Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103307
Name   oriT_pEA409TEM24 in_silico
Organism   Klebsiella aerogenes strain EA409
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MG764534 (52372..52522 [+], 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_pEA409TEM24
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2469 GenBank   WP_001337757
Name   TraI_2_HTQ27_RS00385_pEA409TEM24 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   2247 GenBank   WP_000178856
Name   traD_HTQ27_RS00390_pEA409TEM24 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   2248 GenBank   WP_000637386
Name   traC_HTQ27_RS00470_pEA409TEM24 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: 50456..75647

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTQ27_RS00375 46481..46714 - 234 WP_001191892 hypothetical protein -
HTQ27_RS00380 46696..47313 - 618 WP_001249396 hypothetical protein -
HTQ27_RS00385 47481..50459 + 2979 WP_001337757 MobH family relaxase -
HTQ27_RS00390 50456..52321 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
HTQ27_RS00395 52332..52916 + 585 WP_000332866 hypothetical protein -
HTQ27_RS00400 52873..53502 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
HTQ27_RS00405 53512..53958 + 447 WP_000122506 hypothetical protein -
HTQ27_RS00410 53968..54345 + 378 WP_000869261 hypothetical protein -
HTQ27_RS00415 54345..55007 + 663 WP_001231463 hypothetical protein -
HTQ27_RS00420 55188..55331 + 144 WP_001275801 hypothetical protein -
HTQ27_RS00425 55343..55708 + 366 WP_001052531 hypothetical protein -
HTQ27_RS00430 55853..56134 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
HTQ27_RS00435 56131..56757 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
HTQ27_RS00440 56741..57658 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HTQ27_RS00445 57658..58971 + 1314 WP_024131605 TraB/VirB10 family protein traB
HTQ27_RS00450 58968..59546 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HTQ27_RS00455 59550..59942 + 393 WP_000479535 TraA family conjugative transfer protein -
HTQ27_RS00460 60143..65674 + 5532 WP_000606833 Ig-like domain-containing protein -
HTQ27_RS00465 65823..66530 + 708 WP_001259347 DsbC family protein -
HTQ27_RS00470 66527..68974 + 2448 WP_000637386 type IV secretion system protein TraC virb4
HTQ27_RS00475 68989..69306 + 318 WP_000351984 hypothetical protein -
HTQ27_RS00480 69303..69833 + 531 WP_001010738 S26 family signal peptidase -
HTQ27_RS00485 69796..71061 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
HTQ27_RS00490 71058..71729 + 672 WP_001337754 EAL domain-containing protein -
HTQ27_RS00495 71729..72733 + 1005 WP_043940352 TraU family protein traU
HTQ27_RS00500 72849..75647 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
HTQ27_RS00505 75686..76546 - 861 WP_000709517 hypothetical protein -
HTQ27_RS00510 76669..77310 - 642 WP_000796664 hypothetical protein -
HTQ27_RS00515 77604..77924 + 321 WP_000547566 hypothetical protein -
HTQ27_RS00520 78228..78413 + 186 WP_001186917 hypothetical protein -
HTQ27_RS00525 78633..79601 + 969 WP_000085162 AAA family ATPase -
HTQ27_RS00530 79612..80520 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   3750 GenBank   NZ_MG764534
Plasmid name   pEA409TEM24 Incompatibility group   IncA/C2
Plasmid size   167895 bp Coordinate of oriT [Strand]   52372..52522 [+]
Host baterium   Klebsiella aerogenes strain EA409

Cargo genes

Drug resistance gene   sul2, sul1, qacE, blaTEM-24, dfrA1, ant(3'')-Ia
Virulence gene   -
Metal resistance gene   merR, merT, merP, merC, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -