Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106110
Name   oriT_pZN3-tetX-171kb in_silico
Organism   Proteus vulgaris strain ZN3
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP047345 (89198..89348 [+], 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_pZN3-tetX-171kb
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4095 GenBank   WP_001337757
Name   mobH_GTH24_RS20715_pZN3-tetX-171kb 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   4109 GenBank   WP_000178856
Name   traD_GTH24_RS20720_pZN3-tetX-171kb 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   4110 GenBank   WP_000637386
Name   traC_GTH24_RS20800_pZN3-tetX-171kb 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: 87282..112473

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
GTH24_RS20705 (GTH24_20535) 83307..83540 - 234 WP_001191892 hypothetical protein -
GTH24_RS20710 (GTH24_20540) 83522..84139 - 618 WP_001249396 hypothetical protein -
GTH24_RS20715 (GTH24_20545) 84307..87285 + 2979 WP_001337757 MobH family relaxase -
GTH24_RS20720 (GTH24_20550) 87282..89147 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
GTH24_RS20725 (GTH24_20555) 89197..89742 + 546 WP_000228720 hypothetical protein -
GTH24_RS20730 (GTH24_20560) 89699..90328 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
GTH24_RS22040 90376..90552 + 177 WP_169342285 hypothetical protein -
GTH24_RS20740 (GTH24_20570) 90794..91171 + 378 WP_000869261 hypothetical protein -
GTH24_RS20745 (GTH24_20575) 91171..91833 + 663 WP_001231463 hypothetical protein -
GTH24_RS20750 92014..92157 + 144 WP_001275801 hypothetical protein -
GTH24_RS20755 (GTH24_20580) 92169..92534 + 366 WP_001052531 hypothetical protein -
GTH24_RS20760 (GTH24_20585) 92679..92960 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
GTH24_RS20765 (GTH24_20590) 92957..93583 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
GTH24_RS20770 (GTH24_20595) 93567..94484 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
GTH24_RS20775 (GTH24_20600) 94484..95797 + 1314 WP_024131605 TraB/VirB10 family protein traB
GTH24_RS20780 (GTH24_20605) 95794..96372 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
GTH24_RS20785 (GTH24_20610) 96376..96768 + 393 WP_000479535 TraA family conjugative transfer protein -
GTH24_RS20790 (GTH24_20615) 96969..102500 + 5532 WP_000606833 Ig-like domain-containing protein -
GTH24_RS20795 (GTH24_20620) 102649..103356 + 708 WP_001259347 DsbC family protein -
GTH24_RS20800 (GTH24_20625) 103353..105800 + 2448 WP_000637386 type IV secretion system protein TraC virb4
GTH24_RS20805 (GTH24_20630) 105815..106132 + 318 WP_000351984 hypothetical protein -
GTH24_RS20810 (GTH24_20635) 106129..106659 + 531 WP_001010738 S26 family signal peptidase -
GTH24_RS20815 (GTH24_20640) 106622..107887 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
GTH24_RS20820 (GTH24_20645) 107884..108555 + 672 WP_001337754 EAL domain-containing protein -
GTH24_RS20825 (GTH24_20650) 108555..109559 + 1005 WP_043940352 TraU family protein traU
GTH24_RS20830 (GTH24_20655) 109675..112473 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
GTH24_RS20835 (GTH24_20660) 112512..113372 - 861 WP_000709517 hypothetical protein -
GTH24_RS20840 (GTH24_20665) 113495..114136 - 642 WP_000796664 hypothetical protein -
GTH24_RS20845 (GTH24_20670) 114430..114750 + 321 WP_000547566 hypothetical protein -
GTH24_RS20850 (GTH24_20675) 115054..115239 + 186 WP_001186917 hypothetical protein -
GTH24_RS20855 (GTH24_20680) 115459..116427 + 969 WP_000085162 AAA family ATPase -
GTH24_RS20860 (GTH24_20685) 116438..117346 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   6547 GenBank   NZ_CP047345
Plasmid name   pZN3-tetX-171kb Incompatibility group   IncA/C2
Plasmid size   171206 bp Coordinate of oriT [Strand]   89198..89348 [+]
Host baterium   Proteus vulgaris strain ZN3

Cargo genes

Drug resistance gene   aph(3')-Ia, aac(3)-IId, blaTEM-1B, aph(6)-Id, aph(3'')-Ib, tet(X6), floR, sul2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -