Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105426
Name   oriT1_p22448 in_silico
Organism   Salmonella enterica subsp. enterica serovar Anatum strain CVM 22448
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP051395 (10349..10453 [-], 105 nt)
oriT length   105 nt
IRs (inverted repeats)      56..61, 74..79  (TGGAAT..ATTCCA)
 46..51, 56..61  (ATTCCA..TGGAAT)
 1..6, 8..13  (AATTTG..CAAATT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 105 nt

>oriT1_p22448
AATTTGACAAATTCCAAAGATGGGTTAGCCTAGTGACAGAACTAGATTCCAGTATTGGAATAATCAGCTTTAAATTCCAGATAGATAGTTATGTGGATAGGAATT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3699 GenBank   WP_001326173
Name   mobH_HFQ94_RS22905_p22448 insolico UniProt ID   F5BPR1
Length   990 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 990 a.a.        Molecular weight: 109356.90 Da        Isoelectric Point: 4.9395

>WP_001326173.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSVRVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEVDDDQEEDVSALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGSTESSKPD
AGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPFDA
FSASAETASTDATNSEIPDVAMPGKQEKQPKQDFVPQEQNSLQGDDFPMFGSSDEPPSWAIEPLPMLTDA
PEQTTPAPAMPPTDKPNLHEKDAKTLLVEMLAGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILY
PDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDA
FELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKPSPEQKAKGKDSQPQQKEKKVDVTSPVEEPQRQ
PVQEKQNVARLPKREVQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSGVT
PQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKKRQ
GKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB F5BPR1


T4CP

ID   3685 GenBank   WP_000178857
Name   traD_HFQ94_RS22910_p22448 insolico UniProt ID   _
Length   621 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 621 a.a.        Molecular weight: 69225.71 Da        Isoelectric Point: 6.9403

>WP_000178857.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKVKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(170-299)

TraM recognition site of TraD and TraG (TraG-D_C)

(471-598)

  Protein structure



No available structure.



ID   3686 GenBank   WP_000637384
Name   traC_HFQ94_RS23005_p22448 insolico UniProt ID   _
Length   815 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 815 a.a.        Molecular weight: 92604.86 Da        Isoelectric Point: 5.9216

>WP_000637384.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSQGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRRQAA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(284-434)

TraC protein (TraC_F_IV)

(21-255)

TraG P-loop domain (P-loop_TraG)

(449-809)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 38186..47276

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HFQ94_RS22895 (HFQ94_22915) 34217..34450 - 234 WP_001191890 hypothetical protein -
HFQ94_RS22900 (HFQ94_22920) 34432..35049 - 618 WP_001249395 hypothetical protein -
HFQ94_RS22905 (HFQ94_22925) 35217..38189 + 2973 WP_001326173 MobH family relaxase -
HFQ94_RS22910 (HFQ94_22930) 38186..40051 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
HFQ94_RS22915 (HFQ94_22935) 40101..40646 + 546 WP_000228720 hypothetical protein -
HFQ94_RS22920 (HFQ94_22940) 40603..41232 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
HFQ94_RS22925 (HFQ94_22945) 41242..41688 + 447 WP_000122507 hypothetical protein -
HFQ94_RS22930 (HFQ94_22950) 41698..42075 + 378 WP_000869297 hypothetical protein -
HFQ94_RS22935 (HFQ94_22955) 42075..42737 + 663 WP_001231464 hypothetical protein -
HFQ94_RS22940 (HFQ94_22960) 43073..43438 + 366 WP_001052530 hypothetical protein -
HFQ94_RS22945 (HFQ94_22965) 43583..43864 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
HFQ94_RS22950 (HFQ94_22970) 43861..44487 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
HFQ94_RS22955 (HFQ94_22975) 44471..45388 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HFQ94_RS22960 (HFQ94_22980) 45388..46701 + 1314 WP_024131605 TraB/VirB10 family protein traB
HFQ94_RS22965 (HFQ94_22985) 46698..47276 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HFQ94_RS22970 (HFQ94_22990) 47280..47672 + 393 WP_000479535 TraA family conjugative transfer protein -
HFQ94_RS22975 (HFQ94_22995) 47957..49219 + 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
HFQ94_RS22980 (HFQ94_23000) 49543..50688 + 1146 WP_000976514 extended-spectrum class C beta-lactamase CMY-2 -
HFQ94_RS22985 (HFQ94_23005) 50782..51315 + 534 WP_001221666 lipocalin family protein -
HFQ94_RS22990 (HFQ94_23010) 51312..51629 - 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
HFQ94_RS23875 (HFQ94_23015) 51886..52251 + 366 Protein_69 LuxR family transcriptional regulator -

Host bacterium

ID   5864 GenBank   NZ_CP051395
Plasmid name   p22448 Incompatibility group   IncA/C2
Plasmid size   155923 bp Coordinate of oriT [Strand]   10349..10453 [-]; 40102..40252 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Anatum strain CVM 22448

Cargo genes

Drug resistance gene   tet(A), aph(6)-Id, aph(3'')-Ib, sul2, blaCMY-2, aph(3')-Ia, sul1, qacE, ant(3'')-Ia
Virulence gene   -
Metal resistance gene   merR, merT, merP, merA, merB, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -