ISPfu3

  • Family IS982
  • Group
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_003413 ND Pyrococcus furiosus
Pyrococcus furiosus DSM 3638
DNA section
IS Length : 933 bp

Ends


IR Length : 15/16

IRL : ACCCTAGTTCCCATCAGGTCGTTAGAATTATTAAGTACTTAAATTTTTTG
IRR : ACCCTAGTTCCCACCATCTGTGAAGTTGTATAATCTGTCCAGATTCACGG

Insertion site


Left flankDirect repeatRight flankDR Length
TAAAACTACATAAAACTTTTTGATCGTCAA10
TTTTTTTCTTTATCTCTTTAATTTATACTACTTTCATTTC0
TTCCAGCTATTTTTCTTTCCTTCATTTTCCTCTCCCTGGGCATA7
TAGTAATAAAACTACATAAAACTTTTTGATCGTCAATTAATCA10

DNA sequence

ACCCTAGTTCCCATCAGGTCGTTAGAATTATTAAGTACTTAAATTTTTTGATTGGTTGGTGGTTGTTATGAACTTTCAGCAGGAAATCCTGATCATAAAA
TCCGAAATCTATCCGATAGTCAGCAAACACTACCCGAAAAACACTCGCAGGGAAGTAATCAGCCTCTACGACCTGATAACCTTCGCAATACTAGCCCACC
TGCACTTCGGAGGAGTTTACAAACACGCTTACGGAGCCCTAATCGAGGAAATGAAACTGTTCCCCAAAATCAGGTACAACAAACTAACAGAACGCTTGAA
CAGGCACGAAAAACTTCTGCTCCTAGCGCAGGAAGAATTATTCAAAAAACACGCCAGAGAATACGTTAGAATACTGGACTCAAAACCCATTCAGACCAAG
GAGTTGGCCAGAAAAAACAGGAAGGATAAGGAGGGTTCTTCAGAAATCATCTCTGAAAAGCCCGCAGTTGGGTTTGTTCCCTCTAAAAAAAGTTTTACTA
TGGGTACAAGCTGACCTGTTACTCTGATGGGAACCTGTTGGCTTTGCTGTCCGTTGATCCGGCAAACAAGCATGATGTGAGTGTTGTCAGGGAAAAGTTC
TGGGTGATTGTTGAGGAGTTTTCCGGCTGTTTTCTGTTTTTGGATAAGGGTTACGTTAGTAGAGAACTTCAGGAGGAATTCCTGAAGTTTGGCGTTGTTT
ACACGCCGGTGAAGCGGGAGAATCAGGTTAGTAATCTGGAGGAGAAGAAGTTTTACAAGTACTTGTCTGACTTTCGCAGAAGGATTGAGACTTTGTTTTC
GAAGTTTTCTGAGTTTCTTCTGAGGCCGAGCAGGAGTGTTAGTTTGAGGGGGTTAGCTGTCAGGATTTTAGGGGCGATTCTGGCCGTGAATCTGGACAGA
TTATACAACTTCACAGATGGTGGGAACTAGGGT
Recoding section
  • Recoding by frameshift
  • Frame
  • Type
  • Experimentally demonstrated

Stimulators :

  • Shine-Dalgarno sequence :
  • Secondary structure :

Recoding motif :

Protein section
ORF number : 1

 

ORF 1
LengthBeginEndStrandFusion ORF
872 bp289 aa59930+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MVVMNFQQEILIIKSEIYPIVSKHYPKNTRREVISLYDLITFAILAHLHFGGVYKHAYGALIEEMKLFPKIRYNKLTERLNRHEKLLLLAQEELFKKHAR
EYVRILDSKPIQTKELARKNRKDKEGSSEIISEKPAVGFVPSKKKFYYGYKLTCYSDGNLLALLSVDPANKHDVSVVREKFWVIVEEFSGCFLFLDKGYV
SRELQEEFLKFGVVYTPVKRENQVSNLEEKKFYKYLSDFRRRIETLFSKFSEFLLRPSRSVSLRGLAVRILGAILAVNLDRLYNFTDGGN

 

Blast result :
Comments
There is a ribosomal slippage at position 489 of the sequence.
ISPfu3 is 51% aa similar to ISra1.
There are 5 full copies in the Pyrococcus furiosus genome.
Multiple alignments revealed conserved D(N3) and E(C1) amino acids separated by 47 residues.
References
1] Robb,F.T., Maeder,D.L., Brown,J.R., DiRuggiero,J., Stump,M.D., Yeh,R.K., Weiss,R.B. and Dunn,D.M. (2001) Meth. Enzymol. 330, 134-157
2] Maeder,D.L., Weiss,R.B., Dunn,D.M., Cherry,J.L., Gonzalez,J.M., DiRuggiero,J. and Robb,F.T. (1999) Genetics 152 (4), 1299-1305