Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106772
Name   oriT_pR18.1078_p247k in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain R18.1078
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP065568 (172756..173040 [-], 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  


Download         Length: 285 nt

>oriT_pR18.1078_p247k
GGTTATTGCTACTTAATGCCGATAACGACTCAGGCTTTGAGGTTTTTTTATACGGTTCACATTTCGTTAGCAAGGCCAGGGTTTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGGGTAATGGCTGAAAGGTTAGTTTTAAGGTTCAAAGCGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCCTTCAGAATCCAGACCTTAATTTCATGTAGAAGATTCGTACAATTGTATTGGCGCAAGGACAATCCGCACATGTCAGAATCAGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4464 GenBank   WP_038989148
Name   mobH_I7656_RS25215_pR18.1078_p247k insolico UniProt ID   A0A7T0P871
Length   1011 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         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


Source ID Structure
AlphaFold DB A0A7T0P871


T4CP

ID   4512 GenBank   WP_000167418
Name   traD_I7656_RS25220_pR18.1078_p247k insolico UniProt ID   _
Length   694 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         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: 233853..243021

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
I7656_RS25545 (I7656_25415) 229390..229590 - 201 WP_000357613 hypothetical protein -
I7656_RS25550 (I7656_25420) 229608..230684 - 1077 WP_001015069 hypothetical protein -
I7656_RS25555 (I7656_25425) 231219..232094 + 876 WP_001282731 RepB family plasmid replication initiator protein -
I7656_RS25560 (I7656_25430) 232541..232885 - 345 WP_153253765 hypothetical protein -
I7656_RS25565 (I7656_25435) 233448..233801 + 354 WP_038988950 hypothetical protein -
I7656_RS25570 (I7656_25440) 233853..234170 + 318 WP_000203871 type IV conjugative transfer system protein TraL traL
I7656_RS25575 (I7656_25445) 234182..234967 + 786 WP_000771920 TraE/TraK family type IV conjugative transfer system protein traE
I7656_RS25580 (I7656_25450) 234970..236202 + 1233 WP_000202110 type-F conjugative transfer system secretin TraK traK
I7656_RS25585 (I7656_25455) 236204..236644 + 441 WP_001224093 plasmid transfer protein HtdO -
I7656_RS25590 (I7656_25460) 236634..237992 + 1359 WP_000351840 IncHI-type conjugal transfer protein TrhB traB
I7656_RS25595 (I7656_25465) 238001..238513 + 513 WP_000429933 hypothetical protein -
I7656_RS25600 (I7656_25470) 238619..239371 + 753 WP_010892304 protein-disulfide isomerase HtdT -
I7656_RS25605 (I7656_25475) 239381..240331 + 951 WP_001022266 TraV family lipoprotein traV
I7656_RS25610 (I7656_25480) 240340..243021 + 2682 WP_001255540 IncHI-type conjugal transfer ATPase TrhC virb4
I7656_RS25615 (I7656_25485) 243695..244123 + 429 WP_124061973 hypothetical protein -
I7656_RS25620 (I7656_25490) 244801..244974 + 174 WP_005046574 hypothetical protein -
I7656_RS25625 (I7656_25495) 245325..245558 + 234 WP_032489575 hypothetical protein -
I7656_RS25630 (I7656_25500) 245872..246018 + 147 WP_005046583 hypothetical protein -

Host bacterium

ID   7209 GenBank   NZ_CP065568
Plasmid name   pR18.1078_p247k Incompatibility group   IncFIA
Plasmid size   247565 bp Coordinate of oriT [Strand]   172756..173040 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain R18.1078

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -