toxin-antitoxin system Hok family toxin	-
HTP76_RS00710	64711..65007	-	297	Protein_89	hypothetical protein	-
HTP76_RS00460	65307..65603	+	297	WP_001272251	hypothetical protein	-
HTP76_RS00465	65714..66535	+	822	WP_001234445	DUF932 domain-containing protein	-
HTP76_RS00470	66832..67422	-	591	WP_000252683	transglycosylase SLT domain-containing protein	virB1
HTP76_RS00475	67757..68140	+	384	WP_001354030	conjugal transfer relaxosome DNA-binding protein TraM	-
HTP76_RS00480	68334..69005	+	672	WP_000283561	conjugal transfer transcriptional regulator TraJ	-
HTP76_RS00485	69142..69369	+	228	WP_000089263	conjugal transfer relaxosome protein TraY	-
HTP76_RS00490	69402..69761	+	360	WP_001098992	type IV conjugative transfer system pilin TraA	-
HTP76_RS00495	69776..70087	+	312	WP_000012113	type IV conjugative transfer system protein TraL	traL
HTP76_RS00500	70109..70675	+	567	WP_000399780	type IV conjugative transfer system protein TraE	traE
HTP76_RS00505	70662..71390	+	729	WP_001230772	type-F conjugative transfer system secretin TraK	traK
HTP76_RS00510	71390..72841	+	1452	WP_000146675	F-type conjugal transfer pilus assembly protein TraB	traB
HTP76_RS00515	72831..73397	+	567	WP_000896599	conjugal transfer pilus-stabilizing protein TraP	-
HTP76_RS00520	73384..73704	+	321	WP_001057307	conjugal transfer protein TrbD	-
HTP76_RS00525	73701..74216	+	516	WP_000809881	type IV conjugative transfer system lipoprotein TraV	traV
HTP76_RS00530	74351..74572	+	222	WP_001278683	conjugal transfer protein TraR	-
HTP76_RS00535	74565..75041	+	477	WP_000549587	hypothetical protein	-
HTP76_RS00540	75121..75339	+	219	WP_000556745	hypothetical protein	-
HTP76_RS00545	75367..75714	+	348	WP_000836682	hypothetical protein	-
HTP76_RS00550	75840..78470	+	2631	WP_000069777	type IV secretion system protein TraC	virb4
HTP76_RS00555	78467..78853	+	387	WP_000214084	type-F conjugative transfer system protein TrbI	-
HTP76_RS00560	78850..79482	+	633	WP_001203728	type-F conjugative transfer system protein TraW	traW
HTP76_RS00565	79479..80471	+	993	WP_000830838	conjugal transfer pilus assembly protein TraU	traU
HTP76_RS00570	80501..80806	+	306	WP_000224416	hypothetical protein	-
HTP76_RS00575	80815..81453	+	639	WP_001080256	type-F conjugative transfer system pilin assembly protein TrbC	trbC
HTP76_RS00580	81450..83300	+	1851	WP_000821856	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
HTP76_RS00585	83327..83584	+	258	WP_000864353	conjugal transfer protein TrbE	-
HTP76_RS00590	83571..84320	+	750	WP_001336806	type-F conjugative transfer system pilin assembly protein TraF	traF
HTP76_RS00595	84334..84678	+	345	WP_000556796	conjugal transfer protein TrbA	-
HTP76_RS00600	84797..85081	+	285	WP_000624194	type-F conjugative transfer system pilin chaperone TraQ	-
HTP76_RS00605	85068..85613	+	546	WP_000059831	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
HTP76_RS00610	85543..85890	+	348	WP_001309242	P-type conjugative transfer protein TrbJ	-
HTP76_RS00615	85871..86263	+	393	WP_000660699	F-type conjugal transfer protein TrbF	-
HTP76_RS00620	86241..87623	+	1383	WP_001309243	conjugal transfer pilus assembly protein TraH	traH
HTP76_RS00625	87620..90442	+	2823	WP_001007039	conjugal transfer mating-pair stabilization protein TraG	traG
HTP76_RS00630	90458..90943	+	486	WP_000605870	hypothetical protein	-
HTP76_RS00635	90992..91723	+	732	WP_000782451	conjugal transfer complement resistance protein TraT	-
HTP76_RS00640	91926..92663	+	738	WP_000199905	hypothetical protein	-
HTP76_RS00645	92714..95056	+	2343	WP_172691998	type IV conjugative transfer system coupling protein TraD	prgC

Host bacterium

• ID: 7762
• GenBank: NZ_MG288681
• Plasmid name: pE20-FIIA
• Incompatibility group: -
• Plasmid size: 105912 bp
• Coordinate of oriT [Strand]: 67400..67485 [-]
• Host baterium: Klebsiella aerogenes strain E20

Cargo genes

• Drug resistance gene: blaTEM-1B, dfrA25, qacE, sul1, mph(A), blaKPC-2
• Virulence gene: -
• Metal resistance gene: merE, merD, merA, merP, merT, merR
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -