Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103121
Name   oriT_K-109-R|unnamed in_silico
Organism   Klebsiella pneumoniae strain K-109-R
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KX029331 (75742..75892 [+], 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_K-109-R|unnamed
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2340 GenBank   WP_228719427
Name   TraI_2_HTI08_RS00490_K-109-R|unnamed insolico UniProt ID   _
Length   986 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 986 a.a.        Molecular weight: 108858.96 Da        Isoelectric Point: 4.8679

>WP_228719427.1 MobH family relaxase [Klebsiella pneumoniae]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
DAFELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKPVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREDPEVREFEPPKAKTNPKDINAEDFLPSG
VTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRLCSRN
VRENCI

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure



No available structure.




T4CP

ID   2069 GenBank   WP_000178856
Name   traD_HTI08_RS00495_K-109-R|unnamed 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   2070 GenBank   WP_088296440
Name   traC_HTI08_RS00575_K-109-R|unnamed 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: 92618.93 Da        Isoelectric Point: 5.9222

>WP_088296440.1 type IV secretion system protein TraC [Klebsiella pneumoniae]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTERIFVKTNKGIYDNGLIQ
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: 73826..99017

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTI08_RS00480 69852..70085 - 234 WP_001191892 hypothetical protein -
HTI08_RS00485 70067..70684 - 618 WP_001249396 hypothetical protein -
HTI08_RS00490 70852..73812 + 2961 WP_228719427 MobH family relaxase -
HTI08_RS00495 73826..75691 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
HTI08_RS00500 75702..76286 + 585 WP_000332866 hypothetical protein -
HTI08_RS00505 76243..76872 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
HTI08_RS00510 76882..77328 + 447 WP_000122506 hypothetical protein -
HTI08_RS00515 77338..77715 + 378 WP_000869261 hypothetical protein -
HTI08_RS00520 77715..78377 + 663 WP_001231463 hypothetical protein -
HTI08_RS00525 78558..78701 + 144 WP_001275801 hypothetical protein -
HTI08_RS00530 78713..79078 + 366 WP_001052531 hypothetical protein -
HTI08_RS00535 79223..79504 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
HTI08_RS00540 79501..80127 + 627 WP_172688374 TraE/TraK family type IV conjugative transfer system protein traE
HTI08_RS00545 80111..81028 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HTI08_RS00550 81028..82341 + 1314 WP_024131605 TraB/VirB10 family protein traB
HTI08_RS00555 82338..82916 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HTI08_RS00560 82920..83312 + 393 WP_000479535 TraA family conjugative transfer protein -
HTI08_RS00565 83513..89044 + 5532 WP_088296439 Ig-like domain-containing protein -
HTI08_RS00570 89193..89900 + 708 WP_001259347 DsbC family protein -
HTI08_RS00575 89897..92344 + 2448 WP_088296440 type IV secretion system protein TraC virb4
HTI08_RS00580 92359..92676 + 318 WP_000351984 hypothetical protein -
HTI08_RS00585 92673..93203 + 531 WP_001010738 S26 family signal peptidase -
HTI08_RS00590 93166..94431 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
HTI08_RS00595 94428..95099 + 672 WP_001337754 EAL domain-containing protein -
HTI08_RS00600 95099..96103 + 1005 WP_043940352 TraU family protein traU
HTI08_RS00605 96219..99017 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
HTI08_RS00610 99056..99916 - 861 WP_000709517 hypothetical protein -
HTI08_RS00615 100039..100680 - 642 WP_000796664 hypothetical protein -
HTI08_RS00620 100974..101294 + 321 WP_000547566 hypothetical protein -
HTI08_RS00625 101598..101783 + 186 WP_001186917 hypothetical protein -
HTI08_RS00630 102003..102971 + 969 WP_000085162 AAA family ATPase -
HTI08_RS00635 102982..103890 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   3564 GenBank   NZ_KX029331
Plasmid name   K-109-R|unnamed Incompatibility group   IncA/C2
Plasmid size   156569 bp Coordinate of oriT [Strand]   75742..75892 [+]
Host baterium   Klebsiella pneumoniae strain K-109-R

Cargo genes

Drug resistance gene   aac(6')-Ib-cr, blaOXA-1, catB3, ARR-3, qacE, sul1, blaCTX-M-2, dfrA23, rmtG, floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -