Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105486
Name   oriT_pPSKoxy4_2 in_silico
Organism   Klebsiella michiganensis strain PS_Koxy4
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP113906 (33145..33295 [+], 151 nt)
oriT length   151 nt
IRs (inverted repeats)      12..17, 24..29  (AACCCG..CGGGTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 151 nt

>oriT_pPSKoxy4_2
TGGTCGATGTGAACCCGTTTGACCGGGTTATGAATGAGTTGAAAAGTCGTGGCCGCAAGAACGCTCATATCCTGAGCATCCTTCAATTCGACTGGCCCGCATCGGAGGTCATCATCGAGAAGCTGAGCTGTTACATCACAGATGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3738 GenBank   WP_058662807
Name   mobH_F0A14_RS29790_pPSKoxy4_2 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   3732 GenBank   WP_000178858
Name   traD_F0A14_RS29795_pPSKoxy4_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: 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   3733 GenBank   WP_051479468
Name   traC_F0A14_RS29870_pPSKoxy4_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: 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: 31229..56333

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
F0A14_RS29780 (F0A14_029775) 27269..27502 - 234 WP_039272424 hypothetical protein -
F0A14_RS29785 (F0A14_029780) 27484..28101 - 618 WP_012766323 hypothetical protein -
F0A14_RS29790 (F0A14_029785) 28269..31232 + 2964 WP_058662807 MobH family relaxase -
F0A14_RS29795 (F0A14_029790) 31229..33094 + 1866 WP_000178858 conjugative transfer system coupling protein TraD virb4
F0A14_RS29800 (F0A14_029795) 33144..33689 + 546 WP_023356350 hypothetical protein -
F0A14_RS29805 (F0A14_029800) 33646..34275 + 630 WP_000743448 DUF4400 domain-containing protein tfc7
F0A14_RS29810 (F0A14_029805) 34286..34732 + 447 WP_039272421 hypothetical protein -
F0A14_RS29815 (F0A14_029810) 34742..35119 + 378 WP_000869260 hypothetical protein -
F0A14_RS29820 (F0A14_029815) 35119..35781 + 663 WP_039272419 hypothetical protein -
F0A14_RS29825 (F0A14_029820) 36116..36463 + 348 WP_039272417 hypothetical protein -
F0A14_RS29830 (F0A14_029825) 36606..36887 + 282 WP_000805626 type IV conjugative transfer system protein TraL traL
F0A14_RS29835 (F0A14_029830) 36884..37510 + 627 WP_039272415 TraE/TraK family type IV conjugative transfer system protein traE
F0A14_RS29840 (F0A14_029835) 37494..38411 + 918 WP_012766326 type-F conjugative transfer system secretin TraK traK
F0A14_RS29845 (F0A14_029840) 38408..39724 + 1317 WP_039272412 TraB/VirB10 family protein traB
F0A14_RS29850 (F0A14_029845) 39721..40299 + 579 WP_039272410 type IV conjugative transfer system lipoprotein TraV traV
F0A14_RS29855 (F0A14_029850) 40303..40695 + 393 WP_012766327 TraA family conjugative transfer protein -
F0A14_RS29860 (F0A14_029855) 40896..46382 + 5487 WP_039272407 Ig-like domain-containing protein -
F0A14_RS29865 (F0A14_029860) 46531..47238 + 708 WP_001259344 DsbC family protein -
F0A14_RS29870 (F0A14_029865) 47235..49682 + 2448 WP_051479468 type IV secretion system protein TraC virb4
F0A14_RS29875 (F0A14_029870) 49697..50014 + 318 WP_000364398 hypothetical protein -
F0A14_RS29880 (F0A14_029875) 50011..50541 + 531 WP_000672456 S26 family signal peptidase -
F0A14_RS29885 (F0A14_029880) 50504..51772 + 1269 WP_039272404 TrbC family F-type conjugative pilus assembly protein traW
F0A14_RS29890 (F0A14_029885) 51769..52446 + 678 WP_039272402 EAL domain-containing protein -
F0A14_RS29895 (F0A14_029890) 52440..53444 + 1005 WP_000911304 TraU family protein traU
F0A14_RS29900 (F0A14_029895) 53595..56333 + 2739 WP_058662805 conjugal transfer mating pair stabilization protein TraN traN
F0A14_RS29905 (F0A14_029900) 56372..57232 - 861 WP_000679674 hypothetical protein -
F0A14_RS29910 (F0A14_029905) 57344..57994 - 651 WP_000796641 hypothetical protein -
F0A14_RS29915 (F0A14_029910) 58286..58606 + 321 WP_012766334 hypothetical protein -
F0A14_RS29920 (F0A14_029915) 58917..59102 + 186 WP_001186892 hypothetical protein -
F0A14_RS29925 (F0A14_029920) 59323..60291 + 969 WP_001553257 AAA family ATPase -
F0A14_RS29930 (F0A14_029925) 60303..61208 + 906 WP_058662804 hypothetical protein -

Host bacterium

ID   5924 GenBank   NZ_CP113906
Plasmid name   pPSKoxy4_2 Incompatibility group   IncA/C
Plasmid size   109858 bp Coordinate of oriT [Strand]   33145..33295 [+]
Host baterium   Klebsiella michiganensis strain PS_Koxy4

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -