Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101867
Name   oriT_pT-1037 in_silico
Organism   Escherichia coli strain trcE-1037
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_WUBG01000015 (98989..99139 [-], 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-1037
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1542 GenBank   WP_001337757
Name   mobH_GRH92_RS12595_pT-1037 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   1212 GenBank   WP_000637386
Name   traC_GRH92_RS12515_pT-1037 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   1213 GenBank   WP_000178856
Name   traD_GRH92_RS12590_pT-1037 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: 75864..101055

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
GRH92_RS12455 (GRH92_12415) 70991..71899 - 909 WP_000739139 hypothetical protein -
GRH92_RS12460 (GRH92_12420) 71910..72878 - 969 WP_000085162 AAA family ATPase -
GRH92_RS12465 (GRH92_12425) 73098..73283 - 186 WP_001186917 hypothetical protein -
GRH92_RS12470 (GRH92_12430) 73587..73907 - 321 WP_000547566 hypothetical protein -
GRH92_RS12475 (GRH92_12435) 74201..74842 + 642 WP_000796664 hypothetical protein -
GRH92_RS12480 (GRH92_12440) 74965..75825 + 861 WP_000709517 hypothetical protein -
GRH92_RS12485 (GRH92_12445) 75864..78662 - 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
GRH92_RS12490 (GRH92_12450) 78778..79782 - 1005 WP_043940352 TraU family protein traU
GRH92_RS12495 (GRH92_12455) 79782..80453 - 672 WP_001337754 EAL domain-containing protein -
GRH92_RS12500 (GRH92_12460) 80450..81715 - 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
GRH92_RS12505 (GRH92_12465) 81678..82208 - 531 WP_001010738 S26 family signal peptidase -
GRH92_RS12510 (GRH92_12470) 82205..82522 - 318 WP_000351984 hypothetical protein -
GRH92_RS12515 (GRH92_12475) 82537..84984 - 2448 WP_000637386 type IV secretion system protein TraC virb4
GRH92_RS12520 (GRH92_12480) 84981..85688 - 708 WP_001259347 DsbC family protein -
GRH92_RS12525 (GRH92_12485) 85837..91368 - 5532 WP_000606833 Ig-like domain-containing protein -
GRH92_RS12530 (GRH92_12490) 91569..91961 - 393 WP_000479535 TraA family conjugative transfer protein -
GRH92_RS12535 (GRH92_12495) 91965..92543 - 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
GRH92_RS12540 (GRH92_12500) 92540..93853 - 1314 WP_024131605 TraB/VirB10 family protein traB
GRH92_RS12545 (GRH92_12505) 93853..94770 - 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
GRH92_RS12550 (GRH92_12510) 94754..95380 - 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
GRH92_RS12555 (GRH92_12515) 95377..95658 - 282 WP_000805625 type IV conjugative transfer system protein TraL traL
GRH92_RS12560 (GRH92_12520) 95803..96168 - 366 WP_001052531 hypothetical protein -
GRH92_RS23245 96180..96323 - 144 WP_001275801 hypothetical protein -
GRH92_RS12565 (GRH92_12525) 96504..97166 - 663 WP_001231463 hypothetical protein -
GRH92_RS12570 (GRH92_12530) 97166..97543 - 378 WP_000869261 hypothetical protein -
GRH92_RS12575 (GRH92_12535) 97553..97999 - 447 WP_000122506 hypothetical protein -
GRH92_RS12580 (GRH92_12540) 98009..98638 - 630 WP_000743450 DUF4400 domain-containing protein tfc7
GRH92_RS12585 (GRH92_12545) 98595..99140 - 546 WP_000228720 hypothetical protein -
GRH92_RS12590 (GRH92_12550) 99190..101055 - 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
GRH92_RS12595 (GRH92_12555) 101052..104030 - 2979 WP_001337757 MobH family relaxase -
GRH92_RS12600 (GRH92_12560) 104198..104815 + 618 WP_001249396 hypothetical protein -
GRH92_RS12605 (GRH92_12565) 104797..105030 + 234 WP_001191892 hypothetical protein -

Host bacterium

ID   2311 GenBank   NZ_WUBG01000015
Plasmid name   pT-1037 Incompatibility group   IncA/C2
Plasmid size   121381 bp Coordinate of oriT [Strand]   98989..99139 [-]
Host baterium   Escherichia coli strain trcE-1037

Cargo genes

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