ISNeu3

  • Family IS5
  • Group IS427
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_004757 ND Nitrosomonas europaea
Nitrosomonas europaea ATCC 19718
DNA section
IS Length : 843 bp

Ends


IR Length : 14/16

IRL : GGCAAATCGACATTTACGGATTTCCAACATCTATAATTTTTGCTTTACTG
IRR : GTCGAATCGACATTTAAAGCCATAAAGTTGCTGCAGCCAGATGTATGAAG

Insertion site


Left flankDirect repeatRight flankDR Length
TCTTAAGAATTATTAACTAGGGACCGGACAGAT0
GCCCTTGGGGTGTTAACTAGGGAACTACACAGC0
ATGGCCAAATCGCTAACTAGTGTTTTAGATCAT0
TCCGTCCCTAACGCGACTAGACACGATCTGACACCTC4
ATGCGGGACCAAACAGCTAGGCGTTTTATCAAAGCGG4
ATGGTTGGGTTTGGTACTAGGTGTTTGGTCCCGCATT4
TTACTTAGAATTGTTCCTAGCGACATGGCTGCATCTA4
TATTCAGGAAAAAACGCTAGAGAAGAAGCAAGAAGAT4

DNA sequence

GGCAAATCGACATTTACGGATTTCCAACATCTATAATTTTTGCTTTACTGAAAGAGGTTTAACATTTTCAGTGAGGAATGTATGAAACGCTATGAATTGA
ACAGGGAGCAATGGCGTCGAATAGAGCCGTTTATACCGGGTAAAATTGGGGATCGTGGCCGACATGGCGCGGATAATCTATTGTTTATAAATGGTGTTTT
ATGGGTTTTACGCTCTGGTGCGCACTGGCATGACCTGCCGGAGCGGTATGGCAAATGGAAAACTGCTCACAAACGCTTTACGCGGTGGGCACAGGCCGGT
ATTTGGGAAAAGATATTCGATGTTTTGACCGAAGACCCGGACAATCAATATATTATGATCGACAGCACGATCGTGCGCGCTCATCAGCAGGCCGCCTGCG
GAAAAGGGGGGCGCGGCGTGAGGCTTTGGGGCGTTCCCGAGGCGGTCTGAGTACCAAAATCCATATGTGCGTCGATGCCTCTGGCCGACCCTTACGTTTT
ATACTGACGGGTGGACAGTGCAACGATTGCACGCAAGCTCTTGATCTGATCAGCGGGTTCAGGCCCTCGCATGTTCTGGCGGATAAAGGCTACGACAGCG
ATAATATTCTCGACGCCATTGCCTCCATGAAGGCCGTGCCTGTCATTCCACCGCGATCAAACCGCAAAATACGAAGAACGTATGATCGCGAAATCTATAA
ATGTAGAAATATCATTGAGCGCACATTCAACAAACTCAAGCATTGGCGCAGACTCTCAACCAGATATGACCGTAAAGCTATTTACTTCTCCGCCTTCATA
CATCTGGCTGCAGCAACTTTATGGCTTTAAATGTCGATTCGAC
Recoding section
  • Recoding by frameshift
  • Frame
  • Type
  • Experimentally demonstrated

Stimulators :

  • Shine-Dalgarno sequence :
  • Secondary structure :

Recoding motif :

Protein section
ORF number : 3

 

ORF 1
LengthBeginEndStrandFusion ORF
366 bp122 aa82447+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MKRYELNREQWRRIEPFIPGKIGDRGRHGADNLLFINGVLWVLRSGAHWHDLPERYGKWKTAHKRFTRWAQAGIWEKIFDVLTEDPDNQYIMIDSTIVRA
HQQAACGKGGRGVRLWGVPEAV

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
597 bp191 aa234830+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

PAGAVWQMENCSQTLYAVGTGRYLGKDIRCFDRRPGQSIYYDRQHDRARSSAGRLRKRGARREALGRSRGGLSTKIHMCVDASGRPLRFILTGGQCNDCT
QALDLISGFRPSHVLADKGYDSDNILDAIASMKAVPVIPPRSNRKIRRTYDREIYKCRNIIERTFNKLKHWRRLSTRYDRKAIYFSAFIHLAAATLWL

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
749 bp249 aa82830+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MKRYELNREQWRRIEPFIPGKIGDRGRHGADNLLFINGVLWVLRSGAHWHDLPERYGKWKTAHKRFTRWAQAGIWEKIFDVLTEDPDNQYIMIDSTIVRA
HQQAACGKGGARREALGRSRGGLSTKIHMCVDASGRPLRFILTGGQCNDCTQALDLISGFRPSHVLADKGYDSDNILDAIASMKAVPVIPPRSNRKIRRT
YDREIYKCRNIIERTFNKLKHWRRLSTRYDRKAIYFSAFIHLAAATLWL

 

Blast result :
Comments
ISNeu3 is 67% aa similar to ISAli12B.
ISNeu3 was found by screening completely sequenced genomes for seqences homologous to the ISScr1 transposase using BLASTP. It codes two overlapping ORFs. The overlap displayed two possible -1 frameshift sites, suggesting putative fusion peptides. Multiple alignments revealed conserved D(N3) and E(C1) amino acids separated by 44 residues in the C-terminal ORF. The copy number in Nitrosomonas europaea ATCC 19718 is 8.
References
1] Chain,P., Lamerdin,J., Larimer,F., Regala,W., Lao,V., Land,M., Hauser,L., Hooper,A., Klotz,M., Norton,J., Sayavedra-Soto,L., Arciero,D., Hommes,N., Whittaker,M. and Arp,D.(2003)J. Bacteriol. 185,2759-2773