Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107046
Name   oriT_pT5282-Ct2 in_silico
Organism   Enterobacter hormaechei strain T5282
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MF344574 (78288..78438 [+], 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_pT5282-Ct2
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4655 GenBank   WP_001337757
Name   mobH_HTO64_RS00520_pT5282-Ct2 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   4758 GenBank   WP_000178856
Name   traD_HTO64_RS00525_pT5282-Ct2 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   4759 GenBank   WP_000637386
Name   traC_HTO64_RS00605_pT5282-Ct2 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: 76372..96977

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTO64_RS00510 72397..72630 - 234 WP_001191892 hypothetical protein -
HTO64_RS00515 72612..73229 - 618 WP_001249396 hypothetical protein -
HTO64_RS00520 73397..76375 + 2979 WP_001337757 MobH family relaxase -
HTO64_RS00525 76372..78237 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
HTO64_RS00530 78248..78832 + 585 WP_000332866 hypothetical protein -
HTO64_RS00535 78789..79418 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
HTO64_RS00540 79428..79874 + 447 WP_000122506 hypothetical protein -
HTO64_RS00545 79884..80261 + 378 WP_000869261 hypothetical protein -
HTO64_RS00550 80261..80923 + 663 WP_001231463 hypothetical protein -
HTO64_RS00555 81104..81247 + 144 WP_001275801 hypothetical protein -
HTO64_RS00560 81259..81624 + 366 WP_001052531 hypothetical protein -
HTO64_RS00565 81769..82050 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
HTO64_RS00570 82047..82673 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
HTO64_RS00575 82657..83574 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HTO64_RS00580 83574..84887 + 1314 WP_024131605 TraB/VirB10 family protein traB
HTO64_RS00585 84884..85462 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HTO64_RS00590 85466..85858 + 393 WP_000479535 TraA family conjugative transfer protein -
HTO64_RS00595 86059..91590 + 5532 WP_085281193 Ig-like domain-containing protein -
HTO64_RS00600 91739..92446 + 708 WP_001259347 DsbC family protein -
HTO64_RS00605 92443..94890 + 2448 WP_000637386 type IV secretion system protein TraC virb4
HTO64_RS00610 94905..95222 + 318 WP_000351984 hypothetical protein -
HTO64_RS00615 95219..95749 + 531 WP_001010738 S26 family signal peptidase -
HTO64_RS00620 95712..96977 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
HTO64_RS00625 96974..97273 + 300 Protein_125 EAL domain-containing protein -
HTO64_RS00635 98591..101044 + 2454 WP_001187970 phosphoadenosine phosphosulfate reductase -
HTO64_RS00640 101246..101449 + 204 WP_000050848 hypothetical protein -

Host bacterium

ID   7482 GenBank   NZ_MF344574
Plasmid name   pT5282-Ct2 Incompatibility group   IncA/C2
Plasmid size   152215 bp Coordinate of oriT [Strand]   78288..78438 [+]
Host baterium   Enterobacter hormaechei strain T5282

Cargo genes

Drug resistance gene   blaTEM-1B, rmtB, tet(G), floR, qnrB2, sul1, qacE, aadA2, dfrA12, aac(3)-IId, aph(6)-Id, aph(3'')-Ib, sul2, blaCTX-M-14, blaIMP-8
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -