Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104171
Name   oriT_pKLO00015_5 in_silico
Organism   Klebsiella michiganensis strain KLO00015
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OP378640 (63295..63445 [+], 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_pKLO00015_5
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3064 GenBank   WP_001337757
Name   mobH_PWC29_RS00430_pKLO00015_5 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   2955 GenBank   WP_000178856
Name   traD_PWC29_RS00435_pKLO00015_5 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   2956 GenBank   WP_000637386
Name   traC_PWC29_RS00515_pKLO00015_5 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: 61379..86570

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PWC29_RS00420 57404..57637 - 234 WP_001191892 hypothetical protein -
PWC29_RS00425 57619..58236 - 618 WP_001249396 hypothetical protein -
PWC29_RS00430 58404..61382 + 2979 WP_001337757 MobH family relaxase -
PWC29_RS00435 61379..63244 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
PWC29_RS00440 63255..63839 + 585 WP_000332866 hypothetical protein -
PWC29_RS00445 63796..64425 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
PWC29_RS00450 64435..64881 + 447 WP_000122506 hypothetical protein -
PWC29_RS00455 64891..65268 + 378 WP_000869261 hypothetical protein -
PWC29_RS00460 65268..65930 + 663 WP_001231463 hypothetical protein -
PWC29_RS00465 66111..66254 + 144 WP_001275801 hypothetical protein -
PWC29_RS00470 66266..66631 + 366 WP_001052531 hypothetical protein -
PWC29_RS00475 66776..67057 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
PWC29_RS00480 67054..67680 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
PWC29_RS00485 67664..68581 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
PWC29_RS00490 68581..69894 + 1314 WP_024131605 TraB/VirB10 family protein traB
PWC29_RS00495 69891..70469 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
PWC29_RS00500 70473..70865 + 393 WP_000479535 TraA family conjugative transfer protein -
PWC29_RS00505 71066..76597 + 5532 WP_000606833 Ig-like domain-containing protein -
PWC29_RS00510 76746..77453 + 708 WP_001259347 DsbC family protein -
PWC29_RS00515 77450..79897 + 2448 WP_000637386 type IV secretion system protein TraC virb4
PWC29_RS00520 79912..80229 + 318 WP_000351984 hypothetical protein -
PWC29_RS00525 80226..80756 + 531 WP_001010738 S26 family signal peptidase -
PWC29_RS00530 80719..81984 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
PWC29_RS00535 81981..82652 + 672 WP_001337754 EAL domain-containing protein -
PWC29_RS00540 82652..83656 + 1005 WP_043940352 TraU family protein traU
PWC29_RS00545 83760..86570 + 2811 WP_001909286 conjugal transfer mating pair stabilization protein TraN traN
PWC29_RS00550 86609..87469 - 861 WP_000709517 hypothetical protein -
PWC29_RS00555 87592..88233 - 642 WP_000796664 hypothetical protein -
PWC29_RS00560 88527..88847 + 321 WP_000547566 hypothetical protein -
PWC29_RS00565 89151..89336 + 186 WP_001186917 hypothetical protein -
PWC29_RS00570 89556..90524 + 969 WP_000085162 AAA family ATPase -
PWC29_RS00575 90535..91443 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   4610 GenBank   NZ_OP378640
Plasmid name   pKLO00015_5 Incompatibility group   IncA/C2
Plasmid size   192871 bp Coordinate of oriT [Strand]   63295..63445 [+]
Host baterium   Klebsiella michiganensis strain KLO00015

Cargo genes

Drug resistance gene   blaFOX-5, blaCARB-2, aadA2, cmlA1, sul1, qnrA1, dfrA19, ant(2'')-Ia, catB3, msr(E), mph(E)
Virulence gene   -
Metal resistance gene   merE, merD, merA, merC, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -