Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100276
Name   oriT_pLEW517 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_009132 (2784..3432 [-], 649 nt)
oriT length   649 nt
IRs (inverted repeats)      IR1: 198..207, 211..220  (ATTAGGTGTT..AATACCTAAT)
 IR2:319..324, 330..335  (AAAAAA..TTTTTT)
  IR3: 393..402, 405..414  (GTATTCATGC..GCATGAATAC)
Location of nic site      301..302
Conserved sequence flanking the
  nic site    		  GGTGT|ATAGC
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 649 nt

>oriT_pLEW517
AGCGCCGCAGATAATCTGACCGATTACCTCCTGAAACCAGGTCTATATAGGCCAAAAGTTCATCTGATACTTTTGCGGTTATTATTGGCATTCAGTCCTCACATTGTGCATTTCTTAAACAAAAGATTGGGATCTAACAAGCTGAAATCTTAGTATTACCAAAGTAATAAAGCAAACTCATTATAAAACAATGAGTTATTAGGTGTTTTTAATACCTAATTATTACCGAATATTGACGCTATTTATTTTTTTATTTTTTAAATCAGTGTGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAGGAGCGATCTACGTAGGTTAAGGACTAACTGACTAAAAAGCGTTCAATATTCCGTATTCATGCTTGCATGAATACCAGTACAACACTATTACAACAAAAGTACATCAAAATTACATCAAAAGTACATCACTTGAAGGTTGACAGTACAACAGAATTACATCATTATCTGGTCATGAGGTAGCCAGTACAACAAAAGTACATCAAAAATACATCATAAATACATCAGAAATACATCAAAATTACATCATTCTAAATGAGGGTACTATGAAGCCCAAAAGTATCAGGGCGGCACTTCAGTTGATGTTGCCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   347 GenBank   YP_001096334
Name   PutativerelaxaseofpLEW517 insolico UniProt ID   _
Length   1078 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120163.41 Da        Isoelectric Point: 6.5766

>YP_001096334.1 hypothetical protein (plasmid) [Escherichia coli]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
ISGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
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



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 31433..41758

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS418_RS00170 (D616_p80033) 26845..27195 + 351 WP_000454193 DUF3330 domain-containing protein -
HS418_RS00175 (D616_p80034) 27321..27881 + 561 WP_000147567 recombinase family protein -
HS418_RS00180 (D616_p80035) 27884..30850 + 2967 WP_001138064 Tn3-like element TnAs3 family transposase -
HS418_RS00185 (D616_p80036) 30900..31433 - 534 WP_000731968 phospholipase D family protein -
HS418_RS00190 (D616_p80037) 31433..32428 - 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HS418_RS00195 (D616_p80038) 32470..33630 - 1161 WP_000101711 type IV secretion system protein VirB10 virB10
HS418_RS00200 (D616_p80039) 33630..34514 - 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
HS418_RS00205 (D616_p80040) 34525..35223 - 699 WP_000646594 type IV secretion system protein virB8
HS418_RS00210 35213..35371 - 159 WP_012561180 hypothetical protein -
HS418_RS00215 (D616_p80041) 35442..36482 - 1041 WP_000886022 type IV secretion system protein virB6
HS418_RS00220 (D616_p80042) 36498..36725 - 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
HS418_RS00225 (D616_p80043) 36733..37446 - 714 WP_000749362 type IV secretion system protein virB5
HS418_RS00230 (D616_p80044) 37464..40064 - 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HS418_RS00235 (D616_p80045) 40064..40381 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HS418_RS00240 (D616_p80046) 40431..40724 - 294 WP_000209137 TrbC/VirB2 family protein virB2
HS418_RS00245 (D616_p80047) 40734..41015 - 282 WP_000440698 transcriptional repressor KorA -
HS418_RS00250 (D616_p80048) 41024..41758 - 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
HS418_RS00255 (D616_p80049) 41801..42172 + 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HS418_RS00260 (D616_p80050) 42188..42565 + 378 WP_000504251 hypothetical protein -
HS418_RS00265 (D616_p80051) 42528..42842 + 315 WP_000734776 TrbM/KikA/MpfK family conjugal transfer protein -
HS418_RS00270 42956..43189 + 234 WP_001191790 hypothetical protein -
HS418_RS00275 (D616_p80052) 43315..44151 - 837 WP_000480968 aminoglycoside O-phosphotransferase APH(6)-Id -
HS418_RS00280 (D616_p80053) 44151..44954 - 804 WP_001082319 aminoglycoside O-phosphotransferase APH(3'')-Ib -
HS418_RS00285 (D616_p80054) 45368..45613 - 246 WP_011867775 hypothetical protein -
HS418_RS00295 46408..46566 + 159 WP_172682225 hypothetical protein -

Host bacterium

ID   738 GenBank   NC_009132
Plasmid name   pLEW517 Incompatibility group   IncN
Plasmid size   63946 bp Coordinate of oriT [Strand]   2784..3432 [-]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -