Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104978
Name   oriT_pGPN1 in_silico
Organism   Klebsiella aerogenes strain G7
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP011540 (154913..155063 [+], 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_pGPN1
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3497 GenBank   WP_001337757
Name   mobH_EAG7_RS26735_pGPN1 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   3448 GenBank   WP_000178856
Name   traD_EAG7_RS26740_pGPN1 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   3449 GenBank   WP_000637386
Name   traC_EAG7_RS26815_pGPN1 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: 152997..173602

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
EAG7_RS26725 149022..149255 - 234 WP_001191892 hypothetical protein -
EAG7_RS26730 (EAG7_00138) 149237..149854 - 618 WP_001249396 hypothetical protein -
EAG7_RS26735 (EAG7_00139) 150022..153000 + 2979 WP_001337757 MobH family relaxase -
EAG7_RS26740 (EAG7_00140) 152997..154862 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
EAG7_RS26745 (EAG7_00141) 154912..155457 + 546 WP_000228720 hypothetical protein -
EAG7_RS26750 (EAG7_00142) 155414..156043 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
EAG7_RS26755 156053..156499 + 447 WP_000122506 hypothetical protein -
EAG7_RS26760 (EAG7_00143) 156509..156886 + 378 WP_000869261 hypothetical protein -
EAG7_RS26765 156886..157548 + 663 WP_001231463 hypothetical protein -
EAG7_RS29780 (EAG7_00144) 157729..157872 + 144 WP_001275801 hypothetical protein -
EAG7_RS26770 (EAG7_00145) 157884..158249 + 366 WP_001052531 hypothetical protein -
EAG7_RS26775 158394..158675 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
EAG7_RS26780 (EAG7_00146) 158672..159298 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
EAG7_RS26785 (EAG7_00147) 159282..160199 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
EAG7_RS26790 (EAG7_00148) 160199..161512 + 1314 WP_024131605 TraB/VirB10 family protein traB
EAG7_RS26795 161509..162087 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
EAG7_RS26800 (EAG7_00149) 162091..162483 + 393 WP_000479535 TraA family conjugative transfer protein -
EAG7_RS26805 (EAG7_00150) 162684..168215 + 5532 WP_000606833 Ig-like domain-containing protein -
EAG7_RS26810 (EAG7_00151) 168364..169071 + 708 WP_001259347 DsbC family protein -
EAG7_RS26815 (EAG7_00001) 169068..171515 + 2448 WP_000637386 type IV secretion system protein TraC virb4
EAG7_RS26820 (EAG7_00002) 171530..171847 + 318 WP_000351984 hypothetical protein -
EAG7_RS26825 (EAG7_00003) 171844..172374 + 531 WP_001010738 S26 family signal peptidase -
EAG7_RS26830 (EAG7_00004) 172337..173602 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW

Host bacterium

ID   5416 GenBank   NZ_CP011540
Plasmid name   pGPN1 Incompatibility group   IncA/C2
Plasmid size   174066 bp Coordinate of oriT [Strand]   154913..155063 [+]
Host baterium   Klebsiella aerogenes strain G7

Cargo genes

Drug resistance gene   sul1, qacE, ant(3'')-Ia, dfrA1, blaTEM-24, floR, sul2
Virulence gene   -
Metal resistance gene   merR, merT, merP, merC, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -