Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117589
Name   oriT_pKp4101 in_silico
Organism   Klebsiella quasipneumoniae strain N18-04101
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP047282 (128150..128300 [+], 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_pKp4101
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11210 GenBank   WP_001326173
Name   mobH_F3109_RS26550_pKp4101 insolico UniProt ID   F5BPR1
Length   990 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 990 a.a.        Molecular weight: 109356.90 Da        Isoelectric Point: 4.9395

>WP_001326173.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSVRVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEVDDDQEEDVSALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGSTESSKPD
AGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPFDA
FSASAETASTDATNSEIPDVAMPGKQEKQPKQDFVPQEQNSLQGDDFPMFGSSDEPPSWAIEPLPMLTDA
PEQTTPAPAMPPTDKPNLHEKDAKTLLVEMLAGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILY
PDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDA
FELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKPSPEQKAKGKDSQPQQKEKKVDVTSPVEEPQRQ
PVQEKQNVARLPKREVQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSGVT
PQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKKRQ
GKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB F5BPR1


T4CP

ID   13093 GenBank   WP_000178857
Name   traD_F3109_RS26555_pKp4101 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: 69225.71 Da        Isoelectric Point: 6.9403

>WP_000178857.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKVKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(170-299)

TraM recognition site of TraD and TraG (TraG-D_C)

(471-598)

  Protein structure



No available structure.



ID   13094 GenBank   WP_000637384
Name   traC_F3109_RS26650_pKp4101 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: 92604.86 Da        Isoelectric Point: 5.9216

>WP_000637384.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSQGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRRQAA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(284-434)

TraC protein (TraC_F_IV)

(21-255)

TraG P-loop domain (P-loop_TraG)

(449-809)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 82627..93334

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
F3109_RS26275 (F3109_26060) 78052..78879 - 828 WP_032442021 ParB N-terminal domain-containing protein -
F3109_RS26280 (F3109_26065) 78882..80867 - 1986 WP_032662460 hypothetical protein -
F3109_RS26285 (F3109_26070) 81899..82612 + 714 WP_032442022 hypothetical protein -
F3109_RS26290 (F3109_26075) 82627..83649 + 1023 WP_032442023 ATPase, T2SS/T4P/T4SS family virB11
F3109_RS26295 (F3109_26080) 84348..84623 + 276 WP_002353183 hypothetical protein -
F3109_RS26300 (F3109_26085) 84630..84989 + 360 WP_002353162 hypothetical protein -
F3109_RS26305 (F3109_26090) 85001..87580 + 2580 WP_002353188 VirB4 family type IV secretion system protein virb4
F3109_RS26310 (F3109_26095) 87577..88389 + 813 WP_032442024 hypothetical protein -
F3109_RS26315 (F3109_26100) 88389..88847 + 459 WP_032442025 hypothetical protein -
F3109_RS26320 (F3109_26105) 88893..89867 + 975 WP_032442026 type IV secretion system protein virB6
F3109_RS26325 (F3109_26110) 89878..90603 + 726 WP_002353163 VirB8/TrbF family protein virB8
F3109_RS26330 (F3109_26115) 90608..91441 + 834 WP_032442027 TrbG/VirB9 family P-type conjugative transfer protein virB9
F3109_RS26335 (F3109_26120) 91444..92817 + 1374 WP_032442028 TrbI/VirB10 family protein virB10
F3109_RS26340 (F3109_26125) 92798..93334 + 537 WP_032442029 pilus assembly protein PilL tfc2
F3109_RS26345 (F3109_26130) 93340..93531 + 192 WP_032662474 membrane lipoprotein lipid attachment site-containing protein -
F3109_RS26350 (F3109_26135) 93528..94214 + 687 WP_032442030 lytic transglycosylase domain-containing protein -
F3109_RS26355 (F3109_26140) 94215..94565 + 351 WP_043053774 TrbM/KikA/MpfK family conjugal transfer protein -
F3109_RS26360 (F3109_26145) 94607..95053 + 447 WP_183474563 single-stranded DNA-binding protein -
F3109_RS26365 (F3109_26150) 95065..95769 + 705 WP_001067858 IS6-like element IS26 family transposase -
F3109_RS26370 (F3109_26155) 95822..96421 + 600 Protein_121 IS110-like element IS5075 family transposase -
F3109_RS26375 (F3109_26160) 96947..97807 - 861 WP_000027057 broad-spectrum class A beta-lactamase TEM-1 -

Region 2: 126234..135324

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
F3109_RS26540 (F3109_26330) 122265..122498 - 234 WP_001191890 hypothetical protein -
F3109_RS26545 (F3109_26335) 122480..123097 - 618 WP_001249395 hypothetical protein -
F3109_RS26550 (F3109_26340) 123265..126237 + 2973 WP_001326173 MobH family relaxase -
F3109_RS26555 (F3109_26345) 126234..128099 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
F3109_RS26560 (F3109_26350) 128149..128694 + 546 WP_000228720 hypothetical protein -
F3109_RS26565 (F3109_26355) 128651..129280 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
F3109_RS26570 (F3109_26360) 129290..129736 + 447 WP_000122507 hypothetical protein -
F3109_RS26575 (F3109_26365) 129746..130123 + 378 WP_000869297 hypothetical protein -
F3109_RS26580 (F3109_26370) 130123..130785 + 663 WP_001231464 hypothetical protein -
F3109_RS26585 (F3109_26375) 131121..131486 + 366 WP_001052530 hypothetical protein -
F3109_RS26590 (F3109_26380) 131631..131912 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
F3109_RS26595 (F3109_26385) 131909..132535 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
F3109_RS26600 (F3109_26390) 132519..133436 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
F3109_RS26605 (F3109_26395) 133436..134749 + 1314 WP_024131605 TraB/VirB10 family protein traB
F3109_RS26610 (F3109_26400) 134746..135324 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
F3109_RS26615 (F3109_26405) 135328..135720 + 393 WP_000479535 TraA family conjugative transfer protein -
F3109_RS26620 (F3109_26410) 136005..137267 + 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
F3109_RS26625 (F3109_26415) 137591..138736 + 1146 WP_015056382 class C beta-lactamase CMY-4 -
F3109_RS26630 (F3109_26420) 138830..139363 + 534 WP_001221666 lipocalin family protein -
F3109_RS26635 (F3109_26425) 139360..139677 - 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
F3109_RS27170 (F3109_26430) 139934..140299 + 366 Protein_175 LuxR family transcriptional regulator -

Host bacterium

ID   18022 GenBank   NZ_CP047282
Plasmid name   pKp4101 Incompatibility group   IncA/C2
Plasmid size   187068 bp Coordinate of oriT [Strand]   128150..128300 [+]
Host baterium   Klebsiella quasipneumoniae strain N18-04101

Cargo genes

Drug resistance gene   blaOXA-204, sul2, aph(3'')-Ib, aph(6)-Id, tet(A), catA2, blaTEM-1B, aac(3)-IId, blaCMY-4
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merT, merR, merB
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -