ISMi1
- Family IS3
- Group IS150
Isoform Synonym(s) ISMINC
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| M34841 | ND | Mycoplasma incognitus | Mycoplasma fermentans II-29/1 Mycoplasma incognitus |
DNA section
IS Length : 1405 bp
Ends
IR Length : 22/29
IRL : TAGAGTGAACCCCAAATTCCGGACTTTTTGGAAAGGGGTTCATTTTTATG
IRR : TGGTATGAACCCCAAAAATTGGACTTTTTAATTATGTTTGGACTTATTCC
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| CATATGATTG | TTT | TGTGGAATTT | 3 |
DNA sequence
TAGAGTGAACCCCAAATTCCGGACTTTTTGGAAAGGGGTTCATTTTTATGCAATTTAAATTTAAAAAAGTAAAAAGAAACAAATGAAATAGAGATATAAA
AGGTTATTTAAAATTAAAACTTGATCAAAAGATAAAAATTATCGAGTTATATTTTCAAGAATTTAGTATTTTAGAAATATCTAAAATAATGGAAAACTCT
TATTCAGCATGCTATTCAGTAATAGAAAAATACAAAAAGTTTGGTTATAATTCTTTTGCTATGGAAAAGAAAAAAGGAAGAAAATCTAAAATAAATTTAG
ATGCTCAAAAGGCAACAAATTTTAAAATCAATATTGAAAATAAAATAGAAAATAAAGATTTATTAATTAAACAATTAAAGGAAGAAAATAAAATACTCAA
ATTGGAGAATGCGATAGCAAAAAAAGTGAGCGCCTTGGTTCAATTGAAAGACTCACTAACAAAGAAAAATTCCAAATAACAATTGAACTAAGGCAAGAAT
TTAAAAAGCTATTTTTTATTAAATTAATATTAGAAAAAATTAAATTGAAAAAGTCAACTTTTTATGAGATATTAAAATCACAAAATAAACCTGATAAAGA
TGAAAATTTAAAAAAGGTTATTTTTGACTTATTTAACTATAATAAAGGACTATACGGTTATAGACGTATTACTTTTGCTTTAAGAAATAAAGGAATAATA
ATCAATCATAAAAAAGTTCAAAAATTAATCGAAAGCAATGAATATTTTCGGCAAAACGCTAAGAAGAAAAAATAAATATTCTTCATTCAAAGGTGATGCT
CACAAAACATTCCAAACTTGCTTTTAGATAAAGAAATATCACAGAAGATTTCTTCAGATACAAAAGAAATTTTTCAAATAATAAATATTTGAAAATACTA
GGAACAGATGTTACTGAATTTAAATTAAAAAATGATGAAAAAGCATATTTTTCTCCTGTAGTTGATTTTGAAAACAGAGAGATTTTAGGTTATTCGATTT
CTAAATCGCCTAATTTAAGAATGGTTGGTAAAATGTTAGAAAACGTAGAAGAGAATGGCCACAGCTTAAAAAATGTATTATTACATTCTGATCAAGGATG
ACAATACACTCATCAAGATTATATTGATTATTTGAAAGAAAAACAAACAACTCAAAGCATGTCAAGAAAGGGAAATTGTTTAGACAATAGTCCTACTGAA
TGTTTATTTAGTGTTATAAAAAGAGAATTTTGATTTGGAGAAGAAAAGAAATTTAATAGTTTTAAAGAATTTAAAACTGCTTTAGGAGATATATTTCATA
TTATAATAATGACAGAATTGTTAATAAATTAAAAGACTTAGTCCTGTCCAATACAGGAATAAGTCCAAACATAATTAAAAAGTCCAATTTTTGGGGTTCA
TACCA
AGGTTATTTAAAATTAAAACTTGATCAAAAGATAAAAATTATCGAGTTATATTTTCAAGAATTTAGTATTTTAGAAATATCTAAAATAATGGAAAACTCT
TATTCAGCATGCTATTCAGTAATAGAAAAATACAAAAAGTTTGGTTATAATTCTTTTGCTATGGAAAAGAAAAAAGGAAGAAAATCTAAAATAAATTTAG
ATGCTCAAAAGGCAACAAATTTTAAAATCAATATTGAAAATAAAATAGAAAATAAAGATTTATTAATTAAACAATTAAAGGAAGAAAATAAAATACTCAA
ATTGGAGAATGCGATAGCAAAAAAAGTGAGCGCCTTGGTTCAATTGAAAGACTCACTAACAAAGAAAAATTCCAAATAACAATTGAACTAAGGCAAGAAT
TTAAAAAGCTATTTTTTATTAAATTAATATTAGAAAAAATTAAATTGAAAAAGTCAACTTTTTATGAGATATTAAAATCACAAAATAAACCTGATAAAGA
TGAAAATTTAAAAAAGGTTATTTTTGACTTATTTAACTATAATAAAGGACTATACGGTTATAGACGTATTACTTTTGCTTTAAGAAATAAAGGAATAATA
ATCAATCATAAAAAAGTTCAAAAATTAATCGAAAGCAATGAATATTTTCGGCAAAACGCTAAGAAGAAAAAATAAATATTCTTCATTCAAAGGTGATGCT
CACAAAACATTCCAAACTTGCTTTTAGATAAAGAAATATCACAGAAGATTTCTTCAGATACAAAAGAAATTTTTCAAATAATAAATATTTGAAAATACTA
GGAACAGATGTTACTGAATTTAAATTAAAAAATGATGAAAAAGCATATTTTTCTCCTGTAGTTGATTTTGAAAACAGAGAGATTTTAGGTTATTCGATTT
CTAAATCGCCTAATTTAAGAATGGTTGGTAAAATGTTAGAAAACGTAGAAGAGAATGGCCACAGCTTAAAAAATGTATTATTACATTCTGATCAAGGATG
ACAATACACTCATCAAGATTATATTGATTATTTGAAAGAAAAACAAACAACTCAAAGCATGTCAAGAAAGGGAAATTGTTTAGACAATAGTCCTACTGAA
TGTTTATTTAGTGTTATAAAAAGAGAATTTTGATTTGGAGAAGAAAAGAAATTTAATAGTTTTAAAGAATTTAAAACTGCTTTAGGAGATATATTTCATA
TTATAATAATGACAGAATTGTTAATAAATTAAAAGACTTAGTCCTGTCCAATACAGGAATAAGTCCAAACATAATTAAAAAGTCCAATTTTTGGGGTTCA
TACCA
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 | |
|---|---|---|---|---|---|
| 432 bp | 143 aa | 48 | 479 | + | No |
Description : First part of the transposase
ORF sequence :
MQFKFKKVKRNKWNRDIKGYLKLKLDQKIKIIELYFQEFSILEISKIMENSYSACYSVIEKYKKFGYNSFAMEKKKGRKSKINLDAQKATNFKINIENKI
ENKDLLIKQLKEENKILKLENAIAKKVSALVQLKDSLTKKNSK
ENKDLLIKQLKEENKILKLENAIAKKVSALVQLKDSLTKKNSK
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 987 bp | 328 aa | 392 | 1378 | + | No |
Description : Second part of the transposase
ORF sequence :
NTQIGECDSKKSERLGSIERLTNKEKFQITIELRQEFKKLFFIKLILEKIKLKKSTFYEILKSQNKPDKDENLKKVIFDLFNYNKGLYGYRRITFALRNK
GIIINHKKVQKLIESNEYFRQNAKKKKWIFFIQRWCSQNIPNLLLDKEISQKISSDTKEIFQIINIWKYWEQMLLNLNWKMMKKHIFLLWLILKTERFWV
IRFLNRLIWEWLVKCWKTWKRMATAWKMYYYILIKDDNTLIKIILIIWKKNKQLKACQEREIVWTIVLLNVYLVLWKENFDLEKKRNLIVLKNLKLLWEI
YFILWWWQNCWWIKRLSPVQYRNKSKHN
GIIINHKKVQKLIESNEYFRQNAKKKKWIFFIQRWCSQNIPNLLLDKEISQKISSDTKEIFQIINIWKYWEQMLLNLNWKMMKKHIFLLWLILKTERFWV
IRFLNRLIWEWLVKCWKTWKRMATAWKMYYYILIKDDNTLIKIILIIWKKNKQLKACQEREIVWTIVLLNVYLVLWKENFDLEKKRNLIVLKNLKLLWEI
YFILWWWQNCWWIKRLSPVQYRNKSKHN
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1331 bp | 443 aa | 48 | 1378 | + | Yes |
Chemistry : DDE
ORF sequence :
MQFKFKKVKRNKWNRDIKGYLKLKLDQKIKIIELYFQEFSILEISKIMENSYSACYSVIEKYKKFGYNSFAMEKKKGRKSKINLDAQKATNFKINIENKI
ENKDLLIKQLKEENKILKLENAIAKKSERLGSIERLTNKEKFQITIELRQEFKKLFFIKLILEKIKLKKSTFYEILKSQNKPDKDENLKKVIFDLFNYNK
GLYGYRRITFALRNKGIIINHKKVQKLIESNEYFRQNAKKKKWIFFIQRWCSQNIPNLLLDKEISQKISSDTKEIFQIINIWKYWEQMLLNLNWKMMKKH
IFLLWLILKTERFWVIRFLNRLIWEWLVKCWKTWKRMATAWKMYYYILIKDDNTLIKIILIIWKKNKQLKACQEREIVWTIVLLNVYLVLWKENFDLEKK
RNLIVLKNLKLLWEIYFILWWWQNCWWIKRLSPVQYRNKSKHN
ENKDLLIKQLKEENKILKLENAIAKKSERLGSIERLTNKEKFQITIELRQEFKKLFFIKLILEKIKLKKSTFYEILKSQNKPDKDENLKKVIFDLFNYNK
GLYGYRRITFALRNKGIIINHKKVQKLIESNEYFRQNAKKKKWIFFIQRWCSQNIPNLLLDKEISQKISSDTKEIFQIINIWKYWEQMLLNLNWKMMKKH
IFLLWLILKTERFWVIRFLNRLIWEWLVKCWKTWKRMATAWKMYYYILIKDDNTLIKIILIIWKKNKQLKACQEREIVWTIVLLNVYLVLWKENFDLEKK
RNLIVLKNLKLLWEIYFILWWWQNCWWIKRLSPVQYRNKSKHN
Blast result :
Comments
Mycoplasma incognitus is a newly recognised human pathogen causing systemic infections. ISMi1 is present in multicopies in Mycoplasma incognitus (Hu et al., 1990).
By analogy to other IS3-like elements, the ISMi1 ORF2 (103 (1021-1332) [P]) described by these authors is too short and should probably start at the end of ORF1 (sequencing errors ?). An ORF containing the DDE concensus of the IS3 family was found in frame 2 and has been used here. The ISMi1 copy analysed by Calcutt et al. exhibit a longer transposase and is clearly a member of the IS3 family.It was isolated from Mycoplasma fermentans.
Remember that the opal codon (UGA) encodes the aa tryptophan (W) in Mycoplasma.
By analogy to other IS3-like elements, the ISMi1 ORF2 (103 (1021-1332) [P]) described by these authors is too short and should probably start at the end of ORF1 (sequencing errors ?). An ORF containing the DDE concensus of the IS3 family was found in frame 2 and has been used here. The ISMi1 copy analysed by Calcutt et al. exhibit a longer transposase and is clearly a member of the IS3 family.It was isolated from Mycoplasma fermentans.
Remember that the opal codon (UGA) encodes the aa tryptophan (W) in Mycoplasma.
References
1] Hu, W.S., Wang, R.Y., Liou, R.S., Shih, J.-W.-K., and Lo, S.-C. (1990) Gene 93, 67-72.
2] Calcutt, M.J., Lavrrar, J.L, and Wise, K.S. (1999) J. Bacteriol. 181 (24), 7597-7607.
2] Calcutt, M.J., Lavrrar, J.L, and Wise, K.S. (1999) J. Bacteriol. 181 (24), 7597-7607.