Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 100978
• Name: oriT_pSA20060086-2
• Organism: Salmonella enterica subsp. enterica serovar Onderstepoort str. SA20060086
• Sequence Completeness: intact
• NCBI accession of oriT (coordinates [strand]): NZ_CP022035 (113259..113618 [+], 360 nt)
• oriT length: 360 nt
• IRs (inverted repeats): 280..287, 289..296 (GCAAGATT..AATCTTGC)
• Location of nic site: 305..306
• Conserved sequence flanking the nic site: GACGGGTGT|GG
• Note: predicted by the oriTfinder

oriT sequence

• Length: 360 nt

>oriT_pSA20060086-2
GATTATCAAGAGTCACATGTGAATCGGCCATTTATTTTATTAGAGTCAACATGGATTCACCAACTTCATACAGGCGAATCTGTTATACCGAAATTAAGGATTCGAATCCAGATTCGAATCCTTAATTTTGTCTTAATTTAGTGGTCTGATTCGTAGATGAATCTGGATTCAACTCCTTTACGATTCACTGAAGATTTGCATGTGAATCTAGTATCTATATCGAACATAGAATAACGATAAAAATATTAACATAACATACTGATATAAAAGGATAATCATGCAAGATTAAATCTTGCGACGGGTGTGGGACTTTGATGTTAAGGAGCAGGCATACAGAAATATGCCAGCCAGGAAGAATTC

oriT secondary structure

Predicted by RNAfold.

Relaxase

TraI_pSA20060086-2

• ID: 1048
• GenBank: WP_015062632
• Name: TraI_pSA20060086-2
• UniProt ID: _
• Length: 1767 a.a.
• Note: putative relaxase

Relaxase protein sequence

• Length: 1767 a.a.
• Molecular weight: 193737.36 Da
• Isoelectric Point: 5.0822

>WP_015062632.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Salmonella]
MLSISSIKGDAGYYSHEDNYYASGSLDSRWMGEGAEKLGLKGEVASADMDAVRQGRLPDGSDLSRMVDGV
NKHRSGYDLTFSAPKSVSVMALVGEDRRFIEAHNRAVAVVMQEVEQLVSARITQEGKTETVLTGSMVAAL
YNHDTSRDLDPQVHTHALVFNATFADDKWRSLASDTRMKTGFSENLYATKIALGNLYRAALREDIESMGF
ETVAAGKHGLWELKDVPVDIFSSRSQSIRKAAGPDASAKSRDIAALDTRQAKAWADPELLKADWRRRLTD
EKFDIDNYISQAQTRAEPPGPVVGGTEGIRSTGQPASASSAQISELDVQKAVSDTISALSDKKVQFSWSE
MLAGTVSRLPSAPGLFVQARAAIEASIEGQRLIPLDREKGIFTSDIHLLNELSVHQLARTAIQEQTVLVF
PERAQERDIPAGDAVSVLSQDKSPVAILSGRGGAQTLRERTEDVAMMARSQGREVMVIAADGRSGQFLSE
SPHLAGHVMLRSQMNADTLLPVQGTVIVDRAERLSLKETVLLQEKALSAGAQLIFMDTENRQGTGNALSV
LKEADIPQYRFYSTQLPEVRLVSEADKRSRYSQLAQDYVRLSAEGRDVVAQVTGAREQQQLTEVIRDTRR
EAGELGREQVTLRVLEPVWLDSKTRHQRDNYRPGMVMEQWDAEKKTMTRHTIDRVAEATNSLVLLGEDGT
RLTMKVTQLDGSWSLYRSRTLEVSEGDRVRALGRELKGAIKAKEQFTVAGLENGAVRLRSGDRELRLPTE
RAVKLTHDYVEGTGAGTSASRTVLAAVGPRGLNKQALNALAQSGSDIRIYTPREGRQAARKVESVSAVRL
ASDQVRQLTGEANLDTAIQASRERLMSDAEQAVNLAIPRAQQGQVYLSELTLLAEAVKSGQPLADVRTEI
ARQVDSGALIKLDSVAGAGNRVLVPRVAYEMEKTIIRHIAEGKDAVQPLMALTPASVLSGLTAGQREATR
TVLENTDRFMAIQGYAGVGKTTQFRAVMGALNTLSESVRPQVIGLGPTHRAVHEMREAGVEARTLASFLS
ETRQAIQAGETPDFRNVLFLTDESSMVGNRDMAELYQLVAAGGGRMVSSGDTAQLQAVSTGQPFRLVQQR
SAIDTVVMQEIVRQTPALRPAIESIIAGQVEISLRQVDDVTPQQVPRQPGAWVPDNSVMEIRAPKKEQDQ
VQDTPVAGEQTLTPEQLALVRTDIIEAIRDDWMGRTSEAQQQTLVVAELNADRHAINAAIHAARHEKGDT
GAEERTFTVLEPLRVPDNALRAAETFAEYTGAVAMMNERYWTVAEVDTQDAVVTLRNADGESVLISPQQN
TAQDISLFTPRELTISQGDRVRFTRSDTDRGYVANSLWEVAGFTDGGAIRFRQGEQEKIVDPQAMTEDRH
IDLAYALTVYGVQGASERFAIALTGTEGGRKRMASLESTYVTLSRAKEHVQVYTDNLEDWQQQVRQSDGG
KTAHDLLHEKSDRESDTGNRLLATALRLDKTALGRRVLAENGLEGETMARFIAAGKKYPSPYVALPAWTR
HGKAAGALLTEIRIEDDGMRVMLSDESRLRGGDDAQFAGLQASRNGQTLIADDAQTALRLAQENPESGVV
IRLHGEERLLNAARLTGGRITEPDEVERTVRSVAEAESAAKTEDPITLPPDEQQKLAEAQEKAARELAEQ
ARQELLPEMPGEESSRPEPLLSADEERRLRDGTARGERELDEAIQEAVADGRGIRQQVREQMLRTEREWV
VNVPEKDIELEKTLGGD

Protein domains

Predicted by InterproScan.

• single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N) (586-638)

• DNA helicase TraI (TraI_C) (1441-1558)

• DNA relaxase TraI 2B/2B-like domain (TraI_2B) (644-723)

• TrwC relaxase (TrwC) (12-279)

• AAA domain (AAA_30) (971-1155)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 112728..132900

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LFZ35_RS26800	108809..108959	+	151	Protein_123	hypothetical protein	-
LFZ35_RS25215 (LFZ35_25200)	109611..110015	+	405	WP_015062655	hypothetical protein	-
LFZ35_RS25220 (LFZ35_25205)	110072..110419	+	348	WP_000550116	hypothetical protein	-
LFZ35_RS25225 (LFZ35_25210)	110514..110660	+	147	WP_001159046	hypothetical protein	-
LFZ35_RS25230 (LFZ35_25215)	110707..111540	+	834	WP_015062654	N-6 DNA methylase	-
LFZ35_RS25240 (LFZ35_25225)	112131..112717	+	587	Protein_128	antirestriction protein	-
LFZ35_RS25245 (LFZ35_25230)	112728..113183	-	456	WP_015062652	transglycosylase SLT domain-containing protein	virB1
LFZ35_RS25250 (LFZ35_25235)	113652..114035	+	384	WP_015062650	conjugal transfer relaxosome DNA-binding protein TraM	-
LFZ35_RS25255 (LFZ35_25240)	114332..114781	+	450	WP_015062649	helix-turn-helix domain-containing protein	-
LFZ35_RS25260 (LFZ35_25245)	114987..115220	+	234	WP_000662610	TraY domain-containing protein	-
LFZ35_RS25265 (LFZ35_25250)	115337..115696	+	360	WP_001054221	type IV conjugative transfer system pilin TraA	-
LFZ35_RS25270 (LFZ35_25255)	115698..116003	+	306	WP_000398849	type IV conjugative transfer system protein TraL	traL
LFZ35_RS25275 (LFZ35_25260)	116023..116586	+	564	WP_015062648	type IV conjugative transfer system protein TraE	traE
LFZ35_RS25280 (LFZ35_25265)	116576..117316	+	741	WP_015062647	type-F conjugative transfer system secretin TraK	traK
LFZ35_RS25285 (LFZ35_25270)	117303..118664	+	1362	WP_000024509	F-type conjugal transfer pilus assembly protein TraB	traB
LFZ35_RS25290 (LFZ35_25275)	118776..119000	+	225	WP_008455352	TraR/DksA C4-type zinc finger protein	-
LFZ35_RS25295 (LFZ35_25280)	119111..119725	+	615	WP_015062646	type IV conjugative transfer system lipoprotein TraV	traV
LFZ35_RS25300 (LFZ35_25285)	119736..122327	+	2592	WP_015062645	type IV secretion system protein TraC	virb4
LFZ35_RS25305 (LFZ35_25290)	122324..122788	+	465	WP_015062644	type-F conjugative transfer system protein TrbI	-
LFZ35_RS25310 (LFZ35_25295)	122788..123423	+	636	WP_015062643	type-F conjugative transfer system protein TraW	traW
LFZ35_RS25315 (LFZ35_25300)	123420..124415	+	996	WP_015062642	conjugal transfer pilus assembly protein TraU	traU
LFZ35_RS25320 (LFZ35_25305)	124426..124794	+	369	WP_015062641	hypothetical protein	-
LFZ35_RS25325 (LFZ35_25310)	124803..125405	+	603	WP_309301465	type-F conjugative transfer system pilin assembly protein TrbC	trbC
LFZ35_RS25330 (LFZ35_25315)	125402..127231	+	1830	WP_015062639	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
LFZ35_RS25335 (LFZ35_25320)	127228..128007	+	780	WP_015062638	type-F conjugative transfer system pilin assembly protein TraF	traF
LFZ35_RS25340 (LFZ35_25325)	128029..128640	+	612	WP_015062637	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
LFZ35_RS25345 (LFZ35_25330)	128640..130001	+	1362	WP_015062636	conjugal transfer pilus assembly protein TraH	traH
LFZ35_RS25350 (LFZ35_25335)	130003..132900	+	2898	WP_015062635	conjugal transfer mating-pair stabilization protein TraG	traG
LFZ35_RS25355 (LFZ35_25340)	132912..133472	+	561	WP_088546707	protein traS	-
LFZ35_RS25360 (LFZ35_25345)	133650..134387	+	738	WP_088546708	conjugal transfer complement resistance protein TraT	-

Host bacterium

• ID: 1436
• GenBank: NZ_CP022035
• Plasmid name: pSA20060086-2
• Incompatibility group: IncFII
• Plasmid size: 136771 bp
• Coordinate of oriT [Strand]: 113259..113618 [+]
• Host baterium: Salmonella enterica subsp. enterica serovar Onderstepoort str. SA20060086

Cargo genes

• Drug resistance gene: -
• Virulence gene: -
• Metal resistance gene: resistance to copper and silver
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -