Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107979
Name   oriT_pCAVP496-239 in_silico
Organism   Providencia stuartii strain CAVP496
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP119541 (57951..58101 [+], 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_pCAVP496-239
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5353 GenBank   WP_282555309
Name   mobH_P2E04_RS20425_pCAVP496-239 insolico UniProt ID   _
Length   1014 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1014 a.a.        Molecular weight: 112215.06 Da        Isoelectric Point: 5.0337

>WP_282555309.1 MULTISPECIES: MobH family relaxase [Providencia]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
DAFELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKPVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREDPEVREFEPPKAKTNPKDINAEDFLPSG
VTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKK
RQGKLYLEVNETWQWVMTRSPTRCRGGPTMKKML

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure



No available structure.




T4CP

ID   5643 GenBank   WP_000178856
Name   traD_P2E04_RS20430_pCAVP496-239 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   5644 GenBank   WP_000637386
Name   traC_P2E04_RS20510_pCAVP496-239 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: 56035..81226

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
P2E04_RS20415 (P2E04_20415) 52060..52293 - 234 WP_001191892 hypothetical protein -
P2E04_RS20420 (P2E04_20420) 52275..52892 - 618 WP_001249396 hypothetical protein -
P2E04_RS20425 (P2E04_20425) 53060..56038 + 2979 WP_001337757 MobH family relaxase -
P2E04_RS20430 (P2E04_20430) 56035..57900 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
P2E04_RS22065 (P2E04_20435) 57950..58495 + 546 WP_000228720 hypothetical protein -
P2E04_RS20440 (P2E04_20440) 58452..59081 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
P2E04_RS22070 (P2E04_20445) 59129..59305 + 177 WP_169342285 hypothetical protein -
P2E04_RS20450 (P2E04_20450) 59547..59924 + 378 WP_000869261 hypothetical protein -
P2E04_RS20455 (P2E04_20455) 59924..60586 + 663 WP_001231463 hypothetical protein -
P2E04_RS20460 (P2E04_20460) 60767..60910 + 144 WP_001275801 hypothetical protein -
P2E04_RS20465 (P2E04_20465) 60922..61287 + 366 WP_001052531 hypothetical protein -
P2E04_RS20470 (P2E04_20470) 61432..61713 + 282 WP_000805625 type IV conjugative transfer system protein TraL -
P2E04_RS20475 (P2E04_20475) 61710..62336 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
P2E04_RS20480 (P2E04_20480) 62320..63237 + 918 WP_000794249 type-F conjugative transfer system secretin TraK -
P2E04_RS20485 (P2E04_20485) 63237..64550 + 1314 WP_024131605 TraB/VirB10 family protein -
P2E04_RS20490 (P2E04_20490) 64547..65125 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
P2E04_RS20495 (P2E04_20495) 65129..65521 + 393 WP_000479535 TraA family conjugative transfer protein -
P2E04_RS20500 (P2E04_20500) 65722..71253 + 5532 WP_000606833 Ig-like domain-containing protein -
P2E04_RS20505 (P2E04_20505) 71402..72109 + 708 WP_001259347 DsbC family protein -
P2E04_RS20510 (P2E04_20510) 72106..74553 + 2448 WP_000637386 type IV secretion system protein TraC virb4
P2E04_RS20515 (P2E04_20515) 74568..74885 + 318 WP_000351984 hypothetical protein -
P2E04_RS20520 (P2E04_20520) 74882..75412 + 531 WP_001010738 S26 family signal peptidase -
P2E04_RS20525 (P2E04_20525) 75375..76640 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein -
P2E04_RS20530 (P2E04_20530) 76637..77308 + 672 WP_001337754 EAL domain-containing protein -
P2E04_RS20535 (P2E04_20535) 77308..78312 + 1005 WP_043940352 TraU family protein -
P2E04_RS20540 (P2E04_20540) 78416..81226 + 2811 WP_001909286 conjugal transfer mating pair stabilization protein TraN traN
P2E04_RS20545 (P2E04_20545) 81265..81906 - 642 WP_223854615 hypothetical protein -
P2E04_RS20550 (P2E04_20550) 82248..82889 - 642 WP_000796664 hypothetical protein -
P2E04_RS20555 (P2E04_20555) 83183..83503 + 321 WP_000547566 hypothetical protein -
P2E04_RS20560 (P2E04_20560) 83807..83992 + 186 WP_001186917 hypothetical protein -
P2E04_RS20565 (P2E04_20565) 84212..85180 + 969 WP_000085162 AAA family ATPase -
P2E04_RS20570 (P2E04_20570) 85191..86099 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   8414 GenBank   NZ_CP119541
Plasmid name   pCAVP496-239 Incompatibility group   IncA/C2
Plasmid size   239161 bp Coordinate of oriT [Strand]   57951..58101 [+]
Host baterium   Providencia stuartii strain CAVP496

Cargo genes

Drug resistance gene   qacE, sul1, blaPER-1, dfrA19, dfrA14, ARR-3, cmlA1, blaOXA-10, ant(3'')-Ia, msr(E), mph(E), blaNDM-1, blaSHV-12, aac(6')-Ib, blaOXA-9, blaTEM-1A, formA
Virulence gene   htpB
Metal resistance gene   merR, merC, merT
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -