Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102893
Name   oriT_ICDC-VC661|unnamed in_silico
Organism   Vibrio cholerae strain ICDC-VC661
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP012668 (64594..64744 [+], 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_ICDC-VC661|unnamed
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2171 GenBank   WP_001337757
Name   TraI_2_AN947_RS19955_ICDC-VC661|unnamed 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   1841 GenBank   WP_000178856
Name   traD_AN947_RS19960_ICDC-VC661|unnamed 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   1842 GenBank   WP_000637386
Name   traC_AN947_RS20035_ICDC-VC661|unnamed 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: 62678..87868

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AN947_RS19945 (AN947_19380) 58703..58936 - 234 WP_001191892 hypothetical protein -
AN947_RS19950 (AN947_19385) 58918..59535 - 618 WP_001249396 hypothetical protein -
AN947_RS19955 (AN947_19390) 59703..62681 + 2979 WP_001337757 MobH family relaxase -
AN947_RS19960 (AN947_19395) 62678..64543 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
AN947_RS19965 (AN947_19400) 64593..65138 + 546 WP_000228720 hypothetical protein -
AN947_RS19970 (AN947_19405) 65095..65724 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
AN947_RS19975 (AN947_19410) 65734..66180 + 447 WP_000122506 hypothetical protein -
AN947_RS19980 (AN947_19415) 66190..66567 + 378 WP_000869261 hypothetical protein -
AN947_RS19985 (AN947_19420) 66567..67229 + 663 WP_001231463 hypothetical protein -
AN947_RS20895 67410..67553 + 144 WP_001275801 hypothetical protein -
AN947_RS19990 (AN947_19425) 67565..67930 + 366 WP_001052531 hypothetical protein -
AN947_RS19995 (AN947_19430) 68075..68356 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
AN947_RS20000 (AN947_19435) 68353..68979 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
AN947_RS20005 (AN947_19440) 68963..69880 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
AN947_RS20010 (AN947_19445) 69880..71193 + 1314 WP_024131605 TraB/VirB10 family protein traB
AN947_RS20015 (AN947_19450) 71190..71768 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
AN947_RS20020 (AN947_19455) 71772..72163 + 392 Protein_86 TraA family conjugative transfer protein -
AN947_RS20025 (AN947_19460) 72364..77895 + 5532 WP_000606833 Ig-like domain-containing protein -
AN947_RS20030 (AN947_19465) 78044..78751 + 708 WP_001259347 DsbC family protein -
AN947_RS20035 (AN947_19470) 78748..81195 + 2448 WP_000637386 type IV secretion system protein TraC virb4
AN947_RS20040 (AN947_19475) 81210..81527 + 318 WP_000351984 hypothetical protein -
AN947_RS20045 (AN947_19480) 81524..82054 + 531 WP_001010738 S26 family signal peptidase -
AN947_RS20050 (AN947_19485) 82017..83282 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
AN947_RS20055 (AN947_19490) 83279..83950 + 672 WP_001337754 EAL domain-containing protein -
AN947_RS20060 (AN947_19495) 83950..84954 + 1005 WP_043940352 TraU family protein traU
AN947_RS20065 (AN947_19500) 85070..87868 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
AN947_RS20070 (AN947_19505) 87907..88767 - 861 WP_000709517 hypothetical protein -
AN947_RS20075 (AN947_19510) 88890..89531 - 642 WP_000796664 hypothetical protein -
AN947_RS20080 (AN947_19515) 89825..90145 + 321 WP_000547566 hypothetical protein -
AN947_RS20085 (AN947_19520) 90449..90634 + 186 WP_001186917 hypothetical protein -
AN947_RS20090 (AN947_19525) 90854..91822 + 969 WP_000085162 AAA family ATPase -
AN947_RS20095 (AN947_19530) 91833..92741 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   3336 GenBank   NZ_CP012668
Plasmid name   ICDC-VC661|unnamed Incompatibility group   IncA/C2
Plasmid size   180116 bp Coordinate of oriT [Strand]   64594..64744 [+]
Host baterium   Vibrio cholerae strain ICDC-VC661

Cargo genes

Drug resistance gene   aph(3')-Ia, aac(3)-IId, catA2, tet(D), msr(E), mph(E), aadA2, qacE, sul1, aph(6)-Id, aph(3'')-Ib, sul2, floR, blaTEM-1A
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -