Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   111041
Name   oriT_pVb1796 in_silico
Organism   Vibrio alginolyticus strain Vb1796
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MH113855 (50156..50306 [+], 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_pVb1796
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   7260 GenBank   WP_001326173
Name   mobH_HTS70_RS00345_pVb1796 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   8262 GenBank   WP_000178857
Name   traD_HTS70_RS00350_pVb1796 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   8263 GenBank   WP_000637386
Name   traC_HTS70_RS00430_pVb1796 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: 48240..73431

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTS70_RS00335 44271..44504 - 234 WP_001191890 hypothetical protein -
HTS70_RS00340 44486..45103 - 618 WP_001249395 hypothetical protein -
HTS70_RS00345 45271..48243 + 2973 WP_001326173 MobH family relaxase -
HTS70_RS00350 48240..50105 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
HTS70_RS00355 50116..50700 + 585 WP_000332868 hypothetical protein -
HTS70_RS00360 50657..51286 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
HTS70_RS00365 51296..51742 + 447 WP_172692927 hypothetical protein -
HTS70_RS00370 51752..52129 + 378 WP_000869261 hypothetical protein -
HTS70_RS00375 52129..52791 + 663 WP_001231463 hypothetical protein -
HTS70_RS00380 52972..53115 + 144 WP_001275801 hypothetical protein -
HTS70_RS00385 53127..53492 + 366 WP_001052531 hypothetical protein -
HTS70_RS00390 53637..53918 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
HTS70_RS00395 53915..54541 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
HTS70_RS00400 54525..55442 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HTS70_RS00405 55442..56755 + 1314 WP_024131605 TraB/VirB10 family protein traB
HTS70_RS00410 56752..57330 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HTS70_RS00415 57334..57726 + 393 WP_000479535 TraA family conjugative transfer protein -
HTS70_RS00420 57927..63458 + 5532 WP_000606833 Ig-like domain-containing protein -
HTS70_RS00425 63607..64314 + 708 WP_172692928 DsbC family protein -
HTS70_RS00430 64311..66758 + 2448 WP_000637386 type IV secretion system protein TraC virb4
HTS70_RS00435 66773..67090 + 318 WP_000351984 hypothetical protein -
HTS70_RS00440 67087..67617 + 531 WP_001010738 S26 family signal peptidase -
HTS70_RS00445 67580..68845 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
HTS70_RS00450 68842..69513 + 672 WP_001337754 EAL domain-containing protein -
HTS70_RS00455 69513..70517 + 1005 WP_043940352 TraU family protein traU
HTS70_RS00460 70633..73431 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
HTS70_RS00465 73470..74330 - 861 WP_000709517 hypothetical protein -
HTS70_RS00470 74453..75094 - 642 WP_000796664 hypothetical protein -
HTS70_RS00475 75388..75708 + 321 WP_000547566 hypothetical protein -
HTS70_RS00480 76012..76197 + 186 WP_001186917 hypothetical protein -
HTS70_RS00485 76417..77385 + 969 WP_000085162 AAA family ATPase -
HTS70_RS00490 77396..78304 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   11476 GenBank   NZ_MH113855
Plasmid name   pVb1796 Incompatibility group   IncA/C2
Plasmid size   163850 bp Coordinate of oriT [Strand]   50156..50306 [+]
Host baterium   Vibrio alginolyticus strain Vb1796

Cargo genes

Drug resistance gene   floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2, blaVMB-1, dfrA1, blaCARB-4, aac(6')-Ib-cr, qnrVC1, dfrA14, mph(A)
Virulence gene   -
Metal resistance gene   merE, merD, merB, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -