Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120821
Name   oriT_0|P1 in_silico
Organism   Raoultella ornithinolytica isolate 0
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OW849031 (153816..154070 [-], 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  


Download         Length: 255 nt

>oriT_0|P1
GGATTTAGGTTTTTTTTTAATCGCTTCACATTTCGTTAGCATGCGCAGGAATTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGCGGTGTGGTTGAAGGGATAGATTTAAGGCTTATTCAAGCCTTAAGAAAATACTAAAAGTTACTTTTCACCCTACCGAACACCTAACAAAAAATCCATGTTGAAGATTTGAACAATTGTAATGGCGCAAGGACAATCAGCACATGTCAGAATCTGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13131 GenBank   WP_230132557
Name   mobH_LQ178_RS26840_0|P1 insolico UniProt ID   _
Length   594 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 594 a.a.        Molecular weight: 67582.37 Da        Isoelectric Point: 4.8303

>WP_230132557.1 MobH family relaxase [Raoultella ornithinolytica]
MMMNFRALYLCIKRILGIFSSQENDATSVMIEDISSLSPFAQILGDQKYTVPDHPNPEVLKFIEYPTRPT
GIQTFNEQSILSLYREKLHSISMMLAISDSDIRDDAYTFTNLVLKPLVEYVRWIHLLPASENHHHNGIGG
LLSHSLEVAILSLKNAHHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLASPIIWT
PSSQSLLDWARENDVVEYEIHWRKRIHNQHNIWSSVFLERILNPVCLAFLDRVNKERVYSKMITALNVYT
DGNDFLSKCVRTADFYSTGTDLNVLRDPIMGLRSNDAAARAISTIKHNFTSININNYNAKPMHIIIVNGE
VYLNENAFLDFVLNDFELHKYNFPQGEAGKTVLVESLVQRGYVEPYDDERVVHYFIPGIYSENEISNIFR
NGIGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRDVITKITDT
VETAVLKVNDLGRSSASIDVDIHSKKNEGSSDDFEKKAESDNEIDNDTQIVKSEGEEAADPVIPDIEESE
DESAKDTESHVLVNQLHELLLSAPLSNDLTCPQS

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(108-304)


  Protein structure



No available structure.




T4CP

ID   15412 GenBank   WP_001284073
Name   traD_LQ178_RS26855_0|P1 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: 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: 2396..11636

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LQ178_RS26030 (AI2711V1_5067) 1..876 + 876 WP_000594611 RepB family plasmid replication initiator protein -
LQ178_RS26035 (AI2711V1_5069) 2025..2378 + 354 WP_000423602 hypothetical protein -
LQ178_RS26040 (AI2711V1_5070) 2396..2746 + 351 WP_001447770 type IV conjugative transfer system protein TraL traL
LQ178_RS26045 (AI2711V1_5071) 2758..3546 + 789 WP_000783153 TraE/TraK family type IV conjugative transfer system protein traE
LQ178_RS26050 (AI2711V1_5072) 3546..4817 + 1272 WP_000592092 type-F conjugative transfer system secretin TraK traK
LQ178_RS26055 4819..5280 + 462 WP_000521242 plasmid transfer protein HtdO -
LQ178_RS26060 (AI2711V1_5074) 5270..6625 + 1356 WP_000351841 IncHI-type conjugal transfer protein TrhB traB
LQ178_RS26065 (AI2711V1_5075) 6633..7115 + 483 WP_000377632 hypothetical protein -
LQ178_RS26070 (AI2711V1_5076) 7234..7986 + 753 WP_182911723 protein-disulfide isomerase HtdT -
LQ178_RS26075 (AI2711V1_5077) 7996..8946 + 951 WP_001022588 IncHI-type conjugal transfer lipoprotein TrhV traV
LQ178_RS26080 (AI2711V1_5078) 8955..11636 + 2682 WP_000387412 TraC family protein virb4
LQ178_RS26085 14185..14346 + 162 WP_001371949 hypothetical protein -

Host bacterium

ID   21250 GenBank   NZ_OW849031
Plasmid name   0|P1 Incompatibility group   IncHI2A
Plasmid size   228616 bp Coordinate of oriT [Strand]   153816..154070 [-]
Host baterium   Raoultella ornithinolytica isolate 0

Cargo genes

Drug resistance gene   sul1, qacE, aadA2, dfrA16
Virulence gene   -
Metal resistance gene   terW, terZ, terA, terB, terC, terD, terE, merE, merD, merB, merR2, arsH, arsR, arsB, arsC
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -