Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104260
Name   oriT_p112298-catA in_silico
Organism   Citrobacter freundii strain 112298
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KY270851 (155551..155804 [+], 254 nt)
oriT length   254 nt
IRs (inverted repeats)      152..157, 159..164  (AAAAGT..ACTTTT)
 121..129, 134..142  (TTAAGGCTT..AAGCCTTAA)
 48..54, 59..65  (GAATTTT..AAAATTC)
Location of nic site      77..78
Conserved sequence flanking the
  nic site    		  TTTGGTTAAA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 254 nt

>oriT_p112298-catA
GGATTTAGGTTTTTTTTAATCGCTTCACATTTCGTTAGCATGCGCAGGAATTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGCGGTGTGGTTGAAGGGATAGATTTAAGGCTTATTCAAGCCTTAAGAAAATACTAAAAGTTACTTTTCACCCTACCGAACACCTAACAAAAAATCCATGTTGAAGATTTGAACAATTGTAATGGCGCAAGGACAATCAGCACATGTCAGAATCTGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3131 GenBank   WP_001011152
Name   mobH_HTL92_RS00815_p112298-catA insolico UniProt ID   A0A077W2P6
Length   1048 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1048 a.a.        Molecular weight: 117805.08 Da        Isoelectric Point: 4.6347

>WP_001011152.1 MULTISPECIES: MobH family relaxase [Enterobacteriaceae]
MNFRALYLCIKRILGIFSSQENDATSVMIEDISSLSPFAQILGDQKYTVPDHPNPEVLKFIEYPTRPTGI
QTFNEQSILSLYREKLHSISMMLAISDSDIRDDAYTFTNLVLKPLVEYVRWIHLLPASENHHHNGIGGLL
SHSLEVAILSLKNAHHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLASPIIWTPS
SQSLLDWARENDVVEYEIHWRKRIHNQHNIWSSVFLERILNPVCLAFLDRVNKERVYSKMITALNVYTDG
NDFLSKCVRTADFYSTGTDLNVLRDPIMGLRSNDAAARAISTIKHNFTSININNYNAKPMHIIIVNGEVY
LNENAFLDFVLNDFELHKYNFPQGEAGKTVLVESLVQRGYVEPYDDERVVHYFIPGIYSENEISNIFRNG
IGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRDVITKITDTVE
TAVLKVNDLGRSSASIDVDIHSKKNEGSSDDFEKKAESDNEIDNDTQIVKSEGEEAADPVIPDIEESEDE
SAKDTESHVLVNQLHELLLSAPLSNDYIVCVDAVPYLNIDTTMALLPGLDEKAFSEEPYFQLTFREGSLD
GMWIVRDIDDLRLVQLGDNCAGFQLTYHEPRRPTTLKSLFNTSMYQALVINDESSVENSAPRPKQTLELP
PPRVNAVEEHSGDVEYHGTDSASATGPLKTEAVEYEHYQHLFEKEDEEHEIIDYTDFSQLSVSRPEVGSC
ATSSSVHNEKLLSEPSELPELNREQNADPQGTNERSMDVSVGQENSEPDTEGNCPPPAEVVYSQTEAAAT
SVMASEEPALPPVLEESNGEHAPTDAKGHHLSPALARLFAPTAPVEKQNPKRNRNKSSDKAEVQKPASPV
SGHNLNSKVFASTESDQNGEFSLISEGDVTELEFVEIALVLHQILSKMEVAFKRKRKNRFMVSTPNTLYL
TQSCVEKFGSQLEAQDLFNKLPQYLVNSGAVINTKCHAFNMPTLLAASDRAKVDIERIINNLKEAGNL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(106-302)


  Protein structure


Source ID Structure
AlphaFold DB A0A077W2P6


T4CP

ID   3029 GenBank   WP_001284073
Name   traD_HTL92_RS00810_p112298-catA 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: 2429..11636

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTL92_RS00005 1..876 + 876 WP_000594611 RepB family plasmid replication initiator protein -
HTL92_RS00010 2025..2378 + 354 WP_172689898 pili assembly chaperone -
HTL92_RS00015 2396..2746 + 351 WP_001447770 type IV conjugative transfer system protein TraL -
HTL92_RS00020 2758..3546 + 789 WP_000783153 TraE/TraK family type IV conjugative transfer system protein traE
HTL92_RS00025 3546..4817 + 1272 WP_000592092 type-F conjugative transfer system secretin TraK traK
HTL92_RS00030 4819..5280 + 462 WP_000521242 plasmid transfer protein HtdO -
HTL92_RS00035 5270..6625 + 1356 WP_000351841 IncHI-type conjugal transfer protein TrhB traB
HTL92_RS00040 6633..7115 + 483 WP_000377632 hypothetical protein -
HTL92_RS00045 7234..7986 + 753 WP_182911723 protein-disulfide isomerase HtdT -
HTL92_RS00050 7996..8946 + 951 WP_172689899 IncHI-type conjugal transfer lipoprotein TrhV traV
HTL92_RS00055 8955..11636 + 2682 WP_000387412 TraC family protein virb4
HTL92_RS00060 15226..16479 + 1254 WP_001050364 ParA family protein -

Host bacterium

ID   4699 GenBank   NZ_KY270851
Plasmid name   p112298-catA Incompatibility group   IncHI2A
Plasmid size   263363 bp Coordinate of oriT [Strand]   155551..155804 [+]
Host baterium   Citrobacter freundii strain 112298

Cargo genes

Drug resistance gene   aac(6')-Ib-cr, sul1, qacE, aac(6')-Il, catA2, tet(D)
Virulence gene   -
Metal resistance gene   terW, terZ, terA, terB, terC, terD, terE, arsH, arsC, arsB, arsA, arsD
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -