Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116770
Name   oriT_p23141-mcr in_silico
Organism   Raoultella ornithinolytica strain 23141
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MF788071 (172207..172461 [-], 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_p23141-mcr
GGATTTAGGTTTTTTTTTAATCGCTTCACATTTCGTTAGCATGCGCAGGAATTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGCGGTGTGGTTGAAGGGATAGATTTAAGGCTTATTCAAGCCTTAAGAAAATACTAAAAGTTACTTTTCACCCTACCGAACACCTAACAAAAAATCCATGTTGAAGATTTGAACAATTGTAATGGCGCAAGGACAATCAGCACATGTCAGAATCTGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10698 GenBank   WP_318532928
Name   TraI_2_HTQ12_RS00870_p23141-mcr insolico UniProt ID   _
Length   883 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 883 a.a.        Molecular weight: 98978.52 Da        Isoelectric Point: 4.4579

>WP_318532928.1 TraI domain-containing protein [Raoultella ornithinolytica]
MLISESAWEEMTCLFAPSLVHDAGKVYDLDIVSLNLASPIIWTPSSQSLLDWARENDVVEYEIHWRKRIH
NQHNIWSSVFLERILNPVCLAFLDRVNKERVYSKMITALNVYTDGNDFLSKCVRTADFYSTGTDLNVLRD
PIMGLRSNDAAARAISTIKHNFTSININNYNAKPMHIIIVNGEVYLNENAFLDFVLNDFELHKYNFPQGE
AGKTVLVESLVQRGYVEPYDDERVVHYFIPGIYSENEISNIFRNGIGKLEFYNLLKLRWIGLIFDSYKIP
DSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRDVITKITDTVETAVLKVNDLGRSSASIDVDIHSKKN
EGSSDDFEKKAESDNEIDNDTQIVKSEGEEAADPVIPDIEESEDESAKDTESHVLVNQLHELLLSAPLSN
DYIVCVDAVPYLNIDTTMALLPGLDEKAFSEEPYFQLTFREGSLDGMWIVRDIDDLRLVQLGDNCAGFQL
TYHEPRRPTTLKSLFNTSMYQALVINDESSVENSAPRPKQTLELPPPRVNAVEEHSGDVEYHGTDSASAT
GPLKTEAVEYEHYQHLFEKEDEEHEIIDYTDFSQLSVSRPEVGSCATSSSVHNEKLLSEPSELPELNREQ
NADPQGTNERSMDVSVGQENSEPDTEGNCPPPAEVVYSQTEAAATSVMASEEPALPPVLEESNGEHAPTD
AKGHHLSPALARLFAPTAPVEKQNPKRNRNKSSDKAEVQKPASPVSGHNLNSKVFASTESDQNGEFSLIS
EGDVTELEFVEIALVLHQILSKMEVAFKRKRKNRFMVSTPNTLYLTQSCVEKFGSQLEAQDLFNKLPQYL
VNSGAVINTKCHAFNMPTLLAASDRAKVDIERIINNLKEAGNL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(5-137)


  Protein structure



No available structure.




T4CP

ID   12498 GenBank   WP_001284073
Name   traD_HTQ12_RS00875_p23141-mcr 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
HTQ12_RS00005 1..876 + 876 WP_000594611 RepB family plasmid replication initiator protein -
HTQ12_RS00010 2025..2378 + 354 WP_000423602 hypothetical protein -
HTQ12_RS00015 2396..2746 + 351 WP_001447770 type IV conjugative transfer system protein TraL traL
HTQ12_RS00020 2758..3546 + 789 WP_000783153 TraE/TraK family type IV conjugative transfer system protein traE
HTQ12_RS00025 3546..4817 + 1272 WP_000592092 type-F conjugative transfer system secretin TraK traK
HTQ12_RS00030 4819..5280 + 462 WP_000521242 plasmid transfer protein HtdO -
HTQ12_RS00035 5270..6625 + 1356 WP_000351841 IncHI-type conjugal transfer protein TrhB traB
HTQ12_RS00040 6633..7115 + 483 WP_000377632 hypothetical protein -
HTQ12_RS00045 7234..7986 + 753 WP_182911723 protein-disulfide isomerase HtdT -
HTQ12_RS00050 7996..8946 + 951 WP_001022588 IncHI-type conjugal transfer lipoprotein TrhV traV
HTQ12_RS00055 8955..11636 + 2682 WP_000387412 TraC family protein virb4

Host bacterium

ID   17203 GenBank   NZ_MF788071
Plasmid name   p23141-mcr Incompatibility group   IncHI2A
Plasmid size   268242 bp Coordinate of oriT [Strand]   172207..172461 [-]
Host baterium   Raoultella ornithinolytica strain 23141

Cargo genes

Drug resistance gene   aadA2, qacE, sul1, dfrA19, aph(3'')-Ib, aph(6)-Id, mcr-9, tet(D)
Virulence gene   -
Metal resistance gene   terW, terZ, terA, terB, terC, terD, terE, pbrA, merE, merD, merA, merC, merP, merT, merR, pcoS, pcoE, ncrC, rcnR/yohL
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -