Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116278
Name   oriT_pPROV040-1 in_silico
Organism   Providencia sp. PROV040
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP120532 (18657..18807 [+], 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_pPROV040-1
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10413 GenBank   WP_001337757
Name   mobH_P3L40_RS24130_pPROV040-1 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   12155 GenBank   WP_000178856
Name   traD_P3L40_RS24135_pPROV040-1 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: 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   12156 GenBank   WP_000637386
Name   traC_P3L40_RS24220_pPROV040-1 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: 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: 16741..43546

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
P3L40_RS24120 (P3L40_24110) 12766..12999 - 234 WP_001191892 hypothetical protein -
P3L40_RS24125 (P3L40_24115) 12981..13598 - 618 WP_001249396 hypothetical protein -
P3L40_RS24130 (P3L40_24120) 13766..16744 + 2979 WP_001337757 MobH family relaxase -
P3L40_RS24135 (P3L40_24125) 16741..18606 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
P3L40_RS24140 (P3L40_24130) 18656..19201 + 546 WP_000228720 hypothetical protein -
P3L40_RS24145 (P3L40_24135) 19158..19787 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
P3L40_RS24150 (P3L40_24140) 19835..20011 + 177 WP_169342285 hypothetical protein -
P3L40_RS24155 (P3L40_24145) 20253..20630 + 378 WP_000869261 hypothetical protein -
P3L40_RS24160 (P3L40_24150) 20630..21292 + 663 WP_001231463 hypothetical protein -
P3L40_RS24165 (P3L40_24155) 21473..21616 + 144 WP_001275801 hypothetical protein -
P3L40_RS24170 (P3L40_24160) 21628..21993 + 366 WP_001052531 hypothetical protein -
P3L40_RS24175 (P3L40_24165) 22111..23550 - 1440 WP_136135613 IS1182 family transposase -
P3L40_RS24180 (P3L40_24170) 23752..24033 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
P3L40_RS24185 (P3L40_24175) 24030..24656 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
P3L40_RS24190 (P3L40_24180) 24640..25557 + 918 WP_096043119 type-F conjugative transfer system secretin TraK traK
P3L40_RS24195 (P3L40_24185) 25557..26870 + 1314 WP_024131605 TraB/VirB10 family protein traB
P3L40_RS24200 (P3L40_24190) 26867..27445 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
P3L40_RS24205 (P3L40_24195) 27449..27841 + 393 WP_000479535 TraA family conjugative transfer protein -
P3L40_RS24210 (P3L40_24200) 28042..33573 + 5532 WP_085281193 Ig-like domain-containing protein -
P3L40_RS24215 (P3L40_24205) 33722..34429 + 708 WP_001259347 DsbC family protein -
P3L40_RS24220 (P3L40_24210) 34426..36873 + 2448 WP_000637386 type IV secretion system protein TraC virb4
P3L40_RS24225 (P3L40_24215) 36888..37205 + 318 WP_000351984 hypothetical protein -
P3L40_RS24230 (P3L40_24220) 37202..37732 + 531 WP_001010738 S26 family signal peptidase -
P3L40_RS24235 (P3L40_24225) 37695..38960 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
P3L40_RS24240 (P3L40_24230) 38957..39628 + 672 WP_001337754 EAL domain-containing protein -
P3L40_RS24245 (P3L40_24235) 39628..40632 + 1005 WP_043940352 TraU family protein traU
P3L40_RS24250 (P3L40_24240) 40736..43546 + 2811 WP_001909286 conjugal transfer mating pair stabilization protein TraN traN
P3L40_RS24255 (P3L40_24245) 43585..44226 - 642 WP_223854615 hypothetical protein -
P3L40_RS24260 (P3L40_24250) 44568..45209 - 642 WP_000796664 hypothetical protein -
P3L40_RS24265 (P3L40_24255) 45503..45823 + 321 WP_000547566 hypothetical protein -
P3L40_RS24270 (P3L40_24260) 46127..46312 + 186 WP_001186917 hypothetical protein -
P3L40_RS24275 (P3L40_24265) 46532..47500 + 969 WP_000085162 AAA family ATPase -
P3L40_RS24280 (P3L40_24270) 47511..48419 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   16711 GenBank   NZ_CP120532
Plasmid name   pPROV040-1 Incompatibility group   IncA/C2
Plasmid size   173100 bp Coordinate of oriT [Strand]   18657..18807 [+]
Host baterium   Providencia sp. PROV040

Cargo genes

Drug resistance gene   blaCTX-M-14, floR, tet(G), rmtB, aph(3')-Ia, aadA2, dfrA12, aac(3)-IId, blaTEM-1B, aph(6)-Id, aph(3'')-Ib, sul2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -