Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   111345
Name   oriT_pET8.1-IncAC2 in_silico
Organism   Salmonella enterica subsp. enterica serovar Heidelberg strain SL-312
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP043215 (60092..60242 [-], 151 nt)
oriT length   151 nt
IRs (inverted repeats)      93..98, 106..111  (TGGCCT..AGGCCA)
 12..17, 24..29  (AACCCT..AGGGTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 151 nt

>oriT_pET8.1-IncAC2
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   7397 GenBank   WP_001326173
Name   mobH_FYA03_RS23640_pET8.1-IncAC2 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   8429 GenBank   WP_000637384
Name   traC_FYA03_RS23535_pET8.1-IncAC2 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.



ID   8430 GenBank   WP_000178857
Name   traD_FYA03_RS23635_pET8.1-IncAC2 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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 53068..62158

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FYA03_RS24980 (FYA03_23550) 48093..48458 - 366 Protein_55 LuxR family transcriptional regulator -
FYA03_RS23555 (FYA03_23555) 48715..49032 + 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
FYA03_RS23560 (FYA03_23560) 49029..49562 - 534 WP_001221666 lipocalin family protein -
FYA03_RS23565 (FYA03_23565) 49656..50801 - 1146 WP_000976514 extended-spectrum class C beta-lactamase CMY-2 -
FYA03_RS23570 (FYA03_23570) 51125..52387 - 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
FYA03_RS23575 (FYA03_23575) 52672..53064 - 393 WP_000479535 TraA family conjugative transfer protein -
FYA03_RS23580 (FYA03_23580) 53068..53646 - 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
FYA03_RS23585 (FYA03_23585) 53643..54956 - 1314 WP_024131605 TraB/VirB10 family protein traB
FYA03_RS23590 (FYA03_23590) 54956..55873 - 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
FYA03_RS23595 (FYA03_23595) 55857..56483 - 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
FYA03_RS23600 (FYA03_23600) 56480..56761 - 282 WP_000805625 type IV conjugative transfer system protein TraL traL
FYA03_RS23605 (FYA03_23605) 56906..57271 - 366 WP_001052530 hypothetical protein -
FYA03_RS24720 57283..57426 - 144 WP_001275801 hypothetical protein -
FYA03_RS23610 (FYA03_23610) 57607..58269 - 663 WP_001231464 hypothetical protein -
FYA03_RS23615 (FYA03_23615) 58269..58646 - 378 WP_000869297 hypothetical protein -
FYA03_RS23620 (FYA03_23620) 58656..59102 - 447 WP_000122507 hypothetical protein -
FYA03_RS23625 (FYA03_23625) 59112..59741 - 630 WP_000743449 DUF4400 domain-containing protein tfc7
FYA03_RS23630 (FYA03_23630) 59698..60243 - 546 WP_000228720 hypothetical protein -
FYA03_RS23635 (FYA03_23635) 60293..62158 - 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
FYA03_RS23640 (FYA03_23640) 62155..65127 - 2973 WP_001326173 MobH family relaxase -
FYA03_RS23645 (FYA03_23645) 65295..65912 + 618 WP_001249395 hypothetical protein -
FYA03_RS23650 (FYA03_23650) 65894..66127 + 234 WP_001191890 hypothetical protein -

Host bacterium

ID   11780 GenBank   NZ_CP043215
Plasmid name   pET8.1-IncAC2 Incompatibility group   IncA/C2
Plasmid size   165649 bp Coordinate of oriT [Strand]   60092..60242 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Heidelberg strain SL-312

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   merE, merD, merB, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -