Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102962
Name   oriT_pEcl-Gr4873 in_silico
Organism   Enterobacter cloacae strain Ecl4873
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KR559890 (51491..51641 [+], 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_pEcl-Gr4873
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2220 GenBank   WP_001337757
Name   TraI_2_HTF89_RS00370_pEcl-Gr4873 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   1909 GenBank   WP_000178856
Name   traD_HTF89_RS00375_pEcl-Gr4873 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   1910 GenBank   WP_000637386
Name   traC_HTF89_RS00455_pEcl-Gr4873 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: 49575..74766

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTF89_RS00360 45600..45833 - 234 WP_001191892 hypothetical protein -
HTF89_RS00365 45815..46432 - 618 WP_001249396 hypothetical protein -
HTF89_RS00370 46600..49578 + 2979 WP_001337757 MobH family relaxase -
HTF89_RS00375 49575..51440 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
HTF89_RS00380 51451..52035 + 585 WP_000332866 hypothetical protein -
HTF89_RS00385 51992..52621 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
HTF89_RS00390 52631..53077 + 447 WP_000122506 hypothetical protein -
HTF89_RS00395 53087..53464 + 378 WP_000869261 hypothetical protein -
HTF89_RS00400 53464..54126 + 663 WP_001231463 hypothetical protein -
HTF89_RS00405 54307..54450 + 144 WP_001275801 hypothetical protein -
HTF89_RS00410 54462..54827 + 366 WP_001052531 hypothetical protein -
HTF89_RS00415 54972..55253 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
HTF89_RS00420 55250..55876 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
HTF89_RS00425 55860..56777 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HTF89_RS00430 56777..58090 + 1314 WP_024131605 TraB/VirB10 family protein traB
HTF89_RS00435 58087..58665 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HTF89_RS00440 58669..59061 + 393 WP_000479535 TraA family conjugative transfer protein -
HTF89_RS00445 59262..64793 + 5532 WP_000606833 Ig-like domain-containing protein -
HTF89_RS00450 64942..65649 + 708 WP_001259347 DsbC family protein -
HTF89_RS00455 65646..68093 + 2448 WP_000637386 type IV secretion system protein TraC virb4
HTF89_RS00460 68108..68425 + 318 WP_000351984 hypothetical protein -
HTF89_RS00465 68422..68952 + 531 WP_001010738 S26 family signal peptidase -
HTF89_RS00470 68915..70180 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
HTF89_RS00475 70177..70848 + 672 WP_001337754 EAL domain-containing protein -
HTF89_RS00480 70848..71852 + 1005 WP_043940352 TraU family protein traU
HTF89_RS00485 71968..74766 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
HTF89_RS00490 74805..75665 - 861 WP_000709517 hypothetical protein -
HTF89_RS00495 75788..76429 - 642 WP_000796664 hypothetical protein -
HTF89_RS00500 76724..77044 + 321 WP_000547566 hypothetical protein -
HTF89_RS00505 77348..77533 + 186 WP_001186917 hypothetical protein -
HTF89_RS00510 77753..78721 + 969 WP_000085162 AAA family ATPase -
HTF89_RS00515 78732..79640 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   3405 GenBank   NZ_KR559890
Plasmid name   pEcl-Gr4873 Incompatibility group   IncA/C2
Plasmid size   153958 bp Coordinate of oriT [Strand]   51491..51641 [+]
Host baterium   Enterobacter cloacae strain Ecl4873

Cargo genes

Drug resistance gene   blaVIM-1, aac(6')-Il, dfrA1, aadA1, qacE, sul1
Virulence gene   -
Metal resistance gene   merE, merD, merA, merC, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -