Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104650
Name   oriT_pPmi70746_1 in_silico
Organism   Proteus mirabilis strain CCUG 70746
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP023274 (160238..160388 [-], 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_pPmi70746_1
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3335 GenBank   WP_001326173
Name   mobH_CLH65_RS19345_pPmi70746_1 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   3275 GenBank   WP_000637384
Name   traC_CLH65_RS19240_pPmi70746_1 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.



ID   3276 GenBank   WP_000178857
Name   traD_CLH65_RS19340_pPmi70746_1 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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 153214..162304

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CLH65_RS19995 (CLH65_19180) 148239..148604 - 366 Protein_172 LuxR family transcriptional regulator -
CLH65_RS19260 (CLH65_19185) 148861..149178 + 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
CLH65_RS19265 (CLH65_19190) 149175..149708 - 534 WP_001221666 lipocalin family protein -
CLH65_RS19270 (CLH65_19195) 149802..150947 - 1146 WP_014386387 class C beta-lactamase CMY-16 -
CLH65_RS19275 (CLH65_19200) 151271..152533 - 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
CLH65_RS19280 (CLH65_19205) 152818..153210 - 393 WP_000479535 TraA family conjugative transfer protein -
CLH65_RS19285 (CLH65_19210) 153214..153792 - 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
CLH65_RS19290 (CLH65_19215) 153789..155102 - 1314 WP_024131605 TraB/VirB10 family protein traB
CLH65_RS19295 (CLH65_19220) 155102..156019 - 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
CLH65_RS19300 (CLH65_19225) 156003..156629 - 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
CLH65_RS19305 (CLH65_19230) 156626..156907 - 282 WP_000805625 type IV conjugative transfer system protein TraL traL
CLH65_RS19310 (CLH65_19235) 157052..157417 - 366 WP_001052530 hypothetical protein -
CLH65_RS19775 157429..157572 - 144 WP_001275801 hypothetical protein -
CLH65_RS19315 (CLH65_19240) 157753..158415 - 663 WP_001231464 hypothetical protein -
CLH65_RS19320 (CLH65_19245) 158415..158792 - 378 WP_000869297 hypothetical protein -
CLH65_RS19780 159034..159210 - 177 WP_169342285 hypothetical protein -
CLH65_RS19330 (CLH65_19255) 159258..159887 - 630 WP_000743449 DUF4400 domain-containing protein tfc7
CLH65_RS19335 (CLH65_19260) 159844..160389 - 546 WP_000228720 hypothetical protein -
CLH65_RS19340 (CLH65_19265) 160439..162304 - 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
CLH65_RS19345 (CLH65_19270) 162301..165273 - 2973 WP_001326173 MobH family relaxase -
CLH65_RS19350 (CLH65_19275) 165441..166058 + 618 WP_001249395 hypothetical protein -
CLH65_RS19355 (CLH65_19280) 166040..166273 + 234 WP_001191890 hypothetical protein -

Host bacterium

ID   5089 GenBank   NZ_CP023274
Plasmid name   pPmi70746_1 Incompatibility group   IncA/C2
Plasmid size   191769 bp Coordinate of oriT [Strand]   160238..160388 [-]
Host baterium   Proteus mirabilis strain CCUG 70746

Cargo genes

Drug resistance gene   sul1, qacE, aadA2, dfrA12, mph(E), msr(E), armA, blaNDM-1, aph(3')-VI, ant(3'')-Ia, blaOXA-10, cmlA1, ARR-3, dfrA14, blaCMY-16, sul2, aph(3'')-Ib, aph(6)-Id, tet(A), floR
Virulence gene   -
Metal resistance gene   merT, merP, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -