Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200222
Name   oriT2_ICEKpnKp_Goe_121641-1 in_silico
Organism   Klebsiella pneumoniae strain Kp_Goe_121641
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   CP018735 ( 18259..18382 [-], 124 nt)
oriT length   124 nt
IRs (inverted repeats)      40..47, 59..66  (ATTTTTTC..GAAAAAAT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 124 nt

>oriT2_ICEKpnKp_Goe_121641-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14317 GenBank   APQ25668
Name   Replic_Relax_BB745_01865_ICEKpnKp_Goe_121641-1 insolico UniProt ID   _
Length   248 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 248 a.a.        Molecular weight: 29203.78 Da        Isoelectric Point: 10.3502

>APQ25668.1 hypothetical protein BB745_01865 [Klebsiella pneumoniae]
MLISSYHERQTRNSEKIRQLLNFLKEETYSDFKTLMQLFSFRDHKSLYSLLAKMERMGLIQKHMLESRTI
KISLWGITSDGLAAVLTPNDKIFPARFEPSKITGWTLEHHLDNQAARLILEKKGASGWINGDRASFLSQY
QVKHRPDGLLTLPDGNVIAIETERRLKTRARYQSIIASHLLARTNKYWIYIFYVVPDPQKKRALELLFDS
IRHVIINHQHIPLEERHRRVFRIYTFDELKHLSLGSYT

  Protein domains



No domain identified.



  Protein structure



No available structure.




T4CP

ID   16706 GenBank   APQ25669
Name   t4cp2_BB745_01866_ICEKpnKp_Goe_121641-1 insolico UniProt ID   _
Length   619 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 619 a.a.        Molecular weight: 69429.53 Da        Isoelectric Point: 6.2155

>APQ25669.1 conjugative coupling factor TraD, SXT/TOL subfamily [Klebsiella pneumoniae]
MILNKLAASLSPIVNGMLALLAFVQQQQLVLALLAGLTMPFFASMKSDERQKAPLWKKLIIAFSLLCFLS
GTLAPVVIGPFQWLYKIRPSSDNTVLAWSVRIAFTVTGVIFHIMLRRIFTPELDKIKKRLVKKTTLEREL
RTDVRTVKSLLPETLHYDPLDYIDLNKGIFTGMDRENEPMYLPLKDWQKQHADIIGTTGAGKGVAAGILL
YQSIIAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARMAAQFVSDNPSATLRDIYNGDYVQGIAEKIKAFFGKIEELALLNAINSPEGF
SLKHIFDEGGCCYVVGSMRNSKIITAQRMLLVRLYQLAERRDRVTDVPRPIAVYLSELKYHLSRPALEGL
GAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKLVYRVMDPDTAGWVARMSGTILVDDEL
RKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTKTLPSASLISPIKVRKRQLKIFSVS
PDIAAAAAPVKIMLDFGEDDKPAMPDVMTTHPALFFDESEVKPAKSQSDDEEHFSPLDF

  Protein domains



No domain identified.


  Protein structure



No available structure.



ID   16707 GenBank   APQ25678
Name   virB4_BB745_01875_ICEKpnKp_Goe_121641-1 insolico UniProt ID   _
Length   912 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 912 a.a.        Molecular weight: 103120.09 Da        Isoelectric Point: 7.1738

>APQ25678.1 Type IV secretion system protein virB4 [Klebsiella pneumoniae]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAVWTSVALLFLLPVEFLVMKSLTRNEPMRFNLIAVWLR
VKGKPVANRLFGATTLMPVEHEAVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIHSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGVFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGSAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLENLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTIFPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDDMKFEPEVFDVVKGL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL

  Protein domains


Predicted by InterproScan.

Type IV secretory pathway, VirB3-like protein (VirB3)

(3-79)

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(269-470)

TraG P-loop domain (P-loop_TraG)

(535-813)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1900233..1910173

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BB745_01865 1895820..1896566 - 747 APQ25668 hypothetical protein -
BB745_01866 1896576..1898435 - 1860 APQ25669 conjugative coupling factor TraD, SXT/TOL subfamily -
BB745_01867 1899145..1899450 - 306 APQ25670 hypothetical protein -
BB745_01868 1900233..1901258 - 1026 APQ25671 Type IV secretion system protein VirB11 virB11
BB745_01869 1901248..1902510 - 1263 APQ25672 Type IV secretion system protein virB10 virB10
BB745_01870 1902554..1903459 - 906 APQ25673 Type IV secretion system protein virB9 precursor virB9
BB745_01871 1903459..1904142 - 684 APQ25674 Pertussis toxin liberation protein E virB8
BB745_01872 1904360..1905433 - 1074 APQ25675 TrbL/VirB6 plasmid conjugal transfer protein virB6
BB745_01873 1905437..1905679 - 243 APQ25676 hypothetical protein -
BB745_01874 1905687..1906400 - 714 APQ25677 P-type DNA transfer protein VirB5 -
BB745_01875 1906419..1909157 - 2739 APQ25678 Type IV secretion system protein virB4 virb4
BB745_01876 1909170..1909463 - 294 APQ25679 Pertussis toxin liberation protein A virB2
BB745_01877 1909463..1910173 - 711 APQ25680 Type IV secretion system protein virB1 virB1
BB745_01878 1910246..1910479 - 234 APQ25681 hypothetical protein -
BB745_01879 1911618..1912199 - 582 APQ25682 hypothetical protein -
BB745_01880 1912388..1912573 - 186 APQ25683 putative transcriptional regulator -
BB745_01881 1912713..1913639 - 927 APQ25684 hypothetical protein -

Host bacterium

ID   208 Element type   ICE (Integrative and conjugative element)
Element name   ICEKpnKp_Goe_121641-1 GenBank   CP018735
Element size   5478335 bp Coordinate of oriT [Strand]   8649..8681 [-]; 18259..18382 [-]
Host bacterium   Klebsiella pneumoniae strain Kp_Goe_121641 Coordinate of element   1880423..1944972

Cargo genes

Drug resistance gene   -
Virulence gene   fyuA, ybtE, ybtT, ybtU, irp1, irp2, ybtA, ybtP, ybtQ, ybtX, ybtS
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -