Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101453
Name   oriT_pCRE17_2 in_silico
Organism   Klebsiella michiganensis strain S17_CRE17
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAHBNO010000004 (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_pCRE17_2
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1309 GenBank   WP_001337757
Name   mobH_KIN65_RS30105_pCRE17_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   925 GenBank   WP_000178856
Name   traD_KIN65_RS30110_pCRE17_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   926 GenBank   WP_000637386
Name   traC_KIN65_RS30190_pCRE17_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..83657

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KIN65_RS30095 (KIN65_29975) 57405..57638 - 234 WP_001191892 hypothetical protein -
KIN65_RS30100 (KIN65_29980) 57620..58237 - 618 WP_001249396 hypothetical protein -
KIN65_RS30105 (KIN65_29985) 58405..61383 + 2979 WP_001337757 MobH family relaxase -
KIN65_RS30110 (KIN65_29990) 61380..63245 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
KIN65_RS30115 (KIN65_29995) 63295..63840 + 546 WP_000228720 hypothetical protein -
KIN65_RS30120 (KIN65_30000) 63797..64426 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
KIN65_RS30125 (KIN65_30005) 64436..64882 + 447 WP_000122506 hypothetical protein -
KIN65_RS30130 (KIN65_30010) 64892..65269 + 378 WP_000869261 hypothetical protein -
KIN65_RS30135 (KIN65_30015) 65269..65931 + 663 WP_001231463 hypothetical protein -
KIN65_RS30140 (KIN65_30020) 66112..66255 + 144 WP_001275801 hypothetical protein -
KIN65_RS30145 (KIN65_30025) 66267..66632 + 366 WP_001052531 hypothetical protein -
KIN65_RS30150 (KIN65_30030) 66777..67058 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
KIN65_RS30155 (KIN65_30035) 67055..67681 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
KIN65_RS30160 (KIN65_30040) 67665..68582 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
KIN65_RS30165 (KIN65_30045) 68582..69895 + 1314 WP_024131605 TraB/VirB10 family protein traB
KIN65_RS30170 (KIN65_30050) 69892..70470 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
KIN65_RS30175 (KIN65_30055) 70474..70866 + 393 WP_000479535 TraA family conjugative transfer protein -
KIN65_RS30180 (KIN65_30060) 71067..76598 + 5532 WP_000606833 Ig-like domain-containing protein -
KIN65_RS30185 (KIN65_30065) 76747..77454 + 708 WP_001259347 DsbC family protein -
KIN65_RS30190 (KIN65_30070) 77451..79898 + 2448 WP_000637386 type IV secretion system protein TraC virb4
KIN65_RS30195 (KIN65_30075) 79913..80230 + 318 WP_000351984 hypothetical protein -
KIN65_RS30200 (KIN65_30080) 80227..80757 + 531 WP_001010738 S26 family signal peptidase -
KIN65_RS30205 (KIN65_30085) 80720..81985 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
KIN65_RS30210 (KIN65_30090) 81982..82653 + 672 WP_001337754 EAL domain-containing protein -
KIN65_RS30215 (KIN65_30095) 82653..83657 + 1005 WP_043940352 TraU family protein traU
KIN65_RS30220 (KIN65_30100) 83761..85959 + 2199 Protein_105 conjugal transfer mating pair stabilization protein TraN -
KIN65_RS30230 (KIN65_30110) 87212..87823 + 612 Protein_107 conjugal transfer protein TraN -

Host bacterium

ID   1897 GenBank   NZ_JAHBNO010000004
Plasmid name   pCRE17_2 Incompatibility group   IncA/C2
Plasmid size   182921 bp Coordinate of oriT [Strand]   63296..63446 [+]
Host baterium   Klebsiella michiganensis strain S17_CRE17

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   -