ISMth1
- Family IS630
- Group
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| CP000477 | ND | Methanosaeta thermophila | Methanosaeta thermophila PT |
DNA section
IS Length : 1190 bp
Ends
IR Length : 21/26
IRL : GTGCTCCATAACAAAATGTTTTAACCATTGCGTTGATCTATCCAGGCTAT
IRR : GTGCTCCTTAACATTAATTTTTAACCGTATTGTAGTGTCGTTTGAGTTTT
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| CCTCGCTTTGGGAGAAAACCAGC | TA | GTAAATCAAGAGC | 2 |
DNA sequence
GTGCTCCATAACAAAATGTTTTAACCATTGCGTTGATCTATCCAGGCTATGGGTAGAAAGAGAGTTCATGAAGTGAGTTTGAAAGAAGGCGAACGAGATG
AGCTTGAGAGTTTCATCAGGAAGGGTAAAGCCTCCGCGAGGAGTCTGACGCGTGCGAGGATACTGCTTCTTGCGGATGATGGCAGGAGTGACAAAGAGAT
AGTAGATGTGTTGAAGGTTTGCAGGGGTACGGTGCGTAATACACGTGACAGGTACTGGAAGGGTGGTCTTGATTGCGCGCTGAATGAGAAGCCGCGGAGT
GGAGCACCATCCAAGATAGATGGGCGGGTTGAAGCTGAGCTGACGCTTCTTGCGTGCTCCGATCCACCAGACGGCAGATCGAGATGGACTGTCATGCTTC
TCAGAGATAAGCTTGTTGAGATGGGCGTTGTGGATTCGATATCTCATATGACAGTGTACAGGACATTGAAAAAAAAAAAAAAAAAAAAAGCTCAAGCCAT
GGCTCGAGAAGAGGTGGTGTATAGGTAACATCACGGGCGACTTCATATGGCATATGGAGGACGTGCTGGATGTTTACGAGCAGCCCTATGACCCGAAGCG
TCCTGTGATCTGTTTTGACGAAAGAACATGTCAGCTGTTAGGCGATACGATAGTCCCGATACCCATGAAGCCAGGCAGCCCGAGGAAGGAACATTACGAG
TACGAGCGCAACGGCACTTGCTGCGTATTCATGGCGTTTGAACCTCTTGCTGGCAGAGGGATTGTCTCTGTCAGGGAACGTCGAACAAAGATCGATTATG
CAGAGTTCATGGTGGATCTCGCGAATCAGTATCCGGATGCAGAGAAGATCATCGTCGTCCAGGACAACCTCAATACTCACACCATGGGCTCATTCTATGA
TGCAATGCCTCCAGATGACGCTTTCAAGCTCGCAAAACAGTTTGAGTTCAATTACACTCCAAAAAAGGGTAGCTGGCTCAACATGGCTGAGATAGAGCTA
TCGGCATTATCAAAACAGTGCCTCGACCGGAGAATACCTGACATCAACAAACTGAGAGACGAAATCAATATCTGGCAACAGGAACGAAATGCAATCCGCG
CAACTGTACAGTGGAAGTTCAGCAAAGATAACGCCAGAGCAAAACTCAAACGACACTACAATACGGTTAAAAATTAATGTTAAGGAGCAC
AGCTTGAGAGTTTCATCAGGAAGGGTAAAGCCTCCGCGAGGAGTCTGACGCGTGCGAGGATACTGCTTCTTGCGGATGATGGCAGGAGTGACAAAGAGAT
AGTAGATGTGTTGAAGGTTTGCAGGGGTACGGTGCGTAATACACGTGACAGGTACTGGAAGGGTGGTCTTGATTGCGCGCTGAATGAGAAGCCGCGGAGT
GGAGCACCATCCAAGATAGATGGGCGGGTTGAAGCTGAGCTGACGCTTCTTGCGTGCTCCGATCCACCAGACGGCAGATCGAGATGGACTGTCATGCTTC
TCAGAGATAAGCTTGTTGAGATGGGCGTTGTGGATTCGATATCTCATATGACAGTGTACAGGACATTGAAAAAAAAAAAAAAAAAAAAAGCTCAAGCCAT
GGCTCGAGAAGAGGTGGTGTATAGGTAACATCACGGGCGACTTCATATGGCATATGGAGGACGTGCTGGATGTTTACGAGCAGCCCTATGACCCGAAGCG
TCCTGTGATCTGTTTTGACGAAAGAACATGTCAGCTGTTAGGCGATACGATAGTCCCGATACCCATGAAGCCAGGCAGCCCGAGGAAGGAACATTACGAG
TACGAGCGCAACGGCACTTGCTGCGTATTCATGGCGTTTGAACCTCTTGCTGGCAGAGGGATTGTCTCTGTCAGGGAACGTCGAACAAAGATCGATTATG
CAGAGTTCATGGTGGATCTCGCGAATCAGTATCCGGATGCAGAGAAGATCATCGTCGTCCAGGACAACCTCAATACTCACACCATGGGCTCATTCTATGA
TGCAATGCCTCCAGATGACGCTTTCAAGCTCGCAAAACAGTTTGAGTTCAATTACACTCCAAAAAAGGGTAGCTGGCTCAACATGGCTGAGATAGAGCTA
TCGGCATTATCAAAACAGTGCCTCGACCGGAGAATACCTGACATCAACAAACTGAGAGACGAAATCAATATCTGGCAACAGGAACGAAATGCAATCCGCG
CAACTGTACAGTGGAAGTTCAGCAAAGATAACGCCAGAGCAAAACTCAAACGACACTACAATACGGTTAAAAATTAATGTTAAGGAGCAC
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 | |
|---|---|---|---|---|---|
| 480 bp | 159 aa | 49 | 528 | + | No |
Description : First part of the transposase
ORF sequence :
MGRKRVHEVSLKEGERDELESFIRKGKASARSLTRARILLLADDGRSDKEIVDVLKVCRGTVRNTRDRYWKGGLDCALNEKPRSGAPSKIDGRVEAELTL
LACSDPPDGRSRWTVMLLRDKLVEMGVVDSISHMTVYRTLKKKKKKKAQAMAREEVVYR
LACSDPPDGRSRWTVMLLRDKLVEMGVVDSISHMTVYRTLKKKKKKKAQAMAREEVVYR
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 708 bp | 235 aa | 470 | 1177 | + | No |
Description : Second part of the transposase
ORF sequence :
KKKKKKKLKPWLEKRWCIGNITGDFIWHMEDVLDVYEQPYDPKRPVICFDERTCQLLGDTIVPIPMKPGSPRKEHYEYERNGTCCVFMAFEPLAGRGIVS
VRERRTKIDYAEFMVDLANQYPDAEKIIVVQDNLNTHTMGSFYDAMPPDDAFKLAKQFEFNYTPKKGSWLNMAEIELSALSKQCLDRRIPDINKLRDEIN
IWQQERNAIRATVQWKFSKDNARAKLKRHYNTVKN
VRERRTKIDYAEFMVDLANQYPDAEKIIVVQDNLNTHTMGSFYDAMPPDDAFKLAKQFEFNYTPKKGSWLNMAEIELSALSKQCLDRRIPDINKLRDEIN
IWQQERNAIRATVQWKFSKDNARAKLKRHYNTVKN
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1129 bp | 375 aa | 49 | 1177 | + | Yes |
Chemistry : DDE
ORF sequence :
MGRKRVHEVSLKEGERDELESFIRKGKASARSLTRARILLLADDGRSDKEIVDVLKVCRGTVRNTRDRYWKGGLDCALNEKPRSGAPSKIDGRVEAELTL
LACSDPPDGRSRWTVMLLRDKLVEMGVVDSISHMTVYRTLKKKKKKKLKPWLEKRWCIGNITGDFIWHMEDVLDVYEQPYDPKRPVICFDERTCQLLGDT
IVPIPMKPGSPRKEHYEYERNGTCCVFMAFEPLAGRGIVSVRERRTKIDYAEFMVDLANQYPDAEKIIVVQDNLNTHTMGSFYDAMPPDDAFKLAKQFEF
NYTPKKGSWLNMAEIELSALSKQCLDRRIPDINKLRDEINIWQQERNAIRATVQWKFSKDNARAKLKRHYNTVKN
LACSDPPDGRSRWTVMLLRDKLVEMGVVDSISHMTVYRTLKKKKKKKLKPWLEKRWCIGNITGDFIWHMEDVLDVYEQPYDPKRPVICFDERTCQLLGDT
IVPIPMKPGSPRKEHYEYERNGTCCVFMAFEPLAGRGIVSVRERRTKIDYAEFMVDLANQYPDAEKIIVVQDNLNTHTMGSFYDAMPPDDAFKLAKQFEF
NYTPKKGSWLNMAEIELSALSKQCLDRRIPDINKLRDEINIWQQERNAIRATVQWKFSKDNARAKLKRHYNTVKN
Blast result :
Comments
ISMth1 is 44% aa similar to ISRj1.
The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina del Rio,T., Hammon,N., Israni,S., Dalin,E., Tice,H., Bruce,D., Pitluck,S. and Richardson,P. (2006) Direct submission GenBank.