ISMpe1
- Family IS3
- Group IS3
Isoform Synonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
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 flank | Direct repeat | Right flank | DR Length |
---|---|---|---|
GAGCAACGCC | AGG | TACTCGGGCG | 3 |
DNA sequence
TGACCTTGCCCCCGAAAAACGTAGTTCTTGGCTGATGATGGAATCAGAGACAGGAGCTACGAGATGAATGACAAGCAAGTGCGTGGGAAGTACACGCAGG
AGTTCAAGCTGGAGGCCGTCAGGCTGGTCAGGGCAGGCCAGTCGGTGGGGATGACGGCGAAGGTGCTGGGCATTCCCAAGGCCAGCCTGAGCAACTGGGT
GCGCTCCAGTGAGCAGGGGCAGCTTGGTGGCGCTGGCGACCGGCCGGTGACGCCAGAGCAGATGGAGCTGGCCAGGCTGAGGGCGGAACTGGCGCGCGTG
AAGATGGAGCGCGACATCGCAAAAAAAGCGGCGGCGTACTTTGCGCAGGATGTTCTGCAAAGTACGCCTGGATCCGGACGATGAAGGAGAGCTGGCCGGT
GAGCCTGAGCTGCGAGGTGCTGGGCGTGAGCGTCAGCGGGTACTTCGAGCACCAACGCCGCCAGTATCGACGCCAGCCGAGCCGGCCGGGCTCGGGGCGT
CTGAGCGACGAGGCCTTGCTGGCGCACGTGCGTGCCATTCACGCCGAGGTCCGTCAGGAGTACGGATGGCCGCGGATGACTAAGGAGCTGTGCGCCCGGG
GCCACCGCGTCGGCAAGGAACGGGTTCGACGCCTGATGCAGCAGCACGGCATCAAGGCTCGGGGCCGCCGCAAGTTCGTCGTCACCACCGACAGCAAGCA
CAACCTGCCGATCGCGCCAGACCTGCTTCAGCGGGACTTCGCGGCCGACGGCCCCAACGCGAAGTGGACGAGCGACATCACCTACATCGCTACCGACGAA
GGCTGGCTGTACCTGGCGGCCTTCATCGACTTGCACAGTCGGATGATCGTGGGCTGGAGCATGCAGCCCCACATGCGCGCCAGCCTGGTGACGGACGCGC
TGCGCATGGCGTGGTTCCGGCGTCGGCCACCGCCGGGGCTGATCGTGCACACGGACCGCGGCAGCCAATACTGCAGCGACGAGTTCCAGAAGGCGCTGAC
CGGGTACGGGATGCGCTCGTCGATGAGCCGCAAGGGCGACTGCTGGGACAACGCGCCGACCGAGAGCCTGTGGGGGCGCCTGAAGGTCGGCAGACTGCAT
GGGCGTAAGTTCGCCACCAGGAGGCAGGCTATGGACGAGGTCATCGACTGGATGGCCTTCTACAACCACCGCCGGCTACATTCCTCGCTGGGCTACCTCA
GCCCCAGGCAGTATGAAGAGCGCTGGGTCGCGGCACAGCTCAACAAGGCCGCGTAACAAGGATGCTAAGAGCTACGGGATTCAGGGGCAAGGTCA
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
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
321 bp | 106 aa | 64 | 384 | + | No |
Description : First part of the transposase
ORF sequence :
MNDKQVRGKYTQEFKLEAVRLVRAGQSVGMTAKVLGIPKASLSNWVRSSEQGQLGGAGDRPVTPEQMELARLRAELARVKMERDIAKKAAAYFAQDVLQS
TPGSGR
TPGSGR
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1044 bp | 347 aa | 213 | 1256 | + | No |
Description : Second part of the transposase
ORF sequence :
AGAAWWRWRPAGDARADGAGQAEGGTGAREDGARHRKKSGGVLCAGCSAKYAWIRTMKESWPVSLSCEVLGVSVSGYFEHQRRQYRRQPSRPGSGRLSDE
ALLAHVRAIHAEVRQEYGWPRMTKELCARGHRVGKERVRRLMQQHGIKARGRRKFVVTTDSKHNLPIAPDLLQRDFAADGPNAKWTSDITYIATDEGWLY
LAAFIDLHSRMIVGWSMQPHMRASLVTDALRMAWFRRRPPPGLIVHTDRGSQYCSDEFQKALTGYGMRSSMSRKGDCWDNAPTESLWGRLKVGRLHGRKF
ATRRQAMDEVIDWMAFYNHRRLHSSLGYLSPRQYEERWVAAQLNKAA
ALLAHVRAIHAEVRQEYGWPRMTKELCARGHRVGKERVRRLMQQHGIKARGRRKFVVTTDSKHNLPIAPDLLQRDFAADGPNAKWTSDITYIATDEGWLY
LAAFIDLHSRMIVGWSMQPHMRASLVTDALRMAWFRRRPPPGLIVHTDRGSQYCSDEFQKALTGYGMRSSMSRKGDCWDNAPTESLWGRLKVGRLHGRKF
ATRRQAMDEVIDWMAFYNHRRLHSSLGYLSPRQYEERWVAAQLNKAA
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
1193 bp | 397 aa | 64 | 1256 | + | Yes |
Chemistry : DDE
ORF sequence :
MNDKQVRGKYTQEFKLEAVRLVRAGQSVGMTAKVLGIPKASLSNWVRSSEQGQLGGAGDRPVTPEQMELARLRAELARVKMERDIAKKSGGVLCAGCSAK
YAWIRTMKESWPVSLSCEVLGVSVSGYFEHQRRQYRRQPSRPGSGRLSDEALLAHVRAIHAEVRQEYGWPRMTKELCARGHRVGKERVRRLMQQHGIKAR
GRRKFVVTTDSKHNLPIAPDLLQRDFAADGPNAKWTSDITYIATDEGWLYLAAFIDLHSRMIVGWSMQPHMRASLVTDALRMAWFRRRPPPGLIVHTDRG
SQYCSDEFQKALTGYGMRSSMSRKGDCWDNAPTESLWGRLKVGRLHGRKFATRRQAMDEVIDWMAFYNHRRLHSSLGYLSPRQYEERWVAAQLNKAA
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