Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200177
Name   oriT_ICEKpnAR_0153-1 in_silico
Organism   Klebsiella pneumoniae strain AR_0153
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   CP028932 (46134..46257 [+], 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_ICEKpnAR_0153-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   16631 GenBank   AWC01370
Name   t4cp2_AM400_07820_ICEKpnAR_0153-1 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: 103084.02 Da        Isoelectric Point: 7.4625

>AWC01370.1 ATPase [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   16632 GenBank   AWC01383
Name   t4cp2_AM400_07885_ICEKpnAR_0153-1 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: 69522.72 Da        Isoelectric Point: 6.7740

>AWC01383.1 MFS transporter [Klebsiella pneumoniae]
MILNKLTASLSPIVNGMLAVLAFVQQKQLVLALLAGLTMPFFASMKSDERQKAPLWKRLIIAFSLLCFLS
GTLAPIVIGSFQWLYKTRLTSDNTVLVWSVRIAFTVTGIIFHIMLRRVFTPELDKIKKHLVKKTTLEREL
RTDVRTVKSLLPETLHYDPLDYIDLNKGIFTGMDRENEPMYLPLKDWQKQHADIIGTTGAGKGVATGILL
YQSILAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARMAAQFVSDNPSTTIRDVYNGDYVQGIAEKIKAFFGKIEELALLNAINSPEGF
SLKKIFDEGGCCYVIGSMRNSKIITAQRMLLVRLYQLAERRERVTDVPRPIAIYLSELKYHLSRPALEGL
GAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKMVYRVMDPDTADWIARMSGTILVDDEL
RKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTTTLPSASLISPIKVRKRRLKTFSVS
PDIAAAAAPVKIALDFGDDDKPTALDVMASHPALFFDKSEVKPTKPKPDDEKDLSPLDF

  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: 991589..1001524

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AM400_07775 988085..989068 + 984 AWC01362 hypothetical protein -
AM400_07780 989208..989393 + 186 AWC01363 AlpA family transcriptional regulator -
AM400_07785 989412..989596 + 185 Protein_992 hypothetical protein -
AM400_07790 989581..990162 + 582 AWC01364 DUF2857 domain-containing protein -
AM400_07795 990152..990361 + 210 AWC01365 conjugal transfer protein TraR -
AM400_07800 990565..990732 + 168 AWC01366 transcriptional regulator -
AM400_07805 991301..991534 + 234 AWC01367 hypothetical protein -
AM400_07810 991589..992317 + 729 AWC01368 type VI secretion protein virB1
AM400_07815 992317..992610 + 294 AWC01369 TriB protein virB2
AM400_07820 992623..995361 + 2739 AWC01370 ATPase virb4
AM400_07825 995379..996086 + 708 AWC01371 type IV secretion system protein VirB5 -
AM400_07830 996094..996336 + 243 AWC01372 hypothetical protein -
AM400_07835 996340..997413 + 1074 AWC01373 conjugal transfer protein TrbL virB6
AM400_07840 997635..998318 + 684 AWC01374 type IV secretion system protein virB8
AM400_07845 998315..999223 + 909 AWC01375 P-type conjugative transfer protein VirB9 virB9
AM400_07850 999253..1000509 + 1257 AWC01376 type VI secretion protein virB10
AM400_07855 1000499..1001524 + 1026 AWC01377 P-type DNA transfer ATPase VirB11 virB11
AM400_07860 1001521..1001919 + 399 AWC01378 Cag pathogenicity island protein Cag12 -
AM400_07865 1001955..1002260 + 306 AWC01379 conjugal transfer protein -
AM400_07870 1002294..1002599 + 306 AWC01380 dpoa decarboxylase -
AM400_07875 1002710..1003012 + 303 AWC01381 hypothetical protein -
AM400_07880 1003031..1003309 + 279 AWC01382 hypothetical protein -
AM400_07885 1003309..1005168 + 1860 AWC01383 MFS transporter -
AM400_07890 1005178..1005924 + 747 AWC01384 molybdopterin-guanine dinucleotide biosynthesis protein MobC -

Host bacterium

ID   169 Element type   ICE (Integrative and conjugative element)
Element name   ICEKpnAR_0153-1 GenBank   CP028932
Element size   5341581 bp Coordinate of oriT [Strand]   46134..46257 [+]
Host bacterium   Klebsiella pneumoniae strain AR_0153 Coordinate of element   956807..1023030

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   -