Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104824
Name   oriT_ISP_03_07467_SGB110-sc-1979083|2 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhi isolate ISP_03_07467_SGB110-sc-1979083
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LT906491 (207589..207873 [-], 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_ISP_03_07467_SGB110-sc-1979083|2
GGTTATTGCTACTTAATGCCGATAACGACTCAGGCTTTGAGGTTTTTTTATACGGTTCACATTTCGTTAGCAAGGTCAGGGTTTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGGGTAATGGCTGAAAGGTTAGTTTTAAGGTTCAAAGCGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCCTTCAGAATCCAGACCTTAATTTCATGTAGAAGATTCGTACAATTGTATTGGCGCAAGGACAATCCGCACATGTCAGAATCAGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3421 GenBank   WP_001011149
Name   mobH_CJZ88_RS24760_ISP_03_07467_SGB110-sc-1979083|2 insolico UniProt ID   A0A0G3BA46
Length   1011 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1011 a.a.        Molecular weight: 113023.00 Da        Isoelectric Point: 4.5108

>WP_001011149.1 MULTISPECIES: MobH family relaxase [Enterobacterales]
MNFRALFLSMQRVFGIFSRRENDVSELMMKDAANFSPFAQIIGEQKYTVPDHPNPEVLKFIEYPTRPAGI
QTFNEQSILSLYRDKLHSISMMLAISDGDIREDAYTFTNLVLKPLIEYIRWIHLLPASENHHHNGIGGLL
SHSLEVAMISLKNANHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLSETLTWAPS
SQSLLDWARENNVVEYEIHWRKRIHNQHNIWSSVFLERILDPVCMSFLDRVKKERVYAKMVTALNVYNDG
NDFLSKCVRTSDYYSTGTDLNVLRDPIMGLRSNDAAARAIGTIKHNFTSININNYKTKPMHIIIVNGEVY
LNENAFLDFVLSDFAAHKFNFPQGDAGKTVLVESLVQRGYVEPYDDERVVHYFIPGTYSENEIASIFRNG
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 A0A0G3BA46


T4CP

ID   3360 GenBank   WP_000167418
Name   traD_CJZ88_RS24765_ISP_03_07467_SGB110-sc-1979083|2 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: 52714..61882

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CJZ88_RS23930 48163..48363 - 201 WP_000357614 hypothetical protein -
CJZ88_RS23935 48381..49457 - 1077 WP_001015069 hypothetical protein -
CJZ88_RS23940 49992..50867 + 876 WP_001282731 RepB family plasmid replication initiator protein -
CJZ88_RS23945 51314..51658 - 345 WP_153253765 hypothetical protein -
CJZ88_RS23950 52309..52662 + 354 WP_000424121 hypothetical protein -
CJZ88_RS23955 52714..53031 + 318 WP_000203871 type IV conjugative transfer system protein TraL traL
CJZ88_RS23960 53043..53828 + 786 WP_000771920 TraE/TraK family type IV conjugative transfer system protein traE
CJZ88_RS23965 53831..55063 + 1233 WP_000202110 type-F conjugative transfer system secretin TraK traK
CJZ88_RS23970 55065..55505 + 441 WP_001224093 plasmid transfer protein HtdO -
CJZ88_RS23975 55495..56853 + 1359 WP_000351840 IncHI-type conjugal transfer protein TrhB traB
CJZ88_RS23980 56862..57374 + 513 WP_000429933 hypothetical protein -
CJZ88_RS23985 57480..58232 + 753 WP_010892304 protein-disulfide isomerase HtdT -
CJZ88_RS23990 58242..59192 + 951 WP_001022266 TraV family lipoprotein traV
CJZ88_RS23995 59201..61882 + 2682 WP_001255540 IncHI-type conjugal transfer ATPase TrhC virb4
CJZ88_RS24005 62926..64923 + 1998 WP_001541890 choline BCCT transporter BetT -
CJZ88_RS24010 64986..66281 + 1296 WP_000625666 DUF2254 domain-containing protein -

Host bacterium

ID   5262 GenBank   NZ_LT906491
Plasmid name   ISP_03_07467_SGB110-sc-1979083|2 Incompatibility group   IncHI1B
Plasmid size   215784 bp Coordinate of oriT [Strand]   207589..207873 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhi isolate ISP_03_07467_SGB110-sc-1979083

Cargo genes

Drug resistance gene   catA1, qacE, sul1, blaTEM-1B, aph(6)-Id, aph(3'')-Ib, sul2, tet(B)
Virulence gene   -
Metal resistance gene   corA, merE, merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -