Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101257
Name   oriT_FWSEC0409|unnamed3 in_silico
Organism   Escherichia coli strain FWSEC0409
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_RROF01000153 (98670..98820 [-], 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_FWSEC0409|unnamed3
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1223 GenBank   WP_001337757
Name   mobH_C9184_RS25795_FWSEC0409|unnamed3 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   832 GenBank   WP_000637386
Name   traC_C9184_RS25715_FWSEC0409|unnamed3 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.



ID   833 GenBank   WP_000178856
Name   traD_C9184_RS25790_FWSEC0409|unnamed3 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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 75545..100736

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C9184_RS25655 (C9184_25680) 70672..71580 - 909 WP_000739139 hypothetical protein -
C9184_RS25660 (C9184_25685) 71591..72559 - 969 WP_000085162 AAA family ATPase -
C9184_RS25665 (C9184_25690) 72779..72964 - 186 WP_001186917 hypothetical protein -
C9184_RS25670 (C9184_25695) 73268..73588 - 321 WP_000547566 hypothetical protein -
C9184_RS25675 (C9184_25700) 73882..74523 + 642 WP_000796664 hypothetical protein -
C9184_RS25680 (C9184_25705) 74646..75506 + 861 WP_000709517 hypothetical protein -
C9184_RS25685 (C9184_25710) 75545..78343 - 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
C9184_RS25690 (C9184_25715) 78459..79463 - 1005 WP_043940352 TraU family protein traU
C9184_RS25695 (C9184_25720) 79463..80134 - 672 WP_001337754 EAL domain-containing protein -
C9184_RS25700 (C9184_25725) 80131..81396 - 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
C9184_RS25705 (C9184_25730) 81359..81889 - 531 WP_001010738 S26 family signal peptidase -
C9184_RS25710 (C9184_25735) 81886..82203 - 318 WP_000351984 hypothetical protein -
C9184_RS25715 (C9184_25740) 82218..84665 - 2448 WP_000637386 type IV secretion system protein TraC virb4
C9184_RS25720 (C9184_25745) 84662..85369 - 708 WP_001259347 DsbC family protein -
C9184_RS25725 (C9184_25750) 85518..91049 - 5532 WP_000606833 Ig-like domain-containing protein -
C9184_RS25730 (C9184_25755) 91250..91642 - 393 WP_000479535 TraA family conjugative transfer protein -
C9184_RS25735 (C9184_25760) 91646..92224 - 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
C9184_RS25740 (C9184_25765) 92221..93534 - 1314 WP_024131605 TraB/VirB10 family protein traB
C9184_RS25745 (C9184_25770) 93534..94451 - 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
C9184_RS25750 (C9184_25775) 94435..95061 - 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
C9184_RS25755 (C9184_25780) 95058..95339 - 282 WP_000805625 type IV conjugative transfer system protein TraL traL
C9184_RS25760 (C9184_25785) 95484..95849 - 366 WP_001052531 hypothetical protein -
C9184_RS27370 95861..96004 - 144 WP_001275801 hypothetical protein -
C9184_RS25765 (C9184_25790) 96185..96847 - 663 WP_001231463 hypothetical protein -
C9184_RS25770 (C9184_25795) 96847..97224 - 378 WP_000869261 hypothetical protein -
C9184_RS25775 (C9184_25800) 97234..97680 - 447 WP_000122506 hypothetical protein -
C9184_RS25780 (C9184_25805) 97690..98319 - 630 WP_000743450 DUF4400 domain-containing protein tfc7
C9184_RS25785 (C9184_25810) 98276..98821 - 546 WP_000228720 hypothetical protein -
C9184_RS25790 (C9184_25815) 98871..100736 - 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
C9184_RS25795 (C9184_25820) 100733..103711 - 2979 WP_001337757 MobH family relaxase -
C9184_RS25800 (C9184_25825) 103879..104496 + 618 WP_001249396 hypothetical protein -
C9184_RS25805 (C9184_25830) 104478..104711 + 234 WP_001191892 hypothetical protein -

Host bacterium

ID   1701 GenBank   NZ_RROF01000153
Plasmid name   FWSEC0409|unnamed3 Incompatibility group   IncA/C2
Plasmid size   129497 bp Coordinate of oriT [Strand]   98670..98820 [-]
Host baterium   Escherichia coli strain FWSEC0409

Cargo genes

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