Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116174
Name   oriT_CNRVC190243|3 in_silico
Organism   Vibrio cholerae strain CNRVC190243 isolate YE-NCPHL-19014-PI
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OW443149 (58589..58739 [+], 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_CNRVC190243|3
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10346 GenBank   WP_001337757
Name   mobH_OC617_RS19360_CNRVC190243|3 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   12091 GenBank   WP_000178856
Name   traD_OC617_RS19365_CNRVC190243|3 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   12092 GenBank   WP_000637386
Name   traC_OC617_RS19445_CNRVC190243|3 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: 56673..81864

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OC617_RS19350 52698..52931 - 234 WP_001191892 hypothetical protein -
OC617_RS19355 (CNRVC190243H_03794) 52913..53530 - 618 WP_001249396 hypothetical protein -
OC617_RS19360 (CNRVC190243H_03795) 53698..56676 + 2979 WP_001337757 MobH family relaxase -
OC617_RS19365 (CNRVC190243H_03796) 56673..58538 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
OC617_RS19370 (CNRVC190243H_03797) 58588..59133 + 546 WP_000228720 hypothetical protein -
OC617_RS19375 (CNRVC190243H_03798) 59090..59719 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
OC617_RS19380 (CNRVC190243H_03799) 59729..60175 + 447 WP_000122506 hypothetical protein -
OC617_RS19385 (CNRVC190243H_03800) 60185..60562 + 378 WP_000869261 hypothetical protein -
OC617_RS19390 (CNRVC190243H_03801) 60562..61224 + 663 WP_001231463 hypothetical protein -
OC617_RS19395 (CNRVC190243H_03802) 61405..61548 + 144 WP_001275801 hypothetical protein -
OC617_RS19400 (CNRVC190243H_03803) 61560..61925 + 366 WP_001052531 hypothetical protein -
OC617_RS19405 (CNRVC190243H_03804) 62070..62351 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
OC617_RS19410 (CNRVC190243H_03805) 62348..62974 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
OC617_RS19415 (CNRVC190243H_03806) 62958..63875 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
OC617_RS19420 (CNRVC190243H_03807) 63875..65188 + 1314 WP_024131605 TraB/VirB10 family protein traB
OC617_RS19425 (CNRVC190243H_03808) 65185..65763 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
OC617_RS19430 (CNRVC190243H_03809) 65767..66159 + 393 WP_000479535 TraA family conjugative transfer protein -
OC617_RS19435 (CNRVC190243H_03810) 66360..71891 + 5532 WP_262072544 Ig-like domain-containing protein -
OC617_RS19440 (CNRVC190243H_03811) 72040..72747 + 708 WP_001259347 DsbC family protein -
OC617_RS19445 (CNRVC190243H_03812) 72744..75191 + 2448 WP_000637386 type IV secretion system protein TraC virb4
OC617_RS19450 (CNRVC190243H_03813) 75206..75523 + 318 WP_000351984 hypothetical protein -
OC617_RS19455 (CNRVC190243H_03814) 75520..76050 + 531 WP_001010738 S26 family signal peptidase -
OC617_RS19460 (CNRVC190243H_03815) 76013..77278 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
OC617_RS19465 (CNRVC190243H_03816) 77275..77946 + 672 WP_001337754 EAL domain-containing protein -
OC617_RS19470 (CNRVC190243H_03817) 77946..78950 + 1005 WP_043940352 TraU family protein traU
OC617_RS19475 (CNRVC190243H_03818) 79066..81864 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
OC617_RS19480 (CNRVC190243H_03819) 81903..82763 - 861 WP_000709517 hypothetical protein -
OC617_RS19485 (CNRVC190243H_03820) 82886..83527 - 642 WP_000796664 hypothetical protein -
OC617_RS19490 (CNRVC190243H_03821) 83821..84141 + 321 WP_000547566 hypothetical protein -
OC617_RS19495 (CNRVC190243H_03822) 84445..84630 + 186 WP_001186917 hypothetical protein -
OC617_RS19500 (CNRVC190243H_03823) 84850..85818 + 969 WP_000085162 AAA family ATPase -
OC617_RS19505 (CNRVC190243H_03824) 85829..86737 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   16607 GenBank   NZ_OW443149
Plasmid name   CNRVC190243|3 Incompatibility group   IncA/C2
Plasmid size   139375 bp Coordinate of oriT [Strand]   58589..58739 [+]
Host baterium   Vibrio cholerae strain CNRVC190243 isolate YE-NCPHL-19014-PI

Cargo genes

Drug resistance gene   aadA2, qacE, sul1, blaPER-7, mph(A), msr(E), mph(E)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -