Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102704
Name   oriT_INF298|3 in_silico
Organism   Klebsiella pneumoniae strain INF298 isolate INF298
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LR890428 (80883..81033 [+], 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_INF298|3
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1990 GenBank   WP_001337757
Name   TraI_2_JMX68_RS28380_INF298|3 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   1631 GenBank   WP_000178856
Name   traD_JMX68_RS28385_INF298|3 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   1632 GenBank   WP_000637386
Name   traC_JMX68_RS28465_INF298|3 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: 78967..99556

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JMX68_RS28370 74992..75225 - 234 WP_001191892 hypothetical protein -
JMX68_RS28375 75207..75824 - 618 WP_001249396 hypothetical protein -
JMX68_RS28380 75992..78970 + 2979 WP_001337757 MobH family relaxase -
JMX68_RS28385 78967..80832 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
JMX68_RS28390 80882..81427 + 546 WP_000228720 hypothetical protein -
JMX68_RS28395 81384..82013 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
JMX68_RS28400 82023..82469 + 447 WP_000122506 hypothetical protein -
JMX68_RS28405 82479..82856 + 378 WP_000869261 hypothetical protein -
JMX68_RS28410 82856..83518 + 663 WP_001231463 hypothetical protein -
JMX68_RS28415 83699..83842 + 144 WP_001275801 hypothetical protein -
JMX68_RS28420 83854..84219 + 366 WP_001052531 hypothetical protein -
JMX68_RS28425 84364..84645 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
JMX68_RS28430 84642..85268 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
JMX68_RS28435 85252..86169 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
JMX68_RS28440 86169..87482 + 1314 WP_024131605 TraB/VirB10 family protein traB
JMX68_RS28445 87479..88057 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
JMX68_RS28450 88061..88453 + 393 WP_000479535 TraA family conjugative transfer protein -
JMX68_RS28455 88654..94169 + 5516 Protein_113 Ig-like domain-containing protein -
JMX68_RS28460 94318..95025 + 708 WP_001259347 DsbC family protein -
JMX68_RS28465 95022..97469 + 2448 WP_000637386 type IV secretion system protein TraC virb4
JMX68_RS28470 97484..97801 + 318 WP_000351984 hypothetical protein -
JMX68_RS28475 97798..98328 + 531 WP_001010738 S26 family signal peptidase -
JMX68_RS28480 98291..99556 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
JMX68_RS28485 99553..100224 + 672 WP_001337754 EAL domain-containing protein -
JMX68_RS28490 100224..100676 + 453 Protein_120 TraU family protein -
JMX68_RS28495 100727..101431 - 705 WP_001067855 IS6-like element IS26 family transposase -

Host bacterium

ID   3147 GenBank   NZ_LR890428
Plasmid name   INF298|3 Incompatibility group   IncA/C2
Plasmid size   128238 bp Coordinate of oriT [Strand]   80883..81033 [+]
Host baterium   Klebsiella pneumoniae strain INF298 isolate INF298

Cargo genes

Drug resistance gene   dfrA23, blaVEB-1, ant(2'')-Ia, ARR-3, cmlA1, blaOXA-10, ant(3'')-Ia, qacE, floR, tet(G), rmtB, blaTEM-1B, blaCTX-M-15, tet(A), aph(6)-Id, aph(3'')-Ib, sul2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -