Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120578
Name   oriT_pOZ181 in_silico
Organism   Citrobacter freundii strain B38
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP016764 (32421..32675 [-], 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_pOZ181
GGATTTAGGTTTTTTTTTAATCGCTTCACATTTCGTTAGCATGCGCAGGAATTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGCGGTGTGGTTGAAGGGATAGATTTAAGGCTTATTCAAGCCTTAAGAAAATACTAAAAGTTACTTTTCACCCTACCGAACACCTAACAAAAAATCCATGTTGAAGATTTGAACAATTGTAATGGCGCAAGGACAATCAGCACATGTCAGAATCTGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12961 GenBank   WP_012477394
Name   mobH_CfB38_RS25745_pOZ181 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   15220 GenBank   WP_001284073
Name   traD_CfB38_RS25750_pOZ181 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: 92706..101913

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CfB38_RS25995 (CfB38_6093) 87816..88532 - 717 WP_047745022 zinc finger-like domain-containing protein -
CfB38_RS26000 (CfB38_6094) 88529..88729 - 201 WP_000594930 hypothetical protein -
CfB38_RS26005 (CfB38_6095) 88749..89801 - 1053 WP_065945195 hypothetical protein -
CfB38_RS26010 (CfB38_6096) 90277..91152 + 876 WP_000594612 RepB family plasmid replication initiator protein -
CfB38_RS26020 (CfB38_6098) 92302..92655 + 354 WP_000423602 hypothetical protein -
CfB38_RS26025 (CfB38_6099) 92706..93023 + 318 WP_000043359 type IV conjugative transfer system protein TraL traL
CfB38_RS26030 (CfB38_6100) 93035..93823 + 789 WP_000783153 TraE/TraK family type IV conjugative transfer system protein traE
CfB38_RS26035 (CfB38_6101) 93823..95094 + 1272 WP_065945196 type-F conjugative transfer system secretin TraK traK
CfB38_RS26040 (CfB38_6102) 95096..95557 + 462 WP_065945197 plasmid transfer protein HtdO -
CfB38_RS26045 (CfB38_6103) 95547..96902 + 1356 WP_000351841 IncHI-type conjugal transfer protein TrhB traB
CfB38_RS26050 (CfB38_6104) 96910..97392 + 483 WP_065945198 transcriptional regulator -
CfB38_RS26055 (CfB38_6105) 97511..98263 + 753 WP_193407060 protein-disulfide isomerase HtdT -
CfB38_RS26060 (CfB38_6106) 98273..99223 + 951 WP_001022587 IncHI-type conjugal transfer lipoprotein TrhV traV
CfB38_RS26065 (CfB38_6107) 99232..101913 + 2682 WP_065945200 TraC family protein virb4

Host bacterium

ID   21007 GenBank   NZ_CP016764
Plasmid name   pOZ181 Incompatibility group   IncHI2
Plasmid size   277592 bp Coordinate of oriT [Strand]   32421..32675 [-]
Host baterium   Citrobacter freundii strain B38

Cargo genes

Drug resistance gene   dfrA1, aadA5, qacE, sul1, armA, msr(E), mph(E), aph(3')-Ia, formA
Virulence gene   -
Metal resistance gene   arsC, arsB, arsR, arsH, terW, terZ, terA, terB, terC, terD, terE, pcoS, pcoE, ncrC, rcnR/yohL
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -