Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 100212
• Name: oriT_R27
• Organism: Salmonella enterica subsp. enterica serovar Typhi
• Sequence Completeness: intact
• NCBI accession of oriT (coordinates [strand]): NC_002305 (108637..108921 [+], 285 nt)
• oriT length: 285 nt
• IRs (inverted repeats): 189..194, 196..201 (AAAAGT..ACTTTT)
• Location of nic site: _
• Conserved sequence flanking the nic site: _
• Note: _

oriT sequence

• Length: 285 nt

>oriT_R27
GGTTATTGCTACTTAATGCCGATAACGACTCAGGCTTTGAGGTTTTTTTATACGGTTCACATTTCGTTAGCAAGGTCAGGGTTTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGGGTAATGGCTGAAAGGTTAGTTTTAAGGTTCAAAGCGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCCTTCAGAATCCAGACCTTAATTTCATGTAGAAGATTCGTACAATTGTATTGGCGCAAGGACAATCCGCACATGTCAGAATCAGAT

oriT secondary structure

Predicted by RNAfold.

Reference

[1] Lawley TD et al. (2002) Functional and mutational analysis of conjugative transfer region 1 (Tra1) from the IncHI1 plasmid R27. J Bacteriol. 184(8):2173-80. [PMID:11914349]

Relaxase

TraI_R27

• ID: 205
• GenBank: NP_058333
• Name: TraI_R27
• UniProt ID: Q9L5M2
• Length: 1011 a.a.
• Note: -

Relaxase protein sequence

• Length: 1011 a.a.
• Molecular weight: 113008.98 Da
• Isoelectric Point: 4.5096

>NP_058333.1 hypothetical protein R27_p120 (plasmid) [Salmonella enterica subsp. enterica serovar Typhi]
MNFRALFLSMQRVFGIFSRRENDVSELMMKDAANFSPFAQIIGEQKYTVPDHPNPEVLKFIEYPTRPAGI
QTFNEQSILSLYRDKLHSISMMLAISDGDIREDAYTFTNLVLKPLIEYIRWIHLLPASENHHHNGIGGLL
SHSLEVAMISLKNANHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLSETLTWAPS
SQSLLDWARENNVVEYEIHWRKRIHNQHNIWSSVFLERILDPVCMSFLDRVKKERVYAKMVTALNVYNDG
NDFLSKCVRTSDYYSTGTDLNVLRDPIMGLRSNDAAARAIGTIKHNFTSININNYKTKPMHIIIVNGEVY
LNENAFLDFVLSDFAAHKFNFPQGDAGKTVLVESLVQRGYVEPYDDERVVHYFIPGTYSENEIASIFRNG
IGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRESVTRVTDTVN
DAIENTPQYGLQLVNGPDADSNNIISSENTESITDSLEESGADISNEIFETQVVTAIDTAETVNADEPEQ
VEEHDDRSQIHLVEQLHEMLLSAPLPHHAVINIDSVPYLDLDAAIALIPGIDEAAFCNGPFFQLTYRDGS
LDGMWIVRDVNNLRLIQLGDNCAGMQVSTSEPRNTSSLKSLFDTSMYQPLDIPEAPSVNEAASPPQTPLE
LPQPRLNAPVAEEASSVAEQTNAHSEPDSVIATEYEQYGHLLEETLDSDGEAYSDLIASDSTEAEYPATD
PQSSDFAQLPRETALSVAPGDLDYSEGAIKPPAPDATGKETILTSPEPAEDVRETVAAVEKASHLSPALA
RLFAVSTHAEKKHEKTQEPSPVKEVKNPTSSTTVKAPISIEPPGAEEKEAVEEFTLLNDGEVTELEYVEI
ATMLHQILTKLSGSFKRKRKNRFMVLTQNTFYLTQSCIEKYGTQLNAPDLFNQLPQYQVTSGAVVNTKCI
AFNIPTLVAASDRAKVDIELIINKLKEVGNL

Protein domains

Predicted by InterproScan.

• Putative helicase (TraI_2) (106-301)

Protein structure

• AlphaFold DB: Q9L5M2

Reference

[1] Lawley TD et al. (2002) Functional and mutational analysis of conjugative transfer region 1 (Tra1) from the IncHI1 plasmid R27. J Bacteriol. 184(8):2173-80. [PMID:11914349]

T4CP

TraG_R27

• ID: 205
• GenBank: NP_058332
• Name: TraG_R27
• UniProt ID: Q9L5M3
• Length: 694 a.a.
• PDB ID: _
• Note: _

T4CP protein sequence

• Length: 694 a.a.
• Molecular weight: 77956.74 Da
• Isoelectric Point: 8.7275

>NP_058332.1 hypothetical protein R27_p119 (plasmid) [Salmonella enterica subsp. enterica serovar Typhi]
MTKSKRTNLHAQENFYRPILEYRSASVLLICAVIMLVMGFRSDGVNIAPIILYTAVFLLLVCLYRCKTAH
PYLMAHWRVFQRQIMFISLKSLRTINKSNFFSNERKYRQLVQEYKKTNRPVPDRKTYFCNGFEWGPEHAD
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

• AlphaFold DB: Q9L5M3

Reference

[1] Lawley TD et al. (2002) Functional and mutational analysis of conjugative transfer region 1 (Tra1) from the IncHI1 plasmid R27. J Bacteriol. 184(8):2173-80. [PMID:11914349]

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 28465..37633

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HKJ84_RS00105 (R27_p021)	24085..25338	-	1254	WP_001048869	ParA family protein	-
HKJ84_RS00110 (R27_p025)	28465..31146	-	2682	WP_001255540	IncHI-type conjugal transfer ATPase TrhC	virb4
HKJ84_RS00115 (R27_p026)	31155..32105	-	951	WP_001022266	TraV family lipoprotein	traV
HKJ84_RS00120 (R27_p027)	32115..32867	-	753	WP_010892304	protein-disulfide isomerase HtdT	-
HKJ84_RS00125 (R27_p028)	32973..33485	-	513	WP_000429933	hypothetical protein	-
HKJ84_RS00130 (R27_p029)	33494..34852	-	1359	WP_000351840	IncHI-type conjugal transfer protein TrhB	traB
HKJ84_RS00135 (R27_p030)	34842..35282	-	441	WP_001224093	plasmid transfer protein HtdO	-
HKJ84_RS00140 (R27_p031)	35284..36516	-	1233	WP_000202110	type-F conjugative transfer system secretin TraK	traK
HKJ84_RS00145 (R27_p032)	36519..37304	-	786	WP_000771920	TraE/TraK family type IV conjugative transfer system protein	traE
HKJ84_RS00150 (R27_p033)	37316..37633	-	318	WP_000203871	type IV conjugative transfer system protein TraL	traL
HKJ84_RS00155 (R27_p034)	37685..38038	-	354	WP_000424121	hypothetical protein	-
HKJ84_RS00160	38731..39009	-	279	WP_000835368	hypothetical protein	-
HKJ84_RS00165 (R27_p036)	39480..40355	-	876	WP_001282731	RepB family plasmid replication initiator protein	-
HKJ84_RS00170 (R27_p037)	40890..41966	+	1077	WP_001015069	hypothetical protein	-
HKJ84_RS00175 (R27_p038)	41984..42184	+	201	WP_000357613	hypothetical protein	-

Host bacterium

• ID: 205
• GenBank: NC_002305
• Plasmid name: R27
• Incompatibility group: IncHI1A
• Plasmid size: 180461 bp
• Coordinate of oriT [Strand]: 108637..108921 [+]
• Host baterium: Salmonella enterica subsp. enterica serovar Typhi

Cargo genes

• Drug resistance gene: tet(B)
• Virulence gene: -
• Metal resistance gene: corA
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -