ISMpe1

  • Family IS3
  • Group IS3
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_008826 ND Methylibium petroleiphilum
Methylibium petroleiphilum PM1
DNA section
IS Length : 1295 bp

Ends


IR Length : 26/32

IRL : TGACCTTGCCCCCGAAAAACGTAGTTCTTGGCTGATGATGGAATCAGAGA
IRR : TGACCTTGCCCCTGAATCCCGTAGCTCTTAGCATCCTTGTTACGCGGCCT

Insertion site


Left flankDirect repeatRight flankDR Length
GAGCAACGCCAGGTACTCGGGCG3

DNA sequence

TGACCTTGCCCCCGAAAAACGTAGTTCTTGGCTGATGATGGAATCAGAGACAGGAGCTACGAGATGAATGACAAGCAAGTGCGTGGGAAGTACACGCAGG
AGTTCAAGCTGGAGGCCGTCAGGCTGGTCAGGGCAGGCCAGTCGGTGGGGATGACGGCGAAGGTGCTGGGCATTCCCAAGGCCAGCCTGAGCAACTGGGT
GCGCTCCAGTGAGCAGGGGCAGCTTGGTGGCGCTGGCGACCGGCCGGTGACGCCAGAGCAGATGGAGCTGGCCAGGCTGAGGGCGGAACTGGCGCGCGTG
AAGATGGAGCGCGACATCGCAAAAAAAGCGGCGGCGTACTTTGCGCAGGATGTTCTGCAAAGTACGCCTGGATCCGGACGATGAAGGAGAGCTGGCCGGT
GAGCCTGAGCTGCGAGGTGCTGGGCGTGAGCGTCAGCGGGTACTTCGAGCACCAACGCCGCCAGTATCGACGCCAGCCGAGCCGGCCGGGCTCGGGGCGT
CTGAGCGACGAGGCCTTGCTGGCGCACGTGCGTGCCATTCACGCCGAGGTCCGTCAGGAGTACGGATGGCCGCGGATGACTAAGGAGCTGTGCGCCCGGG
GCCACCGCGTCGGCAAGGAACGGGTTCGACGCCTGATGCAGCAGCACGGCATCAAGGCTCGGGGCCGCCGCAAGTTCGTCGTCACCACCGACAGCAAGCA
CAACCTGCCGATCGCGCCAGACCTGCTTCAGCGGGACTTCGCGGCCGACGGCCCCAACGCGAAGTGGACGAGCGACATCACCTACATCGCTACCGACGAA
GGCTGGCTGTACCTGGCGGCCTTCATCGACTTGCACAGTCGGATGATCGTGGGCTGGAGCATGCAGCCCCACATGCGCGCCAGCCTGGTGACGGACGCGC
TGCGCATGGCGTGGTTCCGGCGTCGGCCACCGCCGGGGCTGATCGTGCACACGGACCGCGGCAGCCAATACTGCAGCGACGAGTTCCAGAAGGCGCTGAC
CGGGTACGGGATGCGCTCGTCGATGAGCCGCAAGGGCGACTGCTGGGACAACGCGCCGACCGAGAGCCTGTGGGGGCGCCTGAAGGTCGGCAGACTGCAT
GGGCGTAAGTTCGCCACCAGGAGGCAGGCTATGGACGAGGTCATCGACTGGATGGCCTTCTACAACCACCGCCGGCTACATTCCTCGCTGGGCTACCTCA
GCCCCAGGCAGTATGAAGAGCGCTGGGTCGCGGCACAGCTCAACAAGGCCGCGTAACAAGGATGCTAAGAGCTACGGGATTCAGGGGCAAGGTCA
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
321 bp106 aa64384+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MNDKQVRGKYTQEFKLEAVRLVRAGQSVGMTAKVLGIPKASLSNWVRSSEQGQLGGAGDRPVTPEQMELARLRAELARVKMERDIAKKAAAYFAQDVLQS
TPGSGR

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
1044 bp347 aa2131256+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

AGAAWWRWRPAGDARADGAGQAEGGTGAREDGARHRKKSGGVLCAGCSAKYAWIRTMKESWPVSLSCEVLGVSVSGYFEHQRRQYRRQPSRPGSGRLSDE
ALLAHVRAIHAEVRQEYGWPRMTKELCARGHRVGKERVRRLMQQHGIKARGRRKFVVTTDSKHNLPIAPDLLQRDFAADGPNAKWTSDITYIATDEGWLY
LAAFIDLHSRMIVGWSMQPHMRASLVTDALRMAWFRRRPPPGLIVHTDRGSQYCSDEFQKALTGYGMRSSMSRKGDCWDNAPTESLWGRLKVGRLHGRKF
ATRRQAMDEVIDWMAFYNHRRLHSSLGYLSPRQYEERWVAAQLNKAA

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1193 bp397 aa641256+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MNDKQVRGKYTQEFKLEAVRLVRAGQSVGMTAKVLGIPKASLSNWVRSSEQGQLGGAGDRPVTPEQMELARLRAELARVKMERDIAKKSGGVLCAGCSAK
YAWIRTMKESWPVSLSCEVLGVSVSGYFEHQRRQYRRQPSRPGSGRLSDEALLAHVRAIHAEVRQEYGWPRMTKELCARGHRVGKERVRRLMQQHGIKAR
GRRKFVVTTDSKHNLPIAPDLLQRDFAADGPNAKWTSDITYIATDEGWLYLAAFIDLHSRMIVGWSMQPHMRASLVTDALRMAWFRRRPPPGLIVHTDRG
SQYCSDEFQKALTGYGMRSSMSRKGDCWDNAPTESLWGRLKVGRLHGRKFATRRQAMDEVIDWMAFYNHRRLHSSLGYLSPRQYEERWVAAQLNKAA

 

Blast result :
Comments
ISMpe1 is 80 % (ORFA) aa similar to ISCte2 and 79% (ORFB) aa similar to ISRasp1. The third ORF is a putative ORFAB transposase reconstructed in sillico by possible -1 frameshift.
References
1] Kane,S.R., Chakicherla,A.Y., Chain,P.S., Schmidt,R., Shin,M.W.,Legler,T.C., Scow,K.M., Larimer,F.W., Lucas,S.M., Richardson,P.M.and Hristova,K.R. (2007) J. Bacteriol. 189 (5), 1931-1945