Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115208
Name   oriT_p2-KQ20605 in_silico
Organism   Klebsiella quasipneumoniae subsp. similipneumoniae strain KQ20605
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP133207 (46184..46284 [+], 101 nt)
oriT length   101 nt
IRs (inverted repeats)      80..85, 91..96  (AAAAAA..TTTTTT)
 20..26, 38..44  (TAAATCA..TGATTTA)
Location of nic site      62..63
Conserved sequence flanking the
  nic site    		  GGTGTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 101 nt

>oriT_p2-KQ20605
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9720 GenBank   WP_012561166
Name   mobF_RCF66_RS25990_p2-KQ20605 insolico UniProt ID   D7RU03
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120141.30 Da        Isoelectric Point: 6.5229

>WP_012561166.1 MULTISPECIES: MobF family relaxase [Gammaproteobacteria]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATMADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKNEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

UvrD-like helicase C-terminal domain (UvrD_C_2)

(851-895)

TrwC relaxase (TrwC)

(16-287)

AAA domain (AAA_30)

(477-653)


  Protein structure


Source ID Structure
AlphaFold DB D7RU03


Auxiliary protein

ID   5711 GenBank   WP_001749975
Name   WP_001749975_p2-KQ20605 insolico UniProt ID   A0A5C2CVS6
Length   138 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 138 a.a.        Molecular weight: 15332.60 Da        Isoelectric Point: 5.9670

>WP_001749975.1 MULTISPECIES: hypothetical protein [Gammaproteobacteria]
MPIITAKVSDELLAYIDLVSGGNRSDYLRRCIEAGPGDRESGLKIVADRLSDVNRKLDYLFDRASDADFG
PLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIAEPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A5C2CVS6


T4CP

ID   11336 GenBank   WP_021740568
Name   t4cp2_RCF66_RS25995_p2-KQ20605 insolico UniProt ID   _
Length   509 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 509 a.a.        Molecular weight: 57738.89 Da        Isoelectric Point: 9.6550

>WP_021740568.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacteriaceae]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVRARTLADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
TIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNAYDKRTEGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVILWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESR
INVFIDELESLQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD
ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
KHVKYHRKNPVPGIELREI

  Protein domains


Predicted by InterproScan.

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

(113-489)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 11930..22255

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
RCF66_RS25765 7775..9208 - 1434 WP_001288432 DNA cytosine methyltransferase -
RCF66_RS25770 9307..9579 + 273 Protein_10 IS1 family transposase -
RCF66_RS25775 9590..9796 - 207 WP_001749967 hypothetical protein -
RCF66_RS25780 9801..10448 - 648 WP_015344958 restriction endonuclease -
RCF66_RS25785 10498..10731 - 234 WP_001191790 hypothetical protein -
RCF66_RS25790 10845..11159 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
RCF66_RS25795 11156..11500 - 345 WP_001749964 hypothetical protein -
RCF66_RS25800 11516..11887 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
RCF66_RS25805 11930..12664 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
RCF66_RS25810 12673..12954 + 282 WP_000440698 transcriptional repressor KorA -
RCF66_RS25815 12964..13257 + 294 WP_001749962 hypothetical protein virB2
RCF66_RS25820 13307..13624 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
RCF66_RS25825 13624..16224 + 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
RCF66_RS25830 16242..16955 + 714 WP_001749960 type IV secretion system protein virB5
RCF66_RS25835 16963..17190 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
RCF66_RS25840 17206..18246 + 1041 WP_001749958 type IV secretion system protein virB6
RCF66_RS25845 18465..19163 + 699 WP_000646594 virB8 family protein virB8
RCF66_RS25850 19174..20058 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
RCF66_RS25855 20058..21218 + 1161 WP_000101710 type IV secretion system protein VirB10 virB10
RCF66_RS25860 21260..22255 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
RCF66_RS25865 22255..22788 + 534 WP_000792636 phospholipase D family protein -
RCF66_RS25870 22962..23267 - 306 WP_011742557 DUF6710 family protein -
RCF66_RS25875 23516..23695 + 180 Protein_31 helix-turn-helix domain-containing protein -
RCF66_RS25880 23760..24464 + 705 WP_001067855 IS6-like element IS26 family transposase -
RCF66_RS25885 24518..25149 - 632 Protein_33 transposase -
RCF66_RS25890 25544..26200 + 657 WP_001516695 quinolone resistance pentapeptide repeat protein QnrS1 -
RCF66_RS25895 26519..27133 - 615 WP_014839983 recombinase family protein -

Host bacterium

ID   15643 GenBank   NZ_CP133207
Plasmid name   p2-KQ20605 Incompatibility group   IncN
Plasmid size   59353 bp Coordinate of oriT [Strand]   46184..46284 [+]
Host baterium   Klebsiella quasipneumoniae subsp. similipneumoniae strain KQ20605

Cargo genes

Drug resistance gene   dfrA14, qnrS1, blaNDM-1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -