Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200263
Name   oriT_ICEKpnLS359-1 in_silico
Organism   Klebsiella pneumoniae strain LS359
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   CP025630 (65157..65280 [+], 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_ICEKpnLS359-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGGACGACGGTGTGCCGCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   16772 GenBank   AUN52706
Name   t4cp2_C0078_13485_ICEKpnLS359-1 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: 102964.94 Da        Isoelectric Point: 7.3393

>AUN52706.1 ATPase [Klebsiella pneumoniae]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAVWTSVALLFLLPVEFLVMKSLTRNEPMRFNLIAVWLR
VKGKPVANRLFGATTLMPVEHEAVDIKEFIDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIHSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGVFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGSAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLASGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFELEVFDVVKGL
DPQSRQYVVVKNQFKRGDTKRFAARITLDLSGIGRHTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL

  Protein domains


Predicted by InterproScan.

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

(3-79)

TraG P-loop domain (P-loop_TraG)

(535-813)

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

(269-470)

  Protein structure



No available structure.



ID   16773 GenBank   AUN52718
Name   t4cp2_C0078_13550_ICEKpnLS359-1 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: 69479.56 Da        Isoelectric Point: 6.7742

>AUN52718.1 long polar fimbrial protein LpfD [Klebsiella pneumoniae]
MILNKLAASLSPIVNGMLAVLAFVQQKQLVLALLAGLTMPFFASMKSDERQKAPLWKRLIIAFSLLCFLS
GTLAPIVIGSFQWLYKTRLTSDNTVLAWSVRIAFTVTGIIFHIMLRRVITPELDKIKKHLVKKTTLEREL
RTDVRTVKSLLPQTLHYNPLDYIDLNKGIFTGMDRENEPMYLPLKDWQKQHADIIGTTGAGKGVATGILL
YQSILAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARMAAQFVSDNPSTTIRDVYNGDYVQGIAEKIKAFFGKIEELALLNAINSPEGF
SLKKIFDEGGCCYVIGSMRNSKIITAQRMLLVRLYQLAERRERVTDVPRPIAIYLSELKYHLSRPALEGL
GAARDKGVHIVMDHQSIADLKDCPADLKGDAVVGAVVENAKFKLVYRVMDPDTADWVARMSGTILVDDEL
RKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTKTLPSASLISPIKVRKRRLKTFSVS
PDIAAAAAPVRVALDFGDDDKPTALDEMTSHPALFFDENEVKPAKPQPGEEERLSPLDF

  Protein domains


Predicted by InterproScan.

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

(404-542)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 2703026..2724310

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C0078_13395 2698327..2698572 + 246 AUN52692 hypothetical protein -
C0078_13400 2698727..2700901 - 2175 AUN52693 TonB-dependent siderophore receptor -
C0078_13405 2701369..2701600 + 232 Protein_2637 ISNCY family transposase -
C0078_13410 2701773..2702888 + 1116 AUN52694 DUF1205 domain-containing protein -
C0078_13415 2703026..2706670 + 3645 AUN52695 ABC transporter ATP-binding protein virb4
C0078_13420 2706776..2708005 + 1230 AUN52696 esterase family protein -
C0078_13425 2708367..2708581 + 215 Protein_2641 TonB-dependent siderophore receptor -
C0078_13430 2708646..2708867 + 222 AUN52697 hypothetical protein -
C0078_13435 2709010..2709924 - 915 AUN52698 EamA family transporter -
C0078_13440 2709997..2710548 - 552 AUN52699 hypothetical protein -
C0078_13445 2710728..2710952 - 225 AUN52700 hypothetical protein -
C0078_13450 2710924..2711539 - 616 AUN52701 response regulator -
C0078_13455 2712126..2712779 + 654 AUN52702 class I SAM-dependent methyltransferase -
C0078_13460 2712859..2713349 - 491 Protein_2648 IS3 family transposase -
C0078_13465 2713417..2713632 - 216 Protein_2649 hypothetical protein -
C0078_13470 2714087..2714320 + 234 AUN52703 hypothetical protein -
C0078_13475 2714375..2715103 + 729 AUN52704 type VI secretion protein virB1
C0078_13480 2715103..2715396 + 294 AUN52705 TriB protein virB2
C0078_13485 2715409..2718147 + 2739 AUN52706 ATPase virb4
C0078_13490 2718165..2718869 + 705 AUN52707 type IV secretion system protein VirB5 -
C0078_13495 2718879..2719106 + 228 AUN52708 hypothetical protein -
C0078_13500 2719118..2720197 + 1080 AUN52709 conjugal transfer protein TrbL virB6
C0078_13505 2720413..2721096 + 684 AUN52710 type IV secretion system protein virB8
C0078_13510 2721093..2722001 + 909 AUN52711 P-type conjugative transfer protein VirB9 virB9
C0078_13515 2722039..2723295 + 1257 AUN52712 type VI secretion protein virB10
C0078_13520 2723285..2724310 + 1026 AUN52713 P-type DNA transfer ATPase VirB11 virB11
C0078_13525 2724307..2724705 + 399 AUN52714 Cag pathogenicity island protein Cag12 -
C0078_13530 2724741..2725043 + 303 AUN52715 kikA from plasmid origin -
C0078_13535 2725086..2725391 + 306 AUN52716 dpoa decarboxylase -
C0078_13540 2725412..2725804 + 393 Protein_2664 hypothetical protein -
C0078_13545 2725823..2726104 + 282 AUN52717 hypothetical protein -
C0078_13550 2726101..2727960 + 1860 AUN52718 long polar fimbrial protein LpfD -
C0078_13555 2727970..2728716 + 747 AUN52719 molybdopterin-guanine dinucleotide biosynthesis protein MobC -

Host bacterium

ID   240 Element type   ICE (Integrative and conjugative element)
Element name   ICEKpnLS359-1 GenBank   CP025630
Element size   4766516 bp Coordinate of oriT [Strand]   65157..65280 [+]
Host bacterium   Klebsiella pneumoniae strain LS359 Coordinate of element   2660576..2737194

Cargo genes

Drug resistance gene   -
Virulence gene   ybtS, ybtX, ybtQ, ybtP, ybtA, irp1, ybtU, ybtT, ybtE, fyuA, iroN, iroB, iroC, iroD, rmpA
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -