Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102190
Name   oriT_pincAC2 in_silico
Organism   Vibrio parahaemolyticus strain 16-B3PA-006
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_PETB01000002 (75609..75759 [+], 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_pincAC2
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1696 GenBank   WP_001326173
Name   mobH_CTT36_RS00565_pincAC2 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   1298 GenBank   WP_000178857
Name   traD_CTT36_RS00570_pincAC2 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   1299 GenBank   WP_000637384
Name   traC_CTT36_RS00645_pincAC2 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: 73693..98836

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CTT36_RS00555 (CTT36_00555) 69724..69957 - 234 WP_001191890 hypothetical protein -
CTT36_RS00560 (CTT36_00560) 69939..70556 - 618 WP_001249395 hypothetical protein -
CTT36_RS00565 (CTT36_00565) 70724..73696 + 2973 WP_001326173 MobH family relaxase -
CTT36_RS00570 (CTT36_00570) 73693..75558 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
CTT36_RS00575 (CTT36_00575) 75608..76153 + 546 WP_000228720 hypothetical protein -
CTT36_RS00580 (CTT36_00580) 76110..76739 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
CTT36_RS25840 76787..76963 + 177 WP_169342285 hypothetical protein -
CTT36_RS00590 (CTT36_00590) 77205..77582 + 378 WP_000869297 hypothetical protein -
CTT36_RS00595 (CTT36_00595) 77582..78244 + 663 WP_001231464 hypothetical protein -
CTT36_RS25845 78425..78568 + 144 WP_001275801 hypothetical protein -
CTT36_RS00600 (CTT36_00600) 78580..78945 + 366 WP_001052530 hypothetical protein -
CTT36_RS00605 (CTT36_00605) 79090..79371 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
CTT36_RS00610 (CTT36_00610) 79368..79994 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
CTT36_RS00615 (CTT36_00615) 79978..80895 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
CTT36_RS00620 (CTT36_00620) 80895..82208 + 1314 WP_024131605 TraB/VirB10 family protein traB
CTT36_RS00625 (CTT36_00625) 82205..82783 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
CTT36_RS00630 (CTT36_00630) 82787..83179 + 393 WP_000479535 TraA family conjugative transfer protein -
CTT36_RS00635 (CTT36_00635) 83380..88866 + 5487 WP_000606835 Ig-like domain-containing protein -
CTT36_RS00640 (CTT36_00640) 89015..89722 + 708 WP_001259346 DsbC family protein -
CTT36_RS00645 (CTT36_00645) 89719..92166 + 2448 WP_000637384 type IV secretion system protein TraC virb4
CTT36_RS00650 (CTT36_00650) 92181..92498 + 318 WP_000351984 hypothetical protein -
CTT36_RS00655 (CTT36_00655) 92495..93025 + 531 WP_001010740 S26 family signal peptidase -
CTT36_RS00660 (CTT36_00660) 92988..94253 + 1266 WP_001447719 TrbC family F-type conjugative pilus assembly protein traW
CTT36_RS00665 (CTT36_00665) 94250..94921 + 672 WP_000575345 EAL domain-containing protein -
CTT36_RS00670 (CTT36_00670) 94921..95925 + 1005 WP_005507569 TraU family protein traU
CTT36_RS00675 (CTT36_00675) 96041..98836 + 2796 WP_001256484 conjugal transfer mating pair stabilization protein TraN traN
CTT36_RS00680 (CTT36_00680) 98875..99735 - 861 WP_000709517 hypothetical protein -
CTT36_RS00685 (CTT36_00685) 99857..100498 - 642 WP_000796664 hypothetical protein -
CTT36_RS00690 (CTT36_00690) 100793..101113 + 321 WP_000547566 hypothetical protein -
CTT36_RS00695 (CTT36_00695) 101417..101602 + 186 WP_001186917 hypothetical protein -
CTT36_RS00700 (CTT36_00700) 101822..102790 + 969 WP_000085160 AAA family ATPase -
CTT36_RS00705 (CTT36_00705) 102801..103709 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   2634 GenBank   NZ_PETB01000002
Plasmid name   pincAC2 Incompatibility group   IncA/C2
Plasmid size   128081 bp Coordinate of oriT [Strand]   75609..75759 [+]
Host baterium   Vibrio parahaemolyticus strain 16-B3PA-006

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -