Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101664
Name   oriT_pT-970 NODE_20 in_silico
Organism   Escherichia coli strain trcT-970
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_WUBH01000020 (26683..26833 [+], 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_pT-970 NODE_20
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1443 GenBank   WP_250695918
Name   mobH_GRH96_RS14550_pT-970 NODE_20 insolico UniProt ID   _
Length   922 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 922 a.a.        Molecular weight: 102129.51 Da        Isoelectric Point: 5.7275

>WP_250695918.1 MobH family relaxase [Escherichia coli]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
DAFELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKPVQEKQNVARLPKRELNRWLLSPKLSVRRNWDTSRCEKGKIQRLGSLSRLRRKQTRKTSTRKISCRLV
LRLRKHSRCSRT

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure



No available structure.




T4CP

ID   1116 GenBank   WP_000178856
Name   traD_GRH96_RS14555_pT-970 NODE_20 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   1117 GenBank   WP_000637386
Name   traC_GRH96_RS14630_pT-970 NODE_20 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: 24767..49957

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
GRH96_RS14540 (GRH96_14530) 20793..21026 - 234 WP_001191892 hypothetical protein -
GRH96_RS14545 (GRH96_14535) 21008..21625 - 618 WP_001249396 hypothetical protein -
GRH96_RS14550 (GRH96_14540) 21793..24561 + 2769 WP_250695918 MobH family relaxase -
GRH96_RS23475 24546..24770 + 225 WP_021293631 hypothetical protein -
GRH96_RS14555 (GRH96_14545) 24767..26632 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
GRH96_RS14560 (GRH96_14550) 26682..27227 + 546 WP_000228720 hypothetical protein -
GRH96_RS14565 (GRH96_14555) 27184..27813 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
GRH96_RS14570 (GRH96_14560) 27823..28269 + 447 WP_000122506 hypothetical protein -
GRH96_RS14575 (GRH96_14565) 28279..28656 + 378 WP_000869261 hypothetical protein -
GRH96_RS14580 (GRH96_14570) 28656..29318 + 663 WP_001231463 hypothetical protein -
GRH96_RS23145 29499..29642 + 144 WP_001275801 hypothetical protein -
GRH96_RS14585 (GRH96_14575) 29654..30019 + 366 WP_001052531 hypothetical protein -
GRH96_RS14590 (GRH96_14580) 30164..30445 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
GRH96_RS14595 (GRH96_14585) 30442..31068 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
GRH96_RS14600 (GRH96_14590) 31052..31969 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
GRH96_RS14605 (GRH96_14595) 31969..33281 + 1313 Protein_46 TrbI/VirB10 family protein -
GRH96_RS14610 (GRH96_14600) 33278..33856 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
GRH96_RS14615 (GRH96_14605) 33860..34252 + 393 WP_000479535 TraA family conjugative transfer protein -
GRH96_RS14620 (GRH96_14610) 34453..39984 + 5532 WP_076914810 Ig-like domain-containing protein -
GRH96_RS14625 (GRH96_14615) 40133..40840 + 708 WP_001259347 DsbC family protein -
GRH96_RS14630 (GRH96_14620) 40837..43284 + 2448 WP_000637386 type IV secretion system protein TraC virb4
GRH96_RS14635 (GRH96_14625) 43299..43616 + 318 WP_000351984 hypothetical protein -
GRH96_RS14640 (GRH96_14630) 43613..44143 + 531 WP_001010738 S26 family signal peptidase -
GRH96_RS14645 (GRH96_14635) 44106..45371 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
GRH96_RS14650 (GRH96_14640) 45368..46039 + 672 WP_001337754 EAL domain-containing protein -
GRH96_RS14655 (GRH96_14645) 46039..47043 + 1005 WP_043940352 TraU family protein traU
GRH96_RS14660 (GRH96_14650) 47159..49957 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
GRH96_RS14665 (GRH96_14655) 49996..50856 - 861 WP_000709517 hypothetical protein -
GRH96_RS14670 (GRH96_14660) 50979..51620 - 642 WP_000796664 hypothetical protein -
GRH96_RS14675 (GRH96_14665) 51915..52235 + 321 WP_000547566 hypothetical protein -
GRH96_RS14680 (GRH96_14670) 52539..52724 + 186 WP_001186917 hypothetical protein -
GRH96_RS14685 (GRH96_14675) 52944..53912 + 969 WP_000085162 AAA family ATPase -
GRH96_RS14690 (GRH96_14680) 53923..54831 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   2108 GenBank   NZ_WUBH01000020
Plasmid name   pT-970 NODE_20 Incompatibility group   -
Plasmid size   86699 bp Coordinate of oriT [Strand]   26683..26833 [+]
Host baterium   Escherichia coli strain trcT-970

Cargo genes

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