Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106334
Name   oriT_2014V-1011|unnamed2 in_silico
Organism   Vibrio alginolyticus strain 2014V-1011
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP046773 (23458..23608 [+], 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_2014V-1011|unnamed2
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4236 GenBank   WP_001337757
Name   mobH_GPY59_RS24625_2014V-1011|unnamed2 insolico UniProt ID   A0A709FRI2
Length   992 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 992 a.a.        Molecular weight: 109581.85 Da        Isoelectric Point: 4.8956

>WP_001337757.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
DAFELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKPVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREDPEVREFEPPKAKTNPKDINAEDFLPSG
VTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKK
RQGKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB A0A709FRI2


T4CP

ID   4256 GenBank   WP_000178856
Name   traD_GPY59_RS24630_2014V-1011|unnamed2 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: 69197.66 Da        Isoelectric Point: 6.9403

>WP_000178856.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKAKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  Protein domains


Predicted by InterproScan.

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

(471-598)

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

(170-297)

  Protein structure



No available structure.



ID   4257 GenBank   WP_000637386
Name   traC_GPY59_RS24705_2014V-1011|unnamed2 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: 92590.87 Da        Isoelectric Point: 5.9222

>WP_000637386.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTERIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSKGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRQQAA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(449-809)

Family of unknown function (DUF5934) (DUF5934)

(284-434)

TraC protein (TraC_F_IV)

(21-255)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 21542..46733

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
GPY59_RS24615 17567..17800 - 234 WP_001191892 hypothetical protein -
GPY59_RS24620 17782..18399 - 618 WP_001249396 hypothetical protein -
GPY59_RS24625 18567..21545 + 2979 WP_001337757 MobH family relaxase -
GPY59_RS24630 21542..23407 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
GPY59_RS24635 23418..24002 + 585 WP_000332866 hypothetical protein -
GPY59_RS24640 23959..24588 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
GPY59_RS26150 24636..24812 + 177 WP_169342285 hypothetical protein -
GPY59_RS24650 25054..25431 + 378 WP_000869261 hypothetical protein -
GPY59_RS24655 25431..26093 + 663 WP_001231463 hypothetical protein -
GPY59_RS26155 26274..26417 + 144 WP_001275801 hypothetical protein -
GPY59_RS24660 26429..26794 + 366 WP_001052531 hypothetical protein -
GPY59_RS24665 26939..27220 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
GPY59_RS24670 27217..27843 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
GPY59_RS24675 27827..28744 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
GPY59_RS24680 28744..30057 + 1314 WP_024131605 TraB/VirB10 family protein traB
GPY59_RS24685 30054..30632 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
GPY59_RS24690 30636..31028 + 393 WP_000479535 TraA family conjugative transfer protein -
GPY59_RS24695 31229..36760 + 5532 WP_000606833 Ig-like domain-containing protein -
GPY59_RS24700 36909..37616 + 708 WP_001259347 DsbC family protein -
GPY59_RS24705 37613..40060 + 2448 WP_000637386 type IV secretion system protein TraC virb4
GPY59_RS24710 40075..40392 + 318 WP_000351984 hypothetical protein -
GPY59_RS24715 40389..40919 + 531 WP_001010738 S26 family signal peptidase -
GPY59_RS24720 40882..42147 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
GPY59_RS24725 42144..42815 + 672 WP_001337754 EAL domain-containing protein -
GPY59_RS24730 42815..43819 + 1005 WP_043940352 TraU family protein traU
GPY59_RS24735 43935..46733 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
GPY59_RS24740 46772..47632 - 861 WP_000709517 hypothetical protein -
GPY59_RS24745 47755..48396 - 642 WP_000796664 hypothetical protein -
GPY59_RS24750 48690..49010 + 321 WP_000547566 hypothetical protein -
GPY59_RS24755 49314..49499 + 186 WP_001186917 hypothetical protein -
GPY59_RS24760 49719..50687 + 969 WP_000085162 AAA family ATPase -
GPY59_RS24765 50698..51606 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   6771 GenBank   NZ_CP046773
Plasmid name   2014V-1011|unnamed2 Incompatibility group   IncA/C2
Plasmid size   131705 bp Coordinate of oriT [Strand]   23458..23608 [+]
Host baterium   Vibrio alginolyticus strain 2014V-1011

Cargo genes

Drug resistance gene   sul2, aph(3')-Ia, sul1, qacE, dfrA15
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -