Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102335
Name   oriT_KZN_INI_KINF_60|unnamed25 in_silico
Organism   Klebsiella pneumoniae strain KZN_INI_KINF_60
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_VOOG01000092 (80386..80536 [+], 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_KZN_INI_KINF_60|unnamed25
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1775 GenBank   WP_001337757
Name   mobH_FTO39_RS28750_KZN_INI_KINF_60|unnamed25 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   1359 GenBank   WP_000178856
Name   traD_FTO39_RS28755_KZN_INI_KINF_60|unnamed25 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   1360 GenBank   WP_000637386
Name   traC_FTO39_RS28830_KZN_INI_KINF_60|unnamed25 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: 78470..103661

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FTO39_RS28740 (FTO39_28740) 74495..74728 - 234 WP_001191892 hypothetical protein -
FTO39_RS28745 (FTO39_28745) 74710..75327 - 618 WP_001249396 hypothetical protein -
FTO39_RS28750 (FTO39_28750) 75495..78473 + 2979 WP_001337757 MobH family relaxase -
FTO39_RS28755 (FTO39_28755) 78470..80335 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
FTO39_RS28760 (FTO39_28760) 80385..80930 + 546 WP_000228720 hypothetical protein -
FTO39_RS28765 (FTO39_28765) 80887..81516 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
FTO39_RS28770 (FTO39_28770) 81526..81972 + 447 WP_000122506 hypothetical protein -
FTO39_RS28775 (FTO39_28775) 81982..82359 + 378 WP_000869261 hypothetical protein -
FTO39_RS28780 (FTO39_28780) 82359..83021 + 663 WP_001231463 hypothetical protein -
FTO39_RS30810 83202..83345 + 144 WP_001275801 hypothetical protein -
FTO39_RS28785 (FTO39_28785) 83357..83722 + 366 WP_001052531 hypothetical protein -
FTO39_RS28790 (FTO39_28790) 83867..84148 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
FTO39_RS28795 (FTO39_28795) 84145..84771 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
FTO39_RS28800 (FTO39_28800) 84755..85672 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
FTO39_RS28805 (FTO39_28805) 85672..86985 + 1314 WP_024131605 TraB/VirB10 family protein traB
FTO39_RS28810 (FTO39_28810) 86982..87560 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
FTO39_RS28815 (FTO39_28815) 87564..87956 + 393 WP_000479535 TraA family conjugative transfer protein -
FTO39_RS28820 (FTO39_28820) 88157..93688 + 5532 WP_147015817 Ig-like domain-containing protein -
FTO39_RS28825 (FTO39_28825) 93837..94544 + 708 WP_001259347 DsbC family protein -
FTO39_RS28830 (FTO39_28830) 94541..96988 + 2448 WP_000637386 type IV secretion system protein TraC virb4
FTO39_RS28835 (FTO39_28835) 97003..97320 + 318 WP_000351984 hypothetical protein -
FTO39_RS28840 (FTO39_28840) 97317..97847 + 531 WP_001010738 S26 family signal peptidase -
FTO39_RS28845 (FTO39_28845) 97810..99075 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
FTO39_RS28850 (FTO39_28850) 99072..99743 + 672 WP_001337754 EAL domain-containing protein -
FTO39_RS28855 (FTO39_28855) 99743..100747 + 1005 WP_043940352 TraU family protein traU
FTO39_RS28860 (FTO39_28860) 100863..103661 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
FTO39_RS28865 (FTO39_28865) 103700..104560 - 861 WP_000709517 hypothetical protein -
FTO39_RS28870 (FTO39_28870) 104683..105324 - 642 WP_000796664 hypothetical protein -
FTO39_RS28875 (FTO39_28875) 105618..105938 + 321 WP_000547566 hypothetical protein -
FTO39_RS28880 (FTO39_28880) 106242..106427 + 186 WP_001186917 hypothetical protein -
FTO39_RS28885 (FTO39_28885) 106647..107615 + 969 WP_000085162 AAA family ATPase -
FTO39_RS28890 (FTO39_28890) 107626..108534 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   2779 GenBank   NZ_VOOG01000092
Plasmid name   KZN_INI_KINF_60|unnamed25 Incompatibility group   IncA/C2
Plasmid size   140537 bp Coordinate of oriT [Strand]   80386..80536 [+]
Host baterium   Klebsiella pneumoniae strain KZN_INI_KINF_60

Cargo genes

Drug resistance gene   blaCTX-M-3
Virulence gene   -
Metal resistance gene   merE, merD, merA, merC, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -