Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 103054
• Name: oriT_pIMP-SZ1515
• Organism: Escherichia coli strain CRE1515
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_KT989376 (13779..13879 [-], 101 nt)
• oriT length: 101 nt
• IRs (inverted repeats): 80..85, 91..96 (AAAAAA..TTTTTT) 20..26, 38..44 (TAAATCA..TGATTTA)
• Location of nic site: 62..63
• Conserved sequence flanking the nic site: GGTGTATAGC
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 101 nt

>oriT_pIMP-SZ1515
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

oriT secondary structure

Predicted by RNAfold.

Relaxase

TrwC_HTG62_RS00110_pIMP-SZ1515

• ID: 2285
• GenBank: WP_012561166
• Name: TrwC_HTG62_RS00110_pIMP-SZ1515
• UniProt ID: D7RU03
• Length: 1078 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1078 a.a.
• Molecular weight: 120141.30 Da
• Isoelectric Point: 6.5229

>WP_012561166.1 MULTISPECIES: MobF family relaxase [Gammaproteobacteria]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATMADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKNEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

Protein domains

Predicted by InterproScan.

• UvrD-like helicase C-terminal domain (UvrD_C_2) (851-895)

• TrwC relaxase (TrwC) (16-287)

• AAA domain (AAA_30) (477-653)

Protein structure

• AlphaFold DB: D7RU03

Auxiliary protein

WP_001749975_pIMP-SZ1515

• ID: 945
• GenBank: WP_001749975
• Name: WP_001749975_pIMP-SZ1515
• UniProt ID: A0A5C2CVS6
• Length: 138 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

Auxiliary protein sequence

• Length: 138 a.a.
• Molecular weight: 15332.60 Da
• Isoelectric Point: 5.9670

>WP_001749975.1 MULTISPECIES: hypothetical protein [Gammaproteobacteria]
MPIITAKVSDELLAYIDLVSGGNRSDYLRRCIEAGPGDRESGLKIVADRLSDVNRKLDYLFDRASDADFG
PLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIAEPGKTKAAKAEVERNGYKVWEPKKER

Protein domains

No domain identified.

Protein structure

• AlphaFold DB: A0A5C2CVS6

T4CP

t4cp2_HTG62_RS00105_pIMP-SZ1515

• ID: 1989
• GenBank: WP_000342688
• Name: t4cp2_HTG62_RS00105_pIMP-SZ1515
• UniProt ID: _
• Length: 509 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 509 a.a.
• Molecular weight: 57762.87 Da
• Isoelectric Point: 9.6551

>WP_000342688.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVRARTLADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
TIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNAYDKRTEGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVIHWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESR
INVFIDELESLQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD
ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
KHVKYHRKNPVPGIELREI

Protein domains

Predicted by InterproScan.

• Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind) (113-489)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 30723..41048

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HTG62_RS00165	26423..26602	-	180	Protein_32	helix-turn-helix domain-containing protein	-
HTG62_RS00170	27012..27557	+	546	WP_001493763	plasmid pRiA4b ORF-3 family protein	-
HTG62_RS00175	27694..28266	+	573	WP_001493762	recombinase family protein	-
HTG62_RS00180	28303..29694	+	1392	WP_014839878	ISKra4-like element ISKpn19 family transposase	-
HTG62_RS00370	29729..30016	+	288	Protein_36	DUF6710 family protein	-
HTG62_RS00190	30190..30723	-	534	WP_000792636	phospholipase D family protein	-
HTG62_RS00195	30723..31718	-	996	WP_000128596	ATPase, T2SS/T4P/T4SS family	virB11
HTG62_RS00200	31760..32920	-	1161	WP_000101710	type IV secretion system protein VirB10	virB10
HTG62_RS00205	32920..33804	-	885	WP_000735066	TrbG/VirB9 family P-type conjugative transfer protein	virB9
HTG62_RS00210	33815..34513	-	699	WP_000646594	type IV secretion system protein	virB8
HTG62_RS00215	34503..34661	-	159	WP_012561180	hypothetical protein	-
HTG62_RS00220	34732..35772	-	1041	WP_001749958	type IV secretion system protein	virB6
HTG62_RS00225	35788..36015	-	228	WP_001749959	IncN-type entry exclusion lipoprotein EexN	-
HTG62_RS00230	36023..36787	-	765	WP_013149461	type IV secretion system protein	virB5
HTG62_RS00235	36754..39354	-	2601	WP_001749961	VirB4 family type IV secretion/conjugal transfer ATPase	virb4
HTG62_RS00240	39354..39671	-	318	WP_000496058	VirB3 family type IV secretion system protein	virB3
HTG62_RS00245	39721..40014	-	294	WP_001749962	hypothetical protein	virB2
HTG62_RS00250	40024..40305	-	282	WP_000440698	transcriptional repressor KorA	-
HTG62_RS00255	40314..41048	-	735	WP_001749963	lytic transglycosylase domain-containing protein	virB1
HTG62_RS00260	41091..41462	+	372	WP_011867773	H-NS family nucleoid-associated regulatory protein	-
HTG62_RS00265	41478..41822	+	345	WP_001749964	hypothetical protein	-
HTG62_RS00270	41819..42133	+	315	WP_001749965	TrbM/KikA/MpfK family conjugal transfer protein	-
HTG62_RS00275	42247..42480	+	234	WP_001191790	hypothetical protein	-
HTG62_RS00280	42530..43177	+	648	WP_015344958	restriction endonuclease	-
HTG62_RS00285	43182..43388	+	207	WP_001749967	hypothetical protein	-
HTG62_RS00290	43399..43671	-	273	Protein_57	IS1 family transposase	-
HTG62_RS00295	43770..45203	+	1434	WP_001288432	DNA cytosine methyltransferase	-

Host bacterium

• ID: 3497
• GenBank: NZ_KT989376
• Plasmid name: pIMP-SZ1515
• Incompatibility group: IncN
• Plasmid size: 54449 bp
• Coordinate of oriT [Strand]: 13779..13879 [-]
• Host baterium: Escherichia coli strain CRE1515

Cargo genes

• Drug resistance gene: qnrS1, blaIMP-4
• Virulence gene: -
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -