Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 106876
• Name: oriT_pSE228A
• Organism: Salmonella enterica subsp. enterica serovar Enteritidis strain JL228
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_CP094270 (186487..186741 [-], 255 nt)
• oriT length: 255 nt
• IRs (inverted repeats): 153..158, 160..165 (AAAAGT..ACTTTT) 122..130, 135..143 (TTAAGGCTT..AAGCCTTAA) 49..55, 60..66 (GAATTTT..AAAATTC)
• Location of nic site: 78..79
• Conserved sequence flanking the nic site: TTTGGTTAAA
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 255 nt

>oriT_pSE228A
GGATTTAGGTTTTTTTTTAATCGCTTCACATTTCGTTAGCATGCGCAGGAATTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGCGGTGTGGTTGAAGGGATAGATTTAAGGCTTATTCAAGCCTTAAGAAAATACTAAAAGTTACTTTTCACCCTACCGAACACCTAACAAAAAATCCATGTTGAAGATTTGAACAATTGTAATGGCGCAAGGACAATCAGCACATGTCAGAATCTGAT

oriT secondary structure

Predicted by RNAfold.

Relaxase

mobH_MPK88_RS24095_pSE228A

• ID: 4544
• GenBank: WP_012477394
• Name: mobH_MPK88_RS24095_pSE228A
• UniProt ID: A0A2Z2E7B6
• Length: 1050 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1050 a.a.
• Molecular weight: 118067.47 Da
• Isoelectric Point: 4.6347

>WP_012477394.1 MULTISPECIES: MobH family relaxase [Enterobacterales]
MMMNFRALYLCIKRILGIFSSQENDATSVMIEDISSLSPFAQILGDQKYTVPDHPNPEVLKFIEYPTRPT
GIQTFNEQSILSLYREKLHSISMMLAISDSDIRDDAYTFTNLVLKPLVEYVRWIHLLPASENHHHNGIGG
LLSHSLEVAILSLKNAHHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLASPIIWT
PSSQSLLDWARENDVVEYEIHWRKRIHNQHNIWSSVFLERILNPVCLAFLDRVNKERVYSKMITALNVYT
DGNDFLSKCVRTADFYSTGTDLNVLRDPIMGLRSNDAAARAISTIKHNFTSININNYNAKPMHIIIVNGE
VYLNENAFLDFVLNDFELHKYNFPQGEAGKTVLVESLVQRGYVEPYDDERVVHYFIPGIYSENEISNIFR
NGIGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRDVITKITDT
VETAVLKVNDLGRSSASIDVDIHSKKNEGSSDDFEKKAESDNEIDNDTQIVKSEGEEAADPVIPDIEESE
DESAKDTESHVLVNQLHELLLSAPLSNDYIVCVDAVPYLNIDTTMALLPGLDEKAFSEEPYFQLTFREGS
LDGMWIVRDIDDLRLVQLGDNCAGFQLTYHEPRRPTTLKSLFNTSMYQALVINDESSVENSAPRPKQTLE
LPPPRVNAVEEHSGDVEYHGTDSASATGPLKTEAVEYEHYQHLFEKEDEEHEIIDYTDFSQLSVSRPEVG
SCATSSSVHNEKLLSEPSELPELNREQNADPQGTNERSMDVSVGQENSEPDTEGNCPPPAEVVYSQTEAA
ATSVMASEEPALPPVLEESNGEHAPTDAKGHHLSPALARLFAPTAPVEKQNPKRNRNKSSDKAEVQKPAS
PVSGHNLNSKVFASTESDQNGEFSLISEGDVTELEFVEIALVLHQILSKMEVAFKRKRKNRFMVSTPNTL
YLTQSCVEKFGSQLEAQDLFNKLPQYLVNSGAVINTKCHAFNMPTLLAASDRAKVDIERIINNLKEAGNL

Protein domains

Predicted by InterproScan.

• Putative helicase (TraI_2) (108-304)

Protein structure

• AlphaFold DB: A0A2Z2E7B6

T4CP

traD_MPK88_RS24100_pSE228A

• ID: 4621
• GenBank: WP_001284073
• Name: traD_MPK88_RS24100_pSE228A
• UniProt ID: _
• Length: 694 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 694 a.a.
• Molecular weight: 78123.91 Da
• Isoelectric Point: 8.0177

>WP_001284073.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Enterobacterales]
MSDSKRTNLHAQENFYRPILEYRSASILLICSVSMLYMGLSSDGLDIAPIVLFTSILLFLLCLYRCKTAA
PFLMAHWRVFKRHFMFVSLDSLRVINKSNFFSNERKYRQLVQDYQNKNKDIPERKSYFCDGFEWGPEHAD
RAYQIANLSSDKREIELPFVFNPIKRHFDAMARKMGGSNAIFAVERREPIFVTEDNWFGHTLITGNVGTG
KTVLQRLLSISMLHLGHVVVVIDPKNDAEWRESLMEEAKTLGLPFYKFHPGQPASSVCIDVCNTYTNVSD
LTSRLLSLVTVPGEVNPFVQYAKALVSNVISGLSYIEKKPSIYLIHKNMKSHMSIVNLTVKVMESCYARY
YGYDVWTEKVKYVANDTLPVRFKRLAEWFTAHFMNYEGSEQIDWLDTVSQLIDYSMSDPEHMAKMTAGIM
PVFDMLIEKPLNELLSPNPNSVSSREIVTSEGMFSTGGVLYISLDGLSNPDTAAAISQLIMSDLTSCAGS
RYNAQDGDMSANSRISIFVDEAHSAINNPMINLLAQGRAAKIALFICTQTISDFIAAASVETANRITGLC
NNYISLRVNDTPTQTLVVENFGKSAISTNMVTYTTGSETSLPHNNFSGSISERKQTTLEESIPKDLLGQV
PMFHIVARLQDGRKVVGQIPIAVAEKQMKPNTTLSEMLFKKAGKVTLRQNLDIKNLNKFLRKLH

Protein domains

Predicted by InterproScan.

• Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind) (406-609)

• AAA-like domain (AAA_10) (199-249)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 88553..97760

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
MPK88_RS23555 (MPK88_23520)	83991..84203	-	213	WP_001285422	Hha/YmoA family nucleoid-associated regulatory protein	-
MPK88_RS23560 (MPK88_23525)	84374..85447	+	1074	WP_272487357	tyrosine-type recombinase/integrase	-
MPK88_RS23565 (MPK88_23530)	85494..86198	+	705	WP_001067858	IS6-like element IS26 family transposase	-
MPK88_RS23570 (MPK88_23535)	86251..87000	+	750	Protein_95	RepB family plasmid replication initiator protein	-
MPK88_RS23575 (MPK88_23540)	88149..88502	+	354	WP_000423602	hypothetical protein	-
MPK88_RS23580 (MPK88_23545)	88520..88870	+	351	WP_001447770	type IV conjugative transfer system protein TraL	-
MPK88_RS23585 (MPK88_23550)	88882..89670	+	789	WP_000783153	TraE/TraK family type IV conjugative transfer system protein	traE
MPK88_RS23590 (MPK88_23555)	89670..90941	+	1272	WP_000592092	type-F conjugative transfer system secretin TraK	traK
MPK88_RS23595 (MPK88_23560)	90943..91404	+	462	WP_000521242	plasmid transfer protein HtdO	-
MPK88_RS23600 (MPK88_23565)	91394..92749	+	1356	WP_000351841	IncHI-type conjugal transfer protein TrhB	traB
MPK88_RS23605 (MPK88_23570)	92757..93239	+	483	WP_000377632	hypothetical protein	-
MPK88_RS23610 (MPK88_23575)	93358..94110	+	753	WP_182911723	protein-disulfide isomerase HtdT	-
MPK88_RS23615 (MPK88_23580)	94120..95070	+	951	WP_001022588	IncHI-type conjugal transfer lipoprotein TrhV	traV
MPK88_RS23620 (MPK88_23585)	95079..97760	+	2682	WP_000387412	TraC family protein	virb4
MPK88_RS23625 (MPK88_23590)	100309..100470	+	162	WP_001371949	hypothetical protein	-

Host bacterium

• ID: 7313
• GenBank: NZ_CP094270
• Plasmid name: pSE228A
• Incompatibility group: IncHI2A
• Plasmid size: 211429 bp
• Coordinate of oriT [Strand]: 186487..186741 [-]
• Host baterium: Salmonella enterica subsp. enterica serovar Enteritidis strain JL228

Cargo genes

• Drug resistance gene: sul1, qacE, ere(A), aac(6')-IIc
• Virulence gene: spvC, spvB
• Metal resistance gene: pcoE, pcoC, pcoB, pcoA, silP, silA, silB, silF, silC, silR, silS, silE, terE, terD, terC, terB, terA, terZ, terW
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -