Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101440
Name   oriT_pCRE11_2 in_silico
Organism   Klebsiella variicola strain S11_CRE11
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAHBNM010000004 (63296..63446 [+], 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_pCRE11_2
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1304 GenBank   WP_001337757
Name   mobH_KIN49_RS29770_pCRE11_2 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   919 GenBank   WP_000178856
Name   traD_KIN49_RS29775_pCRE11_2 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   920 GenBank   WP_000637386
Name   traC_KIN49_RS29855_pCRE11_2 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: 61380..86571

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KIN49_RS29760 (KIN49_29615) 57405..57638 - 234 WP_001191892 hypothetical protein -
KIN49_RS29765 (KIN49_29620) 57620..58237 - 618 WP_001249396 hypothetical protein -
KIN49_RS29770 (KIN49_29625) 58405..61383 + 2979 WP_001337757 MobH family relaxase -
KIN49_RS29775 (KIN49_29630) 61380..63245 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
KIN49_RS29780 (KIN49_29635) 63295..63840 + 546 WP_000228720 hypothetical protein -
KIN49_RS29785 (KIN49_29640) 63797..64426 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
KIN49_RS29790 (KIN49_29645) 64436..64882 + 447 WP_000122506 hypothetical protein -
KIN49_RS29795 (KIN49_29650) 64892..65269 + 378 WP_000869261 hypothetical protein -
KIN49_RS29800 (KIN49_29655) 65269..65931 + 663 WP_001231463 hypothetical protein -
KIN49_RS29805 (KIN49_29660) 66112..66255 + 144 WP_001275801 hypothetical protein -
KIN49_RS29810 (KIN49_29665) 66267..66632 + 366 WP_001052531 hypothetical protein -
KIN49_RS29815 (KIN49_29670) 66777..67058 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
KIN49_RS29820 (KIN49_29675) 67055..67681 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
KIN49_RS29825 (KIN49_29680) 67665..68582 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
KIN49_RS29830 (KIN49_29685) 68582..69895 + 1314 WP_024131605 TraB/VirB10 family protein traB
KIN49_RS29835 (KIN49_29690) 69892..70470 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
KIN49_RS29840 (KIN49_29695) 70474..70866 + 393 WP_000479535 TraA family conjugative transfer protein -
KIN49_RS29845 (KIN49_29700) 71067..76598 + 5532 WP_000606833 Ig-like domain-containing protein -
KIN49_RS29850 (KIN49_29705) 76747..77454 + 708 WP_001259347 DsbC family protein -
KIN49_RS29855 (KIN49_29710) 77451..79898 + 2448 WP_000637386 type IV secretion system protein TraC virb4
KIN49_RS29860 (KIN49_29715) 79913..80230 + 318 WP_000351984 hypothetical protein -
KIN49_RS29865 (KIN49_29720) 80227..80757 + 531 WP_001010738 S26 family signal peptidase -
KIN49_RS29870 (KIN49_29725) 80720..81985 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
KIN49_RS29875 (KIN49_29730) 81982..82653 + 672 WP_001337754 EAL domain-containing protein -
KIN49_RS29880 (KIN49_29735) 82653..83657 + 1005 WP_043940352 TraU family protein traU
KIN49_RS29885 (KIN49_29740) 83773..86571 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
KIN49_RS29890 (KIN49_29745) 86610..87470 - 861 WP_000709517 hypothetical protein -
KIN49_RS29895 (KIN49_29750) 87593..88234 - 642 WP_000796664 hypothetical protein -
KIN49_RS29900 (KIN49_29755) 88528..88848 + 321 WP_000547566 hypothetical protein -
KIN49_RS29905 (KIN49_29760) 89152..89337 + 186 WP_001186917 hypothetical protein -
KIN49_RS29910 (KIN49_29765) 89557..90525 + 969 WP_000085162 AAA family ATPase -
KIN49_RS29915 (KIN49_29770) 90536..91444 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   1884 GenBank   NZ_JAHBNM010000004
Plasmid name   pCRE11_2 Incompatibility group   IncA/C2
Plasmid size   182996 bp Coordinate of oriT [Strand]   63296..63446 [+]
Host baterium   Klebsiella variicola strain S11_CRE11

Cargo genes

Drug resistance gene   blaFOX-5, blaCARB-2, aadA2, cmlA1, qacE, sul1, dfrA19, ant(2'')-Ia, catB3, msr(E), mph(E)
Virulence gene   -
Metal resistance gene   merE, merD, merA, merC, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -