Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   111040
Name   oriT_pVb0267 in_silico
Organism   Vibrio parahaemolyticus strain Vb0267
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MF627444 (47529..47679 [+], 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_pVb0267
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   7259 GenBank   WP_001326173
Name   mobH_HTP84_RS00340_pVb0267 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   8260 GenBank   WP_000178857
Name   traD_HTP84_RS00345_pVb0267 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   8261 GenBank   WP_000637384
Name   traC_HTP84_RS00430_pVb0267 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: 45613..72586

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTP84_RS00330 41644..41877 - 234 WP_001191890 hypothetical protein -
HTP84_RS00335 41859..42476 - 618 WP_001249395 hypothetical protein -
HTP84_RS00340 42644..45616 + 2973 WP_001326173 MobH family relaxase -
HTP84_RS00345 45613..47478 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
HTP84_RS00350 47489..48073 + 585 WP_000332868 hypothetical protein -
HTP84_RS00355 48030..48659 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
HTP84_RS00360 48669..49115 + 447 WP_000122507 hypothetical protein -
HTP84_RS00365 49125..49502 + 378 WP_000869297 hypothetical protein -
HTP84_RS00370 49502..50164 + 663 WP_001231464 hypothetical protein -
HTP84_RS00375 50345..50488 + 144 WP_001275801 hypothetical protein -
HTP84_RS00380 50500..50865 + 366 WP_001052530 hypothetical protein -
HTP84_RS00385 51010..51291 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
HTP84_RS00390 51288..51914 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
HTP84_RS00395 51898..52815 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HTP84_RS00400 52815..54128 + 1314 WP_024131605 TraB/VirB10 family protein traB
HTP84_RS00405 54125..54703 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HTP84_RS00410 54707..55099 + 393 WP_000479535 TraA family conjugative transfer protein -
HTP84_RS00415 55533..56900 + 1368 WP_172692054 group II intron reverse transcriptase/maturase -
HTP84_RS00420 57130..62616 + 5487 WP_000606835 Ig-like domain-containing protein -
HTP84_RS00425 62765..63472 + 708 WP_001259346 DsbC family protein -
HTP84_RS00430 63469..65916 + 2448 WP_000637384 type IV secretion system protein TraC virb4
HTP84_RS00435 65931..66248 + 318 WP_000351984 hypothetical protein -
HTP84_RS00440 66245..66775 + 531 WP_001010740 S26 family signal peptidase -
HTP84_RS00445 66738..68003 + 1266 WP_001447719 TrbC family F-type conjugative pilus assembly protein traW
HTP84_RS00450 68000..68671 + 672 WP_000575345 EAL domain-containing protein -
HTP84_RS00455 68671..69675 + 1005 WP_005507569 TraU family protein traU
HTP84_RS00460 69791..72586 + 2796 WP_001256484 conjugal transfer mating pair stabilization protein TraN traN
HTP84_RS00465 72625..73485 - 861 WP_000709517 hypothetical protein -
HTP84_RS00470 73608..74249 - 642 WP_000796664 hypothetical protein -
HTP84_RS00475 74544..74864 + 321 WP_000547566 hypothetical protein -
HTP84_RS00480 75168..75353 + 186 WP_001186917 hypothetical protein -
HTP84_RS00485 75573..76541 + 969 WP_000085160 AAA family ATPase -
HTP84_RS00490 76552..77460 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   11475 GenBank   NZ_MF627444
Plasmid name   pVb0267 Incompatibility group   IncA/C2
Plasmid size   166467 bp Coordinate of oriT [Strand]   47529..47679 [+]
Host baterium   Vibrio parahaemolyticus strain Vb0267

Cargo genes

Drug resistance gene   ant(2'')-Ia, ARR-3, cmlA1, blaOXA-10, ant(3'')-Ia, qacE, sul1, catA2, blaCTX-M-55, floR, tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -