Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100041
Name   oriT_pBS228 in_silico
Organism   Pseudomonas aeruginosa
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_008357 (80181..80292 [+], 112 nt)
oriT length   112 nt
IRs (inverted repeats)      60..78, 81..99  (GTGAAGAAGGAACACCCGC.. GCGGGTGGGCCTACTTCAC)
Location of nic site      107..108
Conserved sequence flanking the
  nic site    		  TATCCTG|C
Note   identical to the oriT of RK2

  oriT sequence  


Download         Length: 112 nt

>oriT_pBS228
CCGGCCAGCCTCGCAGAGCAGGATTCCCGTTGAGCACCGCCAGGTGCGAATAAGGGACAGTGAAGAAGGAACACCCGCTCGCGGGTGGGCCTACTTCACCTATCCTGCCCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file

  Reference


[1] Haines AS et al. (2007) Sequence of plasmid pBS228 and reconstruction of the IncP-1alpha phylogeny. Plasmid. 58(1):76-83. [PMID:17320955]


Relaxase

ID   39 GenBank   YP_758719
Name   TraI_pBS228 insolico UniProt ID   Q0E689
Length   732 a.a. PDB ID   
Note   conjugal transfer relaxase TraI

  Relaxase protein sequence


Download         Length: 732 a.a.        Molecular weight: 81563.20 Da        Isoelectric Point: 10.5791

>YP_758719.1 conjugal transfer relaxase TraI (plasmid) [Pseudomonas aeruginosa]
MIAKHVPMRSIKKSDFAELVKYITDEQGKTERLGHVRVTNCEANTLPAVMAEVMATQHGNTRSEADKTYH
LLVSFRAGEKPDAETLRAIEDRICAGLGFAEHQRVSAVHHDTDNLHIHIAINKIHPTRNTIHEPYRAYRA
LADLCATLERDYGLERDNHETRQRVSENRANDMERHAGVESLVGWIKRECLPELQAAQSWEDLHRVLREN
GLKLRERGNGFIFEAGDGTTVKASTVSRDLSKPKLEARFGAFTPAEGGEAPRRREYRAKPLKTRIDTTEL
YARYQSERQEMGAVRKGELDTLRRRRDRLIEAAMRSNRLRRAAIKLLGEGRIAKRLMYAQAHKALRADLD
KINREYRQGRQAVQERTQRRAWADWLKAEAMKGDDKALAALRAREGRSDLKGNTIQGSGEAKPGHAAVTD
NITKKGTIIYRVGSSAVRDDGDRLQVSREATTDGLDAALRLAMERFGDRITVNGTAEFKERIAQAAAAGR
LAITFDDAALERRRQELLTKEQAHEQPERNDGRRDRGGDGGIRPAAARTTLNATGGDGDRRDARAVSAGG
TVALRKPNVGRIGRKPPPQSQNRLRALSQLGVVRIAGGAEMLLPRDVPGHVEQQGAEPAHALRRGVSGPG
RGLKPEQIAAAEKYVAEREQKRLNGFDIPKHARYTDYVGALSYAGTRNVEDQALALLRKENDEILVLPVD
KATVQRMKRLAIGDPVTVTPRGSLKTTRGRSR

  Protein domains


Predicted by InterproScan.

Large polyvalent protein-associated domain 7 (LPD7)

(417-507)

Relaxase/Mobilisation nuclease domain (Relaxase)

(12-250)


  Protein structure


Source ID Structure
AlphaFold DB Q0E689

  Reference


[1] Haines AS et al. (2007) Sequence of plasmid pBS228 and reconstruction of the IncP-1alpha phylogeny. Plasmid. 58(1):76-83. [PMID:17320955]


Auxiliary protein

ID   63 GenBank   YP_758720
Name   TraH_pBS228 insolico UniProt ID   Q0E688
Length   119 a.a. PDB ID   _
Note   relaxosome stabilisation

  Auxiliary protein sequence


Download         Length: 119 a.a.        Molecular weight: 12869.28 Da        Isoelectric Point: 4.1047

>YP_758720.1 TraH protein (plasmid) [Pseudomonas aeruginosa]
MSNPNEMTDEEIAAAMEAFDLPQPEPPSTPQAATATDGTLAPSAPAEPSHSASPTLDALDESRRPKAKTV
CERCPNSVWFASPAELKCYCRVMFLVTWSSKEPNQLTHCDGEFLGQEEG

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB Q0E688

ID   64 GenBank   YP_758722
Name   TraJ_pBS228 insolico UniProt ID   Q0E686
Length   123 a.a. PDB ID   _
Note   conjugal transfer relaxosome component TraJ

  Auxiliary protein sequence


Download         Length: 123 a.a.        Molecular weight: 13463.65 Da        Isoelectric Point: 7.9867

>YP_758722.1 conjugal transfer relaxosome component TraJ (plasmid) [Pseudomonas aeruginosa]
MADETKPTRKGSPPIKVYCLPDERRAIEEKAAAAGMSLSAYLLAVGQGYKITGVVDYEHVRELARINGDL
GRLGGLLKLWLTDDPRTARFGDATILALLAKIEEKQDELGKVMMGVVRPRAEP

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB Q0E686

ID   65 GenBank   YP_758723
Name   TraK_pBS228 insolico UniProt ID   Q0E685
Length   134 a.a. PDB ID   _
Note   TraK oriT binding protein

  Auxiliary protein sequence


Download         Length: 134 a.a.        Molecular weight: 14716.82 Da        Isoelectric Point: 10.5082

>YP_758723.1 TraK oriT binding protein (plasmid) [Pseudomonas aeruginosa]
MPKSYTDELAEWVESRAAKKRRRDEAAVAFLAVRADVEAALASGYALVTIWEHMRETGKVKFSYETFRSH
ARRHIKAKPADVPAPQAKAAEPAPAPKTPEPRRPKQGGKAEKPAPAAAPTGFTFNPTPDKKDLL

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5338) (DUF5338)

(7-74)


  Protein structure


Source ID Structure
AlphaFold DB Q0E685


T4CP

ID   39 GenBank   YP_758718
Name   TraG_pBS228 insolico UniProt ID   Q0E690
Length   635 a.a. PDB ID   _
Note   conjugal transfer coupling protein TraG

  T4CP protein sequence


Download         Length: 635 a.a.        Molecular weight: 69857.88 Da        Isoelectric Point: 9.1256

>YP_758718.1 conjugal transfer coupling protein TraG (plasmid) [Pseudomonas aeruginosa]
MKNRNNAVGPQIRAKKPKASKTVPILAGLSLGAGLQTATQYFAHSFQYQAGLGWNINHVYTPWSILQWAG
KWYGQYPDDFMRAASMGMVVSTVGLLGTAVTQMVKANTGKANDYLHGSARWADKKDIQAAGLLPRPRTVV
ELVSGKHPPTSSGVYVGGWQDKDGKFHYLRHNGPEHVLTYAPTRSGKGVGLVVPTLLSWAHSAVITDLKG
ELWALTAGWRKKHARNKVVRFEPASAQGSACWNPLDEIRLGTEYEVGDVQNLATLIVDPDGKGLESHWQK
TSQALLVGVILHALYKAKNEGTPATLPSVDGMLADPNRDVGELWMEMTTYGHVDGQNHPAVGSAARDMMD
RPEEESGSVLSTAKSYLALYRDPVVARNVSKSDFRIKQLMHHDDPVSLFIVTQPNDKARLRPLVRVMVNM
IVRLLADKMDFENGRPVAHYKHRLLMMLDEFPSLGKLEILQESLAFVAGYGIKCYLICQDINQLKSRETG
YGHDESITSNCHVQNAYPPNRVETAEHLSKLTGTTTIVKEQITTSGRRTSALLGNVSRTFQEVQRPLLTP
DECLRMPGPKKSADGSIEEAGDMVVYVAGYPAIYGKQPLYFKDPIFQARAAVPAPKVSDKLIQTATVEEG
EGITI

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(120-621)

  Protein structure


Source ID Structure
AlphaFold DB Q0E690


Host bacterium

ID   39 GenBank   NC_008357
Plasmid name   pBS228 Incompatibility group   IncP1
Plasmid size   89147 bp Coordinate of oriT [Strand]   80181..80292 [+]
Host baterium   Pseudomonas aeruginosa

Cargo genes

Drug resistance gene   blaTEM-2, tet(A), ant(3'')-Ia, dfrA1
Virulence gene   -
Metal resistance gene   klaC/telB, klaB/telA/kilB, merR2, merB, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA9