IS1R
- Family IS1
- Group
Isoform IS1ASynonym(s)
Accession number | Transposition | Origin | Host |
---|---|---|---|
J01730 | ND | Escherichia coli | Shigella flexneri 2a Escherichia coli plasmid pR100 Acinetobacter baumannii SAK |
DNA section
IS Length : 768 bp
Ends
IR Length : 18/23
IRL : GGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTG
IRR : GGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGTTAATGCCCGA
Insertion site
Left flank | Direct repeat | Right flank | DR Length |
---|
DNA sequence
GGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGAC
GGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTC
AACCCGGTACGCACCAGAAAATCATTGATATGGCCATGAATGGCGTTGGATGCCGGGCAACCGCCCGCATTATGGGCGTTGGCCTCAACACGATTTTCCG
CCATTTAAAAAACTCAGGCCGCAGTCGGTAACCTCGCGCATACAGCCGGGCAGTGACGTCATCGTCTGCGCGGAAATGGACGAACAGTGGGGATACGTCG
GGGCTAAATCGCGCCAGCGCTGGCTGTTTTACGCGTATGACAGGCTCCGGAAGACGGTTGTTGCGCACGTATTCGGTGAACGCACTATGGCGACGCTGGG
GCGTCTTATGAGCCTGCTGTCACCCTTTGACGTGGTGATATGGATGACGGATGGCTGGCCGCTGTATGAATCCCGCCTGAAGGGAAAGCTGCACGTAATC
AGCAAGCGATATACGCAGCGAATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGG
AGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC
GGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTC
AACCCGGTACGCACCAGAAAATCATTGATATGGCCATGAATGGCGTTGGATGCCGGGCAACCGCCCGCATTATGGGCGTTGGCCTCAACACGATTTTCCG
CCATTTAAAAAACTCAGGCCGCAGTCGGTAACCTCGCGCATACAGCCGGGCAGTGACGTCATCGTCTGCGCGGAAATGGACGAACAGTGGGGATACGTCG
GGGCTAAATCGCGCCAGCGCTGGCTGTTTTACGCGTATGACAGGCTCCGGAAGACGGTTGTTGCGCACGTATTCGGTGAACGCACTATGGCGACGCTGGG
GCGTCTTATGAGCCTGCTGTCACCCTTTGACGTGGTGATATGGATGACGGATGGCTGGCCGCTGTATGAATCCCGCCTGAAGGGAAAGCTGCACGTAATC
AGCAAGCGATATACGCAGCGAATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGG
AGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC
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 | |
---|---|---|---|---|---|
276 bp | 91 aa | 56 | 331 | + | No |
Description : First part of the transposase
ORF sequence :
MASVSISCPSCSATDGVVRNGKSTAGHQRYLCSHCRKTWQLQFTYTASQPGTHQKIIDMAMNGVGCRATARIMGVGLNTIFRHLKNSGRSR
Blast result :ORF 2
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
525 bp | 174 aa | 229 | 753 | + | No |
Description : Second part of the transposase
ORF sequence :
YGHEWRWMPGNRPHYGRWPQHDFPPFKKLRPQSVTSRIQPGSDVIVCAEMDEQWGYVGAKSRQRWLFYAYDRLRKTVVAHVFGERTMATLGRLMSLLSPF
DVVIWMTDGWPLYESRLKGKLHVISKRYTQRIERHNLNLRQHLARLGRKSLSFSKSVELHDKVIGHYLNIKHYQ
DVVIWMTDGWPLYESRLKGKLHVISKRYTQRIERHNLNLRQHLARLGRKSLSFSKSVELHDKVIGHYLNIKHYQ
Blast result :ORF 3
Length | Begin | End | Strand | Fusion ORF | |
---|---|---|---|---|---|
698 bp | 232 aa | 56 | 753 | + | Yes |
Chemistry : DDE
ORF sequence :
MASVSISCPSCSATDGVVRNGKSTAGHQRYLCSHCRKTWQLQFTYTASQPGTHQKIIDMAMNGVGCRATARIMGVGLNTIFRHLKKLRPQSVTSRIQPGS
DVIVCAEMDEQWGYVGAKSRQRWLFYAYDRLRKTVVAHVFGERTMATLGRLMSLLSPFDVVIWMTDGWPLYESRLKGKLHVISKRYTQRIERHNLNLRQH
LARLGRKSLSFSKSVELHDKVIGHYLNIKHYQ
DVIVCAEMDEQWGYVGAKSRQRWLFYAYDRLRKTVVAHVFGERTMATLGRLMSLLSPFDVVIWMTDGWPLYESRLKGKLHVISKRYTQRIERHNLNLRQH
LARLGRKSLSFSKSVELHDKVIGHYLNIKHYQ
Blast result :
Comments
IS1 from Ohtsubo and Ohtsubo (1978) was renamed IS1R after Ohtsubo et al. (1981) discovered that there are several IS1 iso-insertion sequences. The 5' and 3' ends of IS1R are approximate inverted repeats. Ohtsubo et al. (1981) found the CDS regions annotated below conserved among several IS1s. Deletion mutations in either of these two coding frames or in the two ends of IS1R cause loss of translocation activity. Three R100 derived small circular plasmids (pSM1, pSM2, pSM5) contain IS1R. pSM2 consists of map units 82.7-89.3 (the 3' end of IS1R) in circularized form. pSM1 is the same as pSM2, except for a deletion of map units 87.4-88.6. pSM 15 consists of map units 83.4-89.3 in circularized form. The general organization of Tn2670 present on R100 is as follows: IS1-Tn21-cat-IS1, with IS1R located 58 bp upstream of Tn21. A transposon similar to the R100 Tn2670 has also been found in Acinetobacter baumannii SAK (Elisha and Steyn, 1991), a gram-negative bacteria causing nozocomial colonization in hospitals. Of the 181-bp determined, 180 were identical.
Additionnal accession number : AF326777 ( Shigella flexneri 2a, 2000). This sequence is 99% DNA, 100% aa (ORF2) and 98% aa (ORF1, mutation at position 44 : T -> X) similar to the sequence of the database.
The third ORF is the probable ORFAB transposase reconstructed in silico by possible -1 frameshift.
Additionnal accession number : AF326777 ( Shigella flexneri 2a, 2000). This sequence is 99% DNA, 100% aa (ORF2) and 98% aa (ORF1, mutation at position 44 : T -> X) similar to the sequence of the database.
The third ORF is the probable ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Ohtsubo, H., and Ohtsubo, E. (1978) Proc. Natl. Acad. Sci., USA 75, 615-619.
2] Ohtsubo, H., Nyman, K., Doroszkkiewicz, W., and Ohtsubo, E. (1981) Nature 292, 640-643.
3] Misra, T.K., Brown, N.L., Fritzinger, D.C., Pridmore, R.D., Barnes, W.M., Haberstroh, L., and Silver, S. (1984) Proc. Natl. Acad. Sci., USA 81, 5975-5979.
4] Elisha, B.G., and Steyn, L.M. (1991) Plasmid 25, 96-104.
5] Luck,S.N., Turner,S.A., Rajakumar,K., Sakellaris,H. and Adler,B. (2001) Infect. Immun. 69 (10), 6012-6021
2] Ohtsubo, H., Nyman, K., Doroszkkiewicz, W., and Ohtsubo, E. (1981) Nature 292, 640-643.
3] Misra, T.K., Brown, N.L., Fritzinger, D.C., Pridmore, R.D., Barnes, W.M., Haberstroh, L., and Silver, S. (1984) Proc. Natl. Acad. Sci., USA 81, 5975-5979.
4] Elisha, B.G., and Steyn, L.M. (1991) Plasmid 25, 96-104.
5] Luck,S.N., Turner,S.A., Rajakumar,K., Sakellaris,H. and Adler,B. (2001) Infect. Immun. 69 (10), 6012-6021