Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   108465
Name   oriT_pMCR9-57185 in_silico
Organism   Citrobacter freundii strain 57185
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OP950837 (253119..253373 [+], 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_pMCR9-57185
GGATTTAGGTTTTTTTTTAATCGCTTCACATTTCGTTAGCATGCGCAGGAATTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGCGGTGTGGTTGAAGGGATAGATTTAAGGCTTATTCAAGCCTTAAGAAAATACTAAAAGTTACTTTTCACCCTACCGAACACCTAACAAAAAATCCATGTTGAAGATTTGAACAATTGTAATGGCGCAAGGACAATCAGCACATGTCAGAATCTGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5657 GenBank   WP_012477394
Name   mobH_QN254_RS01445_pMCR9-57185 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   6041 GenBank   WP_001284073
Name   traD_QN254_RS01440_pMCR9-57185 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: 55098..64305

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QN254_RS00285 50208..50924 - 717 WP_000838219 zinc finger-like domain-containing protein -
QN254_RS00290 50921..51121 - 201 WP_000594930 hypothetical protein -
QN254_RS00295 51141..52193 - 1053 WP_001065778 hypothetical protein -
QN254_RS00300 52670..53545 + 876 WP_000594611 RepB family plasmid replication initiator protein -
QN254_RS00305 54694..55047 + 354 WP_000423602 hypothetical protein -
QN254_RS00310 55065..55415 + 351 WP_001447770 type IV conjugative transfer system protein TraL -
QN254_RS00315 55427..56215 + 789 WP_000783153 TraE/TraK family type IV conjugative transfer system protein traE
QN254_RS00320 56215..57486 + 1272 WP_000592092 type-F conjugative transfer system secretin TraK traK
QN254_RS00325 57488..57949 + 462 WP_000521242 plasmid transfer protein HtdO -
QN254_RS00330 57939..59294 + 1356 WP_000351841 IncHI-type conjugal transfer protein TrhB traB
QN254_RS00335 59302..59784 + 483 WP_000377632 hypothetical protein -
QN254_RS00340 59903..60655 + 753 WP_182911723 protein-disulfide isomerase HtdT -
QN254_RS00345 60665..61615 + 951 WP_001022588 IncHI-type conjugal transfer lipoprotein TrhV traV
QN254_RS00350 61624..64305 + 2682 WP_000387412 TraC family protein virb4
QN254_RS00355 65402..65557 + 156 WP_001371891 hypothetical protein -

Host bacterium

ID   8900 GenBank   NZ_OP950837
Plasmid name   pMCR9-57185 Incompatibility group   IncHI2
Plasmid size   330692 bp Coordinate of oriT [Strand]   253119..253373 [+]
Host baterium   Citrobacter freundii strain 57185

Cargo genes

Drug resistance gene   sul1, qacE, ere(A), aac(6')-IIc, blaTEM-1B, catA2, tet(D), mcr-9, blaDHA-1, qnrB4
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   -