Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114049
Name   oriT_p104486766-qnrVF1 in_silico
Organism   Vibrio furnissii strain 104486766
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP100424 (73898..74048 [+], 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_p104486766-qnrVF1
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9027 GenBank   WP_001337757
Name   mobH_NIN90_RS24035_p104486766-qnrVF1 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   10457 GenBank   WP_000178856
Name   traD_NIN90_RS24040_p104486766-qnrVF1 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   10458 GenBank   WP_000637386
Name   traC_NIN90_RS24125_p104486766-qnrVF1 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: 71982..98487

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NIN90_RS24025 68007..68240 - 234 WP_001191892 hypothetical protein -
NIN90_RS24030 68222..68839 - 618 WP_001249396 hypothetical protein -
NIN90_RS24035 69007..71985 + 2979 WP_001337757 MobH family relaxase -
NIN90_RS24040 71982..73847 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
NIN90_RS24045 73897..74442 + 546 WP_000228720 hypothetical protein -
NIN90_RS24050 74399..75028 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
NIN90_RS24055 75038..75484 + 447 WP_000122506 hypothetical protein -
NIN90_RS24060 75494..75871 + 378 WP_000869261 hypothetical protein -
NIN90_RS24065 75942..76532 + 591 WP_002210536 hypothetical protein -
NIN90_RS24070 76609..77820 + 1212 WP_191694817 IS256 family transposase -
NIN90_RS24075 78028..78171 + 144 WP_001275801 hypothetical protein -
NIN90_RS24080 78183..78548 + 366 WP_001052531 hypothetical protein -
NIN90_RS24085 78693..78974 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
NIN90_RS24090 78971..79597 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
NIN90_RS24095 79581..80498 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
NIN90_RS24100 80498..81811 + 1314 WP_024131605 TraB/VirB10 family protein traB
NIN90_RS24105 81808..82386 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
NIN90_RS24110 82390..82782 + 393 WP_000479535 TraA family conjugative transfer protein -
NIN90_RS24115 82983..88514 + 5532 WP_000606833 Ig-like domain-containing protein -
NIN90_RS24120 88663..89370 + 708 WP_001259347 DsbC family protein -
NIN90_RS24125 89367..91814 + 2448 WP_000637386 type IV secretion system protein TraC virb4
NIN90_RS24130 91829..92146 + 318 WP_000351984 hypothetical protein -
NIN90_RS24135 92143..92673 + 531 WP_001010738 S26 family signal peptidase -
NIN90_RS24140 92636..93901 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
NIN90_RS24145 93898..94569 + 672 WP_001337754 EAL domain-containing protein -
NIN90_RS24150 94569..95573 + 1005 WP_043940352 TraU family protein traU
NIN90_RS24155 95689..98487 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
NIN90_RS24160 98526..99386 - 861 WP_000709517 hypothetical protein -
NIN90_RS24165 99509..100150 - 642 WP_000796664 hypothetical protein -
NIN90_RS24170 100444..100764 + 321 WP_000547566 hypothetical protein -
NIN90_RS24175 101068..101253 + 186 WP_001186917 hypothetical protein -
NIN90_RS24180 101473..102441 + 969 WP_000085162 AAA family ATPase -
NIN90_RS24185 102452..103360 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   14484 GenBank   NZ_CP100424
Plasmid name   p104486766-qnrVF1 Incompatibility group   IncA/C2
Plasmid size   198507 bp Coordinate of oriT [Strand]   73898..74048 [+]
Host baterium   Vibrio furnissii strain 104486766

Cargo genes

Drug resistance gene   aac(3)-IId, tet(D), floR, sul2, ARR-3, dfrA27, qacE, sul1, blaPER-1, mph(A)
Virulence gene   -
Metal resistance gene   merE, merD, merB, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -