Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200357
Name   oriT_ICEKpSL1 in_silico
Organism   Klebsiella pneumoniae strain SCsl1 ICEKpSL1 mobile element
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   MK257718 (46141..46264 [+], 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

>oriT_ICEKpSL1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGGGCGACGGTGTGCCGCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   16883 GenBank   QDL88860
Name   virB4_-_ICEKpSL1 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: 103084.02 Da        Isoelectric Point: 7.4625

>QDL88860.1 Type IV secretion system protein virB4 [Klebsiella pneumoniae]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGNAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
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.



ID   16884 GenBank   QDL88872
Name   mobB_-_ICEKpSL1 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: 69572.49 Da        Isoelectric Point: 5.9283

>QDL88872.1 mobilization protein MobB [Klebsiella pneumoniae]
MILNKLAASLSPIVNGMLALLAFVQQQQLMLALLAGLTMPFFVSMKSDERQKAPLWKRLIISFSLLCFLS
GTLAPIVIGSFQWLYKTRLTSDNTVLAWSVRIAFTVTGIIFHIMLRRVFTPELDKIKKRLVKKTTLEREL
RTDVRTVNSLLPETLHYDPLDYIDLNKGIFTGINRENEPMYLPLKDWQKQHADIIGTTGAGKGVATGILL
YQSILAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARIAAQFVSDNPSTTIRDVYNGDYVQSIAEKIKAFFGKIEELALLNAINAPTGF
SLNEIFDEGGCCYVIGSMRNSKIITSQRMLLVRLYQLAERRDRVTNVPRPIAIYLSELKYHLSRPALEGL
GAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKLVYRVMDPDTAEWVARMSGTILVDDEL
RKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTKTLPSASLISPIKIRKRQLKIFSVS
PDITASAAPVKIALDFDEDDKPSIQDVMTTHPGLFFNESEVKPAEPQPDAGEHLSPLDF

  Protein domains


Predicted by InterproScan.

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

(417-516)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 34800..48369

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
Locus_12 31334..32260 + 927 QDL88852 hypothetical protein -
Locus_13 32400..32585 + 186 QDL88853 Prophage CP4-57 regulatory protein (AlpA) -
Locus_14 32607..32789 + 183 QDL88854 hypothetical protein -
Locus_15 32774..33355 + 582 QDL88855 hypothetical protein -
Locus_16 33345..33554 + 210 QDL88856 hypothetical protein -
Locus_17 34494..34727 + 234 QDL88857 hypothetical protein -
Locus_18 34800..35510 + 711 QDL88858 Type IV secretion system protein virB1 virB1
Locus_19 35510..35803 + 294 QDL88859 type IV secretory pathway VirB2 component virB2
Locus_20 35816..38554 + 2739 QDL88860 Type IV secretion system protein virB4 virb4
Locus_21 38572..39279 + 708 QDL88861 type IV secretory pathway VirB5 component -
Locus_22 39287..39529 + 243 QDL88862 hypothetical protein -
Locus_23 39533..40606 + 1074 QDL88863 type IV secretory pathway VirB6 component virB6
Locus_24 40698..40835 + 138 QDL88864 hypothetical protein -
Locus_25 40828..41511 + 684 QDL88865 type IV secretory pathway VirB8 component virB8
Locus_26 41511..42416 + 906 QDL88866 type IV secretory pathway VirB9 component virB9
Locus_27 42460..43710 + 1251 QDL88867 type IV secretory pathway VirB10 component virB10
Locus_28 43700..44725 + 1026 QDL88868 type IV secretory pathway VirB11 component virB11
Locus_29 44722..45120 + 399 QDL88869 hypothetical protein -
Locus_30 45156..45461 + 306 QDL88870 hypothetical protein -
Locus_31 45495..45800 + 306 QDL88871 hypothetical protein -
Locus_32 46510..48369 + 1860 QDL88872 mobilization protein MobB virb4
Locus_33 48379..49125 + 747 QDL88873 hypothetical protein -
Locus_34 49319..50266 - 948 QDL88874 DNA primase TraC -
Locus_35 50604..51194 + 591 QDL88875 hypothetical protein -
Locus_36 51191..52150 + 960 QDL88876 hypothetical protein -
Locus_37 52390..52497 - 108 QDL88877 hypothetical protein -

Host bacterium

ID   314 Element type   ICE (Integrative and conjugative element)
Element name   ICEKpSL1 GenBank   MK257718
Element size   70211 bp Coordinate of oriT [Strand]   46141..46264 [+]
Host bacterium   Klebsiella pneumoniae strain SCsl1 ICEKpSL1 mobile element Coordinate of element   1..70211

Cargo genes

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