Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121213
Name   oriT_p12084-HI2 in_silico
Organism   Klebsiella michiganensis strain 12084
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MW148604 (47705..47959 [+], 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_p12084-HI2
GGATTTAGGTTTTTTTTTAATCGCTTCACATTTCGTTAGCATGCGCAGGAATTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGCGGTGTGGTTGAAGGGATAGATTTAAGGCTTATTCAAGCCTTAAGAAAATACTAAAAGTTACTTTTCACCCTACCGAACACCTAACAAAAAATCCATGTTGAAGATTTGAACAATTGTAATGGCGCAAGGACAATCAGCACATGTCAGAATCTGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13396 GenBank   WP_001011152
Name   mobH_LF655_RS00270_p12084-HI2 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   15698 GenBank   WP_001284073
Name   traD_LF655_RS00265_p12084-HI2 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: 212493..221733

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LF655_RS01105 212493..215174 - 2682 WP_000387412 TraC family protein virb4
LF655_RS01110 215183..216133 - 951 WP_001022588 IncHI-type conjugal transfer lipoprotein TrhV traV
LF655_RS01115 216143..216895 - 753 WP_182911723 protein-disulfide isomerase HtdT -
LF655_RS01120 217014..217496 - 483 WP_000377632 hypothetical protein -
LF655_RS01125 217504..218859 - 1356 WP_000351841 IncHI-type conjugal transfer protein TrhB traB
LF655_RS01130 218849..219310 - 462 WP_000521242 plasmid transfer protein HtdO -
LF655_RS01135 219312..220583 - 1272 WP_000592092 type-F conjugative transfer system secretin TraK traK
LF655_RS01140 220583..221371 - 789 WP_000783153 TraE/TraK family type IV conjugative transfer system protein traE
LF655_RS01145 221383..221733 - 351 WP_001447770 type IV conjugative transfer system protein TraL traL
LF655_RS01150 221751..222104 - 354 WP_000423602 hypothetical protein -
LF655_RS01155 223253..224128 - 876 WP_000594611 RepB family plasmid replication initiator protein -
LF655_RS01160 224605..225657 + 1053 WP_001065778 hypothetical protein -
LF655_RS01165 225677..225877 + 201 WP_000594930 hypothetical protein -
LF655_RS01170 225874..226590 + 717 WP_000838219 zinc finger-like domain-containing protein -

Host bacterium

ID   21641 GenBank   NZ_MW148604
Plasmid name   p12084-HI2 Incompatibility group   -
Plasmid size   237396 bp Coordinate of oriT [Strand]   47705..47959 [+]
Host baterium   Klebsiella michiganensis strain 12084

Cargo genes

Drug resistance gene   dfrA16, aadA2, qacE, sul1, blaCTX-M-9, mcr-9, qnrA1, aadA17, catB3, ARR-3, blaSIM-1
Virulence gene   -
Metal resistance gene   arsH, arsR, arsB, arsC, pcoS, pcoE, terE, terD, terC, terB, terA, terZ, terW
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -