Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101468
Name   oriT1_pPSKoxy1_1 in_silico
Organism   Klebsiella michiganensis strain PS_Koxy1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_VTQC02000002 (24136..24240 [+], 105 nt)
oriT length   105 nt
IRs (inverted repeats)      56..61, 74..79  (TGGAAT..ATTCCA)
 46..51, 56..61  (ATTCCA..TGGAAT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 105 nt

>oriT1_pPSKoxy1_1
AAATTGACAAATTCCAAACATGGGTTAGCCTAGTGACAAAGCTAGATTCCAATAGTGGAATAATTGGGTTTAGATTCCAGATAGATAGTTATGTGGATAGGAATT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1322 GenBank   WP_058662807
Name   mobH_F0A15_RS28810_pPSKoxy1_1 insolico UniProt ID   A0A221KLA3
Length   987 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 987 a.a.        Molecular weight: 109306.91 Da        Isoelectric Point: 4.9372

>WP_058662807.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALHKLFGGRSGAIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWATQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAYRHGIDRYFIRWRDKRHKRHEQFSL
LAWHRIIPAETQEFLSKSGPSIIEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVNEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISQDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGPVKILMLRLESNDLVFTTEPPAAVTGEVVGDVEDAEIE
FVDPEEADEDQAEGDAGLNNDMLAAELEAEKALAGLGFGDAMAMLKSTSDIAEEKPEQEDTESTELPKPD
ASKKGKQQSKPGKARAEKQPQKPEVKEDLSPQDIAKNAPPLANDDPLQALKDVGGGLGDIDFPFDVFNAS
AETACTDATNLAIPDITEPVKQEEQPKPDFVPQEQNSLQNGDFPIFSDSDEPPSWAIEPLPMLTDTPEQT
IPAPDMQHAGKPKELEKDAKTLLSEMLAGYGEASTLLEQAIMPVLEGKTTLGEVLCLMKGQAVILYPEGA
RSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLVDQLSDAVVAAIKDAEASMGGYQEAFELV
SPPGSGVSKNKSAPKQQSRKKTQQQKPEVDAGAGSEQKTKDKSLQQQPKEKQGNVASLVEEQKRKPVQDQ
EKQNVARLPKREAQPVASKPKVEHERELGHVEVRERDEPEVREFEPPKAKTNPKDINEEDFLPSGVTPEK
ALLMLKDMIQKRSGRWLVTPVLEEDGCLVTSVKAFDMIAGENVGISKHILYGLLSRAQRRPLLKKRQGKL
YLEVDKA

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB A0A221KLA3


T4CP

ID   939 GenBank   WP_000178858
Name   traD_F0A15_RS28815_pPSKoxy1_1 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: 69248.76 Da        Isoelectric Point: 7.1093

>WP_000178858.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWMAASCAALAVEQVSTMPSEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPEDMWLGSGFLWENRHAQRVFEILKRDWTSIVGKESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVLTHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVKPDWEAEAAAYLEKAKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNTDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  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   940 GenBank   WP_051479468
Name   traC_F0A15_RS28890_pPSKoxy1_1 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: 92523.78 Da        Isoelectric Point: 5.9204

>WP_051479468.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIITIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDQSVGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTSLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFAKTSKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQHLAQIRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYDDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSKGSYGKYFSQKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSTFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSDGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRKQAA

  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: 56310..81414

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
F0A15_RS28800 (F0A15_028800) 52350..52583 - 234 WP_039272424 hypothetical protein -
F0A15_RS28805 (F0A15_028805) 52565..53182 - 618 WP_012766323 hypothetical protein -
F0A15_RS28810 (F0A15_028810) 53350..56313 + 2964 WP_058662807 MobH family relaxase -
F0A15_RS28815 (F0A15_028815) 56310..58175 + 1866 WP_000178858 conjugative transfer system coupling protein TraD virb4
F0A15_RS28820 (F0A15_028820) 58225..58770 + 546 WP_023356350 hypothetical protein -
F0A15_RS28825 (F0A15_028825) 58727..59356 + 630 WP_000743448 DUF4400 domain-containing protein tfc7
F0A15_RS28830 (F0A15_028830) 59367..59813 + 447 WP_039272421 hypothetical protein -
F0A15_RS28835 (F0A15_028835) 59823..60200 + 378 WP_000869260 hypothetical protein -
F0A15_RS28840 (F0A15_028840) 60200..60862 + 663 WP_039272419 hypothetical protein -
F0A15_RS28845 (F0A15_028845) 61197..61544 + 348 WP_039272417 hypothetical protein -
F0A15_RS28850 (F0A15_028850) 61687..61968 + 282 WP_000805626 type IV conjugative transfer system protein TraL traL
F0A15_RS28855 (F0A15_028855) 61965..62591 + 627 WP_039272415 TraE/TraK family type IV conjugative transfer system protein traE
F0A15_RS28860 (F0A15_028860) 62575..63492 + 918 WP_012766326 type-F conjugative transfer system secretin TraK traK
F0A15_RS28865 (F0A15_028865) 63489..64805 + 1317 WP_039272412 TraB/VirB10 family protein traB
F0A15_RS28870 (F0A15_028870) 64802..65380 + 579 WP_039272410 type IV conjugative transfer system lipoprotein TraV traV
F0A15_RS28875 (F0A15_028875) 65384..65776 + 393 WP_012766327 TraA family conjugative transfer protein -
F0A15_RS28880 (F0A15_028880) 65977..71463 + 5487 WP_039272407 Ig-like domain-containing protein -
F0A15_RS28885 (F0A15_028885) 71612..72319 + 708 WP_001259344 DsbC family protein -
F0A15_RS28890 (F0A15_028890) 72316..74763 + 2448 WP_051479468 type IV secretion system protein TraC virb4
F0A15_RS28895 (F0A15_028895) 74778..75095 + 318 WP_000364398 hypothetical protein -
F0A15_RS28900 (F0A15_028900) 75092..75622 + 531 WP_000672456 S26 family signal peptidase -
F0A15_RS28905 (F0A15_028905) 75585..76853 + 1269 WP_039272404 TrbC family F-type conjugative pilus assembly protein traW
F0A15_RS28910 (F0A15_028910) 76850..77527 + 678 WP_039272402 EAL domain-containing protein -
F0A15_RS28915 (F0A15_028915) 77521..78525 + 1005 WP_000911304 TraU family protein traU
F0A15_RS28920 (F0A15_028920) 78676..81414 + 2739 WP_058662805 conjugal transfer mating pair stabilization protein TraN traN
F0A15_RS28925 (F0A15_028925) 81453..82313 - 861 WP_000679674 hypothetical protein -
F0A15_RS28930 (F0A15_028930) 82425..83075 - 651 WP_000796641 hypothetical protein -
F0A15_RS28935 (F0A15_028935) 83367..83687 + 321 WP_012766334 hypothetical protein -
F0A15_RS28940 (F0A15_028940) 83998..84183 + 186 WP_001186892 hypothetical protein -
F0A15_RS28945 (F0A15_028945) 84404..85372 + 969 WP_001553257 AAA family ATPase -
F0A15_RS28950 (F0A15_028950) 85384..86289 + 906 WP_058662804 hypothetical protein -

Host bacterium

ID   1912 GenBank   NZ_VTQC02000002
Plasmid name   pPSKoxy1_1 Incompatibility group   IncA/C
Plasmid size   153291 bp Coordinate of oriT [Strand]   24136..24240 [+]; 58226..58376 [+]
Host baterium   Klebsiella michiganensis strain PS_Koxy1

Cargo genes

Drug resistance gene   blaSHV-12, sul1, qacE, catB2, ant(3'')-Ia
Virulence gene   -
Metal resistance gene   merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -