Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103058
Name   oriT_pECY53 in_silico
Organism   Escherichia coli strain Y5
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KT997783 (71239..71389 [+], 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_pECY53
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2288 GenBank   WP_001337757
Name   TraI_2_ATO45_RS00465_pECY53 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   1994 GenBank   WP_000178856
Name   traD_ATO45_RS00470_pECY53 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   1995 GenBank   WP_000637386
Name   traC_ATO45_RS00550_pECY53 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: 69323..94514

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ATO45_RS00455 (ATO45_3P0310) 65348..65581 - 234 WP_001191892 hypothetical protein -
ATO45_RS00460 (ATO45_3P0315) 65563..66180 - 618 WP_001249396 hypothetical protein -
ATO45_RS00465 (ATO45_3P0320) 66348..69326 + 2979 WP_001337757 MobH family relaxase -
ATO45_RS00470 (ATO45_3P0325) 69323..71188 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
ATO45_RS00475 (ATO45_3P0330) 71199..71783 + 585 WP_000332866 hypothetical protein -
ATO45_RS00480 (ATO45_3P0335) 71740..72369 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
ATO45_RS00485 72379..72825 + 447 WP_000122506 hypothetical protein -
ATO45_RS00490 72835..73212 + 378 WP_000869261 hypothetical protein -
ATO45_RS00495 73212..73874 + 663 WP_001231463 hypothetical protein -
ATO45_RS00500 74055..74198 + 144 WP_001275801 hypothetical protein -
ATO45_RS00505 74210..74575 + 366 WP_001052531 hypothetical protein -
ATO45_RS00510 (ATO45_3P0340) 74720..75001 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
ATO45_RS00515 (ATO45_3P0345) 74998..75624 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
ATO45_RS00520 75608..76525 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
ATO45_RS00525 76525..77838 + 1314 WP_024131605 TraB/VirB10 family protein traB
ATO45_RS00530 (ATO45_3P0350) 77835..78413 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
ATO45_RS00535 (ATO45_3P0355) 78417..78809 + 393 WP_000479535 TraA family conjugative transfer protein -
ATO45_RS00540 79010..84541 + 5532 WP_000606833 Ig-like domain-containing protein -
ATO45_RS00545 84690..85397 + 708 WP_001259347 DsbC family protein -
ATO45_RS00550 (ATO45_3P0360) 85394..87841 + 2448 WP_000637386 type IV secretion system protein TraC virb4
ATO45_RS00555 (ATO45_3P0365) 87856..88173 + 318 WP_000351984 hypothetical protein -
ATO45_RS00560 (ATO45_3P0370) 88170..88700 + 531 WP_001010738 S26 family signal peptidase -
ATO45_RS00565 (ATO45_3P0375) 88663..89928 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
ATO45_RS00570 89925..90596 + 672 WP_001337754 EAL domain-containing protein -
ATO45_RS00575 (ATO45_3P0380) 90596..91600 + 1005 WP_043940352 TraU family protein traU
ATO45_RS00580 91716..94514 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
ATO45_RS00585 94553..95413 - 861 WP_000709517 hypothetical protein -
ATO45_RS00590 95536..96177 - 642 WP_000796664 hypothetical protein -
ATO45_RS00595 96471..96791 + 321 WP_000547566 hypothetical protein -
ATO45_RS00600 97029..97280 + 252 WP_001447717 hypothetical protein -
ATO45_RS00605 (ATO45_3P0385) 97500..98468 + 969 WP_000085162 AAA family ATPase -
ATO45_RS00610 98479..99387 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   3501 GenBank   NZ_KT997783
Plasmid name   pECY53 Incompatibility group   IncA/C2
Plasmid size   136243 bp Coordinate of oriT [Strand]   71239..71389 [+]
Host baterium   Escherichia coli strain Y5

Cargo genes

Drug resistance gene   aac(3)-IId, floR, tet(A), aph(3')-Ia, aph(6)-Id, aph(3'')-Ib, sul2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -