ISPa20
- Family IS3
- Group IS3
Isoform Synonym(s) ISCja1
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| AJ849357 | ND | Pseudomonas aeruginosa | Pseudomonas aeruginosa Pseudomonas stutzeri A1501 Cellvibrio japonicus Ueda107 |
DNA section
IS Length : 1246 bp
Ends
IR Length : 23/26
IRL : TGATCTTGCCCAGCACGAGTGGACACCCCGTTAAGCGATAAACTGCAACG
IRR : TGATCTTGCCCAGCAACCGTGGACACAGTTTCAAGCACTCATCCGGGCCT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TTCATTAAAA | TAA | TGAGTAGAAA | 3 |
| AAAACTGGCT | ATT | CTCCACAAGT | 3 |
| GGATGTTGTA | CAT | TTCCGGAATA | 3 |
| GGGTCGGGTC | CTT | TTTTTGATAT | 3 |
| TCAAAAAAAC | TTACTGTTTT | 0 |
DNA sequence
TGATCTTGCCCAGCACGAGTGGACACCCCGTTAAGCGATAAACTGCAACGAGGTGAATCATGGCAAGAACCGCTACCCCGATGAAACAGAACCGTACCCG
TCACTCCCAAGCCTTCAAGAATGAAGCGATGGCGCTGGCCGAGCGAATTGGCGTTAGTAAAGCGGCCGAACAGCTTGGTCTTCATGCGTCTCAGCTCTAT
GGCTGGCGCAGTAAGCAGCAGCAGACCCTGAGCAGCAGTGAGCGCGAACAGTCACTGGCCGACGAAAACGCCCGCCTCAAGCGGCTCCTGGCCGAGCAAG
CCGAAGAACTGGCCATCGTAAAAAAGGCCGCGGCGTACTTTGCGAAGAGCCTCAAGTGAAGTACGCCTTCATGAGGACACATGCCCCAGCGTTTTCGGTG
AAAGCCATGTGCCGTGTTCTGGGTGTCGCCCGCAGTGGTTTCTACGCCTGGTGCTCACGCGAGCCATCCACACGCCACCAGCAACGGGCCGAGCTGGATC
AGCGGGTCGCGCAAGCGTATAACGCCCGTAAGGGCCGCAGTGGCGCCCCGCGGCTGTGCCATGACCTGTGGGAAGCCGGGCTGCGCTGTAATCGCAAGAC
GGTTGCAGCCTCGATGCAGCGACAAGGCTTACGCGCCAAGGCGGCCAAGAAGTTCAAGGCCACAACCAACTCCCGACACTCGCTCCCGGTGGCAGAGAAC
CTGCTCAAGCAAGACTTCACAGCATCAGCACCCAATCAGAAATGGGTGGGCGACATCACCTACCTGCACACGGACGAGGGCTGGCTGTATCTCGCCGTAA
TCATTGATCTGTACTCGCGCATGGTGGTCGGCTGGGCCATGAGCGAACGCATGACGGCTGACCTGGCCTGCGATGCTCTGCACATGGCGCTGTGGCGGCG
AAAGCAGCCAAAGGGAGTGATCGTACACAGCGACCGCGGCAGTCAGTACTGCTCAACGGCTTATCAGGGTCTAATCCGCGCTCATCAGCTGCGATGCAGT
ATGAGCGCGAAAGGCAACTGCTACGACAATGCGTGTGCGGAGAGCTTCTTCCACAGCCTGAAGGTCGAATGCATCCATGGCGAGCGCTTCATGAGCCGCG
CCCAGATGCGTGAAACCGTGTTTGAATACATTGAAACCGACTATAACCGCCAGCGGCGACATAGCACGCTGGGGCACATCAGCCCGCAAGCCTACGAGGC
CCGGATGAGTGCTTGAAACTGTGTCCACGGTTGCTGGGCAAGATCA
TCACTCCCAAGCCTTCAAGAATGAAGCGATGGCGCTGGCCGAGCGAATTGGCGTTAGTAAAGCGGCCGAACAGCTTGGTCTTCATGCGTCTCAGCTCTAT
GGCTGGCGCAGTAAGCAGCAGCAGACCCTGAGCAGCAGTGAGCGCGAACAGTCACTGGCCGACGAAAACGCCCGCCTCAAGCGGCTCCTGGCCGAGCAAG
CCGAAGAACTGGCCATCGTAAAAAAGGCCGCGGCGTACTTTGCGAAGAGCCTCAAGTGAAGTACGCCTTCATGAGGACACATGCCCCAGCGTTTTCGGTG
AAAGCCATGTGCCGTGTTCTGGGTGTCGCCCGCAGTGGTTTCTACGCCTGGTGCTCACGCGAGCCATCCACACGCCACCAGCAACGGGCCGAGCTGGATC
AGCGGGTCGCGCAAGCGTATAACGCCCGTAAGGGCCGCAGTGGCGCCCCGCGGCTGTGCCATGACCTGTGGGAAGCCGGGCTGCGCTGTAATCGCAAGAC
GGTTGCAGCCTCGATGCAGCGACAAGGCTTACGCGCCAAGGCGGCCAAGAAGTTCAAGGCCACAACCAACTCCCGACACTCGCTCCCGGTGGCAGAGAAC
CTGCTCAAGCAAGACTTCACAGCATCAGCACCCAATCAGAAATGGGTGGGCGACATCACCTACCTGCACACGGACGAGGGCTGGCTGTATCTCGCCGTAA
TCATTGATCTGTACTCGCGCATGGTGGTCGGCTGGGCCATGAGCGAACGCATGACGGCTGACCTGGCCTGCGATGCTCTGCACATGGCGCTGTGGCGGCG
AAAGCAGCCAAAGGGAGTGATCGTACACAGCGACCGCGGCAGTCAGTACTGCTCAACGGCTTATCAGGGTCTAATCCGCGCTCATCAGCTGCGATGCAGT
ATGAGCGCGAAAGGCAACTGCTACGACAATGCGTGTGCGGAGAGCTTCTTCCACAGCCTGAAGGTCGAATGCATCCATGGCGAGCGCTTCATGAGCCGCG
CCCAGATGCGTGAAACCGTGTTTGAATACATTGAAACCGACTATAACCGCCAGCGGCGACATAGCACGCTGGGGCACATCAGCCCGCAAGCCTACGAGGC
CCGGATGAGTGCTTGAAACTGTGTCCACGGTTGCTGGGCAAGATCA
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 | |
|---|---|---|---|---|---|
| 300 bp | 99 aa | 60 | 359 | + | No |
Description : First part of the transposase
ORF sequence :
MARTATPMKQNRTRHSQAFKNEAMALAERIGVSKAAEQLGLHASQLYGWRSKQQQTLSSSEREQSLADENARLKRLLAEQAEELAIVKKAAAYFAKSLK
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 846 bp | 281 aa | 371 | 1216 | + | No |
Description : Second part of the transposase
ORF sequence :
MRTHAPAFSVKAMCRVLGVARSGFYAWCSREPSTRHQQRAELDQRVAQAYNARKGRSGAPRLCHDLWEAGLRCNRKTVAASMQRQGLRAKAAKKFKATTN
SRHSLPVAENLLKQDFTASAPNQKWVGDITYLHTDEGWLYLAVIIDLYSRMVVGWAMSERMTADLACDALHMALWRRKQPKGVIVHSDRGSQYCSTAYQG
LIRAHQLRCSMSAKGNCYDNACAESFFHSLKVECIHGERFMSRAQMRETVFEYIETDYNRQRRHSTLGHISPQAYEARMSA
SRHSLPVAENLLKQDFTASAPNQKWVGDITYLHTDEGWLYLAVIIDLYSRMVVGWAMSERMTADLACDALHMALWRRKQPKGVIVHSDRGSQYCSTAYQG
LIRAHQLRCSMSAKGNCYDNACAESFFHSLKVECIHGERFMSRAQMRETVFEYIETDYNRQRRHSTLGHISPQAYEARMSA
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1157 bp | 385 aa | 60 | 1216 | + | Yes |
Chemistry : DDE
ORF sequence :
MARTATPMKQNRTRHSQAFKNEAMALAERIGVSKAAEQLGLHASQLYGWRSKQQQTLSSSEREQSLADENARLKRLLAEQAEELAIVKKGRGVLCEEPQV
KYAFMRTHAPAFSVKAMCRVLGVARSGFYAWCSREPSTRHQQRAELDQRVAQAYNARKGRSGAPRLCHDLWEAGLRCNRKTVAASMQRQGLRAKAAKKFK
ATTNSRHSLPVAENLLKQDFTASAPNQKWVGDITYLHTDEGWLYLAVIIDLYSRMVVGWAMSERMTADLACDALHMALWRRKQPKGVIVHSDRGSQYCST
AYQGLIRAHQLRCSMSAKGNCYDNACAESFFHSLKVECIHGERFMSRAQMRETVFEYIETDYNRQRRHSTLGHISPQAYEARMSA
KYAFMRTHAPAFSVKAMCRVLGVARSGFYAWCSREPSTRHQQRAELDQRVAQAYNARKGRSGAPRLCHDLWEAGLRCNRKTVAASMQRQGLRAKAAKKFK
ATTNSRHSLPVAENLLKQDFTASAPNQKWVGDITYLHTDEGWLYLAVIIDLYSRMVVGWAMSERMTADLACDALHMALWRRKQPKGVIVHSDRGSQYCST
AYQGLIRAHQLRCSMSAKGNCYDNACAESFFHSLKVECIHGERFMSRAQMRETVFEYIETDYNRQRRHSTLGHISPQAYEARMSA
Blast result :
Comments
ISPa20 is 75%(ORF A) aa similar to IS1230 and 74% (ORF B) to IS3. The third ORF is a fusion in silico ORF (60..326,326..1216).
ISPa20, which was present in high copy number, mediated events of genomic reorganization. ISPa20 was inserted into P. aeruginosa backbone genes leading to adaptation to the cystic fibrosis lung habitat and into DNA acquired through horizontal gene transfer. Further on, large chromosomal inversions were mediated by ISPa20.
ISPa20, which was present in high copy number, mediated events of genomic reorganization. ISPa20 was inserted into P. aeruginosa backbone genes leading to adaptation to the cystic fibrosis lung habitat and into DNA acquired through horizontal gene transfer. Further on, large chromosomal inversions were mediated by ISPa20.
References
1] Kresse,A.U., Blocker,H. and Romling,U. (2006) Arch. Microbiol. 185 (4), 245-254
2] Deboy,R.T., Mongodin,E.F., Fouts,D.E., Tailford,L.E., Khouri,H., Emerson,J.B., Mohamoud,Y., Watkins,K., Henrissat,B., Gilbert,H.J. and Nelson,K.E. (2008) J. Bacteriol. 190 (15), 5455-5463.
2] Deboy,R.T., Mongodin,E.F., Fouts,D.E., Tailford,L.E., Khouri,H., Emerson,J.B., Mohamoud,Y., Watkins,K., Henrissat,B., Gilbert,H.J. and Nelson,K.E. (2008) J. Bacteriol. 190 (15), 5455-5463.