Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   108462
Name   oriT_pMCR9-16539 in_silico
Organism   Enterobacter kobei strain 16539
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OP950838 (165100..165354 [+], 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_pMCR9-16539
GGATTTAGGTTTTTTTTTAATCGCTTCACATTTCGTTAGCATGCGCAGGAATTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGCGGTGTGGTTGAAGGGATAGATTTAAGGCTTATTCAAGCCTTAAGAAAATACTAAAAGTTACTTTTCACCCTACCGAACACCTAACAAAAAATCCATGTTGAAGATTTGAACAATTGTAATGGCGCAAGGACAATCAGCACATGTCAGAATCTGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5654 GenBank   WP_012477394
Name   mobH_QN255_RS00875_pMCR9-16539 insolico UniProt ID   A0A2Z2E7B6
Length   1050 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1050 a.a.        Molecular weight: 118067.47 Da        Isoelectric Point: 4.6347

>WP_012477394.1 MULTISPECIES: MobH family relaxase [Enterobacterales]
MMMNFRALYLCIKRILGIFSSQENDATSVMIEDISSLSPFAQILGDQKYTVPDHPNPEVLKFIEYPTRPT
GIQTFNEQSILSLYREKLHSISMMLAISDSDIRDDAYTFTNLVLKPLVEYVRWIHLLPASENHHHNGIGG
LLSHSLEVAILSLKNAHHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLASPIIWT
PSSQSLLDWARENDVVEYEIHWRKRIHNQHNIWSSVFLERILNPVCLAFLDRVNKERVYSKMITALNVYT
DGNDFLSKCVRTADFYSTGTDLNVLRDPIMGLRSNDAAARAISTIKHNFTSININNYNAKPMHIIIVNGE
VYLNENAFLDFVLNDFELHKYNFPQGEAGKTVLVESLVQRGYVEPYDDERVVHYFIPGIYSENEISNIFR
NGIGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRDVITKITDT
VETAVLKVNDLGRSSASIDVDIHSKKNEGSSDDFEKKAESDNEIDNDTQIVKSEGEEAADPVIPDIEESE
DESAKDTESHVLVNQLHELLLSAPLSNDYIVCVDAVPYLNIDTTMALLPGLDEKAFSEEPYFQLTFREGS
LDGMWIVRDIDDLRLVQLGDNCAGFQLTYHEPRRPTTLKSLFNTSMYQALVINDESSVENSAPRPKQTLE
LPPPRVNAVEEHSGDVEYHGTDSASATGPLKTEAVEYEHYQHLFEKEDEEHEIIDYTDFSQLSVSRPEVG
SCATSSSVHNEKLLSEPSELPELNREQNADPQGTNERSMDVSVGQENSEPDTEGNCPPPAEVVYSQTEAA
ATSVMASEEPALPPVLEESNGEHAPTDAKGHHLSPALARLFAPTAPVEKQNPKRNRNKSSDKAEVQKPAS
PVSGHNLNSKVFASTESDQNGEFSLISEGDVTELEFVEIALVLHQILSKMEVAFKRKRKNRFMVSTPNTL
YLTQSCVEKFGSQLEAQDLFNKLPQYLVNSGAVINTKCHAFNMPTLLAASDRAKVDIERIINNLKEAGNL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(108-304)


  Protein structure


Source ID Structure
AlphaFold DB A0A2Z2E7B6


T4CP

ID   6037 GenBank   WP_001284073
Name   traD_QN255_RS00870_pMCR9-16539 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: 3654..12861

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QN255_RS00005 1..876 + 876 WP_000594611 RepB family plasmid replication initiator protein -
QN255_RS00010 1501..2621 + 1121 WP_087451024 IS3-like element ISSen4 family transposase -
QN255_RS00015 3250..3603 + 354 WP_000423602 hypothetical protein -
QN255_RS00020 3621..3971 + 351 WP_001447770 type IV conjugative transfer system protein TraL -
QN255_RS00025 3983..4771 + 789 WP_000783153 TraE/TraK family type IV conjugative transfer system protein traE
QN255_RS00030 4771..6042 + 1272 WP_000592092 type-F conjugative transfer system secretin TraK traK
QN255_RS00035 6044..6505 + 462 WP_000521242 plasmid transfer protein HtdO -
QN255_RS00040 6495..7850 + 1356 WP_000351841 IncHI-type conjugal transfer protein TrhB traB
QN255_RS00045 7858..8340 + 483 WP_000377632 hypothetical protein -
QN255_RS00050 8459..9211 + 753 WP_182911723 protein-disulfide isomerase HtdT -
QN255_RS00055 9221..10171 + 951 WP_001022588 IncHI-type conjugal transfer lipoprotein TrhV traV
QN255_RS00060 10180..12861 + 2682 WP_000387412 TraC family protein virb4
QN255_RS00065 13958..14113 + 156 WP_001371891 hypothetical protein -
QN255_RS00070 15410..15571 + 162 WP_001371949 hypothetical protein -

Host bacterium

ID   8897 GenBank   NZ_OP950838
Plasmid name   pMCR9-16539 Incompatibility group   IncHI2A
Plasmid size   285283 bp Coordinate of oriT [Strand]   165100..165354 [+]
Host baterium   Enterobacter kobei strain 16539

Cargo genes

Drug resistance gene   blaTEM-1B, tet(D), mcr-9, aph(6)-Id, aph(3'')-Ib, dfrA19, sul1, qnrA1, qacE, aadA2, catA2, blaSHV-12
Virulence gene   -
Metal resistance gene   terW, terZ, terA, terB, terC, terD, terE, pbrA, merE, merD, merA, merC, merP, merT, merR, arsH, arsR, arsB, arsC, rcnR/yohL, ncrC, pcoE, pcoS
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -