Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 104022
• Name: oriT_pIncH1
• Organism: Salmonella enterica subsp. enterica serovar Derby strain 19CS0402
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_CP068510 (177396..177680 [+], 285 nt)
• oriT length: 285 nt
• IRs (inverted repeats): 184..189, 191..196 (AAAAGT..ACTTTT)
• Location of nic site: 109..110
• Conserved sequence flanking the nic site: TTTGGTTAAA
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 285 nt

>oriT_pIncH1
GGTTATTGCTACTTAATGCCGATAACGACTCAGGCTTTGAGGTTTTTTTATACGGTTCACATTTCGTTAGCAAGGCCAGGGTTTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGGGTAATGGCTGAAAGGTTAGTTTTAAGGTTCAAAGCGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCCTTCAGAATCCAGACCTTAATTTCATGTAGAAGATTCGTACAATTGTATTGGCGCAAGGACAATCCGCACATGTCAGAATCAGAT

oriT secondary structure

Predicted by RNAfold.

Relaxase

mobH_JO783_RS00970_pIncH1

• ID: 2980
• GenBank: WP_038989148
• Name: mobH_JO783_RS00970_pIncH1
• UniProt ID: A0A7T0P871
• Length: 1011 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1011 a.a.
• Molecular weight: 113008.03 Da
• Isoelectric Point: 4.5108

>WP_038989148.1 MULTISPECIES: MobH family relaxase [Enterobacteriaceae]
MNFRALFLSMQRVFGIFSRRENDVSELMMKDAANFSPFAQIIGEQKYTVPDHPNPEVLKFIEYPTRPAGI
QTFNEQSILSLYRDKLHSISMMLAISDGDIREDAYTFTNLVLKPLIEYIRWIHLLPASENHHHNGIGGLL
SHSLEVAMISLKNANHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLSETLTWAPS
SQSLLDWARENNVVEYEIHWRKRIHNQHNIWSSVFLERILDPVCMSFLDRVKKERVYAKMVTALNVYNDG
NDFLSKCVRTSDYYSTGTDLNVLRDPIMGLRSNDAAARAIGTIKHNFTSININNYKTKPMHIIIVNGEVY
LNENAFLDFVLSDFAAHKFNFPQGDAGKTVLVESLVLRGYVEPYDDERVVHYFIPGTYSENEIASIFRNG
IGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRESVTRVTDTVN
DAIENTPQYGLQLVNGPDADSNNIISSENTESITDSLEESGADISNEIFETQVVTAIDTAETVNADEPEQ
VEEHDDRSQIHLVEQLHEMLLSAPLPHHAVINIDSVPYLDLDAAIALIPGIDEAAFCNGPFFQLTYRDGS
LDGMWIVRDVNNLRLIQLGDNCAGMQVSTSEPRNTSSLKSLFDTSMYQPLDIPEAPSVNEAASPPQTPLE
LPQPRLNAPVAEEASSVAEQTNAHSEPDSVIATEYEQYGHLLEETLDSDGEAYSDLIASDSTEAEYPATD
PQSSDFAQLPRETALSVAPGDLDYSEGAIKPPAPDATGKETILTSPEPAEDVRETVAAVEKASHLSPALA
RLFAVSTHAEKKHEKTQEPSPVKEVKNPTSSTTVKAPISIEPPGAEEKEAVEEFTLLNDGEVTELEYVEI
ATMLHQILTKLSGSFKRKRKNRFMVLTQNTFYLTQSCIEKYGTQLNAPELFNQLPQYQVTSGAVVNTKCI
AFNIPTLVAASDRAKVDIELIINKLKEVGNL

Protein domains

Predicted by InterproScan.

• Putative helicase (TraI_2) (106-301)

Protein structure

• AlphaFold DB: A0A7T0P871

T4CP

traD_JO783_RS00965_pIncH1

• ID: 2840
• GenBank: WP_000167418
• Name: traD_JO783_RS00965_pIncH1
• UniProt ID: _
• Length: 694 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 694 a.a.
• Molecular weight: 77969.74 Da
• Isoelectric Point: 8.7275

>WP_000167418.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Enterobacterales]
MTKSKRTNLHAQENFYRPILEYRSASVLLICAVIMLVMGFRSDGVNIAPIILYTAVFLLLVCLYRCKTAH
PYLMAHWRVFQRQIMFISLKSLRTINKSNFFSNERKYRQLVQEYKKNNRPVPDRKTYFCNGFEWGPEHAD
RAYQIANLSSDKREIALPFVLSPIARHFETMARSMGGNNAIFAVDRRAPIFVTEDNWFGHTLITGNVGTG
KTVLQRLLSISMLHLGHVIVVIDPKNDAEWRQSLMDEASELGLPFYKFHPAQPSSSVCIDVCNAYTNVSD
LTSRLLSLVSVPGEVNPFVQYAEALVSTVITGLSYTDKKPSIYLIHKNMKSHMSVVNLTIKVMECCFARH
YGPDVWMEKVKYASNDTLQVRFKRLTEWFNAHFLNYEGAEPIEWIDTVGRLVDYSMSDPEHMSKMTAGIM
PLFSRLTEQPLNELLSPSPNTLTSREIVTSDGMFSTGGVLYISLDGLSNPESARAISQLIMSDLTSCAGS
RYNADDGDMSSHSRISIFVDEAHSAINNSMINLLAQGRAAQIALFICTQTISDFIAAANAETANRITGLC
NNYISLRVNDTPTQTLVVENFGKSPISTNMVTYTTGSETTLPHNNFSGSISERKQTTLEESIPKELLGQV
PKFHIVARLQDGRKVVGQIPIAVSEKAMKPNTTLLEMFLKPAGKVTLRQNVGLSYLNKYLRKLH

Protein domains

Predicted by InterproScan.

• AAA-like domain (AAA_10) (199-245)

• Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind) (410-638)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 107415..116583

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
JO783_RS00545	102869..104122	-	1254	WP_001048869	ParA family protein	-
JO783_RS01350	104612..104746	+	135	WP_257792904	hypothetical protein	-
JO783_RS01355	104768..104902	+	135	WP_257792903	hypothetical protein	-
JO783_RS00550	104872..105135	+	264	WP_061104262	hypothetical protein	-
JO783_RS00555	105144..105326	-	183	WP_071925124	hypothetical protein	-
JO783_RS00560	105456..105650	+	195	WP_181365406	hypothetical protein	-
JO783_RS00565	106315..106743	-	429	WP_124061973	hypothetical protein	-
JO783_RS00570	107415..110096	-	2682	WP_001255540	IncHI-type conjugal transfer ATPase TrhC	virb4
JO783_RS00575	110105..111055	-	951	WP_001022266	TraV family lipoprotein	traV
JO783_RS00580	111065..111817	-	753	WP_010892304	protein-disulfide isomerase HtdT	-
JO783_RS00585	111923..112435	-	513	WP_000429933	hypothetical protein	-
JO783_RS00590	112444..113802	-	1359	WP_000351840	IncHI-type conjugal transfer protein TrhB	traB
JO783_RS00595	113792..114232	-	441	WP_001224093	plasmid transfer protein HtdO	-
JO783_RS00600	114234..115466	-	1233	WP_000202110	type-F conjugative transfer system secretin TraK	traK
JO783_RS00605	115469..116266	-	798	WP_011011069	TraE/TraK family type IV conjugative transfer system protein	traE
JO783_RS00610	116266..116583	-	318	WP_000203871	type IV conjugative transfer system protein TraL	traL
JO783_RS00615	116635..116988	-	354	WP_038988950	hypothetical protein	-
JO783_RS00620	117593..117886	-	294	WP_001447606	hypothetical protein	-
JO783_RS00625	118342..119217	-	876	WP_001282731	RepB family plasmid replication initiator protein	-
JO783_RS00630	119752..120828	+	1077	WP_001015069	hypothetical protein	-
JO783_RS00635	120846..121046	+	201	WP_000357613	hypothetical protein	-

Host bacterium

• ID: 4462
• GenBank: NZ_CP068510
• Plasmid name: pIncH1
• Incompatibility group: IncHI1A
• Plasmid size: 244075 bp
• Coordinate of oriT [Strand]: 177396..177680 [+]
• Host baterium: Salmonella enterica subsp. enterica serovar Derby strain 19CS0402

Cargo genes

• Drug resistance gene: tet(M), sul2, floR, dfrA12, aadA2, cmlA1, ant(3'')-Ia, sul3, blaTEM-1B, qnrS1
• Virulence gene: -
• Metal resistance gene: pcoC, silA, silF, silC, silR, silS, silE
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -