ISH3B
- Family ISH3
- Group
Isoform ISH27-1Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| AF016485 | ND | Halobacterium salinarum | Halobacterium salinarum R1 Halobacterium salinarum NRC-1 plasmid pNRC100 |
DNA section
IS Length : 1398 bp
Ends
IR Length : 15/16
IRL : CAGTACATCACAAAGCCGGTTAGTTGAGACGTCTGCTTGCTGAAGGTGTG
IRR : CAGTACCTCACAAAGCATTCTCGGCTAGCTGTTTCTGAAGCCTGAGTTCC
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| ATGAAACAGA | AGACT | GGGCTGGTTC | 5 |
| TATGGAGCTT | AACCTTGCCC | 0 | |
| TGCCAAGTCT | AATGTAGCTA | 0 |
DNA sequence
CAGTACATCACAAAGCCGGTTAGTTGAGACGTCTGCTTGCTGAAGGTGTGTCTACAACCCAGCAAGCAGACGGTGAAATCCACGAGGACCAGCTTCTTAA
CTTCCTCGTCAACGCTCTTGACGAGGAAGTCGCCCTCACACTCGCTGAAAACGCCGAGATCGATGCTGAAGACATCTACGAGGTCCTCGTCGGCGCGTGC
GCCGACGGGACCTCGGTCTCAACGCTCTGTGAGAAAAGCGAAGATGCCCCCCACGAAAATTCGGTTCTCTACCATCTCCGCACCAAATTCGACCTTGAGA
CGCTTGAGCAAGTCGGAAACGCGCTCCTTCAGAAGGACGTTCTCGACGTCCTTCCCCAGCAGGTGGAGGTCGTTTCGGACCTCCACCTGCGGCCCTACTA
CGGCGATGAAGACGGGACAGACGGCCTGTATCACTCACAAGCGAAGCGTGGAACAACTGCGTTCCACGCCTACGCCACACTCTACGCGCGTGTGAAGAAC
AAACGCTACACGCTGGCGGTGCGCCGTCTCGAAGACGGCGACACCGCCAGCAGTGTCCTCGCAGAGTTTCTCGGTATCCTCGACGGCCTTGACCTCGACG
TCAAGGCCGTCTTTCTTGACCGCGAATTCTACGACAGCAAGTGTTTGACGCTGCTTCAGGCACACAACCACGCCTACGTCATGCCGATCGTCCGCTGGGG
ACAGACGATCAAGCAAGAACTCTCGGAAGGCTGGAGTCGCGTCATTCAACACGACATGACGGCGAAACTCGACGGTCACAGCTGGACCGTCGAGTTTCTC
GTCTACATCGACTGTACGTACCAAAACGGACGGTGCGACGAACATGGGGTGGCGCGTCACGGCTACGCCGCTGACGCGCCGTTCATCGAGAGTCCACGCG
ACGCTCGATACCACTACGCGAAACGCTTCGGTATCGAAGCGAGCTATCGACTCTCTGAACAAAGTATTGCGACGACCTCAACACAAAATCCGGTCGTACG
GCTGCTGTACGTCGTGGTGAGCTTGTTGTTACAAAACGTCTGGCGGTATTTACATTGGGAGTACGTGGCGACGCCCCGCCGTGGGGGGCGTCGCCTCTGG
AAGTGGTCGTTCAAGGAGTTCATCAACATGATTCAACGGGCAGCGTGGACGGCCCTCGCGACGCGTCGGGCCGTCCCCGCAAACCGACCGCCAGACGACC
GGTTTACCCGCTAATCCCCGACCAGGGTAGCCTTCGCCAGGAGTGGCGACGCTGTCGCGTCGGCGGCAGCCGCCGCCGACAGCGACAGCTCTCCGTCGGT
TCGTCGGAGATCTTCTCGTCAAGACCACCAGCACAACAGCTCCGCCGTGGAACTCAGGCTTCAGAAACAGCTAGCCGAGAATGCTTTGTGAGGTACTG
CTTCCTCGTCAACGCTCTTGACGAGGAAGTCGCCCTCACACTCGCTGAAAACGCCGAGATCGATGCTGAAGACATCTACGAGGTCCTCGTCGGCGCGTGC
GCCGACGGGACCTCGGTCTCAACGCTCTGTGAGAAAAGCGAAGATGCCCCCCACGAAAATTCGGTTCTCTACCATCTCCGCACCAAATTCGACCTTGAGA
CGCTTGAGCAAGTCGGAAACGCGCTCCTTCAGAAGGACGTTCTCGACGTCCTTCCCCAGCAGGTGGAGGTCGTTTCGGACCTCCACCTGCGGCCCTACTA
CGGCGATGAAGACGGGACAGACGGCCTGTATCACTCACAAGCGAAGCGTGGAACAACTGCGTTCCACGCCTACGCCACACTCTACGCGCGTGTGAAGAAC
AAACGCTACACGCTGGCGGTGCGCCGTCTCGAAGACGGCGACACCGCCAGCAGTGTCCTCGCAGAGTTTCTCGGTATCCTCGACGGCCTTGACCTCGACG
TCAAGGCCGTCTTTCTTGACCGCGAATTCTACGACAGCAAGTGTTTGACGCTGCTTCAGGCACACAACCACGCCTACGTCATGCCGATCGTCCGCTGGGG
ACAGACGATCAAGCAAGAACTCTCGGAAGGCTGGAGTCGCGTCATTCAACACGACATGACGGCGAAACTCGACGGTCACAGCTGGACCGTCGAGTTTCTC
GTCTACATCGACTGTACGTACCAAAACGGACGGTGCGACGAACATGGGGTGGCGCGTCACGGCTACGCCGCTGACGCGCCGTTCATCGAGAGTCCACGCG
ACGCTCGATACCACTACGCGAAACGCTTCGGTATCGAAGCGAGCTATCGACTCTCTGAACAAAGTATTGCGACGACCTCAACACAAAATCCGGTCGTACG
GCTGCTGTACGTCGTGGTGAGCTTGTTGTTACAAAACGTCTGGCGGTATTTACATTGGGAGTACGTGGCGACGCCCCGCCGTGGGGGGCGTCGCCTCTGG
AAGTGGTCGTTCAAGGAGTTCATCAACATGATTCAACGGGCAGCGTGGACGGCCCTCGCGACGCGTCGGGCCGTCCCCGCAAACCGACCGCCAGACGACC
GGTTTACCCGCTAATCCCCGACCAGGGTAGCCTTCGCCAGGAGTGGCGACGCTGTCGCGTCGGCGGCAGCCGCCGCCGACAGCGACAGCTCTCCGTCGGT
TCGTCGGAGATCTTCTCGTCAAGACCACCAGCACAACAGCTCCGCCGTGGAACTCAGGCTTCAGAAACAGCTAGCCGAGAATGCTTTGTGAGGTACTG
Protein section
ORF number : 1
ORF 1
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1167 bp | 388 aa | 48 | 1214 | + | No |
Chemistry : DDE
ORF sequence :
MSTTQQADGEIHEDQLLNFLVNALDEEVALTLAENAEIDAEDIYEVLVGACADGTSVSTLCEKSEDAPHENSVLYHLRTKFDLETLEQVGNALLQKDVLD
VLPQQVEVVSDLHLRPYYGDEDGTDGLYHSQAKRGTTAFHAYATLYARVKNKRYTLAVRRLEDGDTASSVLAEFLGILDGLDLDVKAVFLDREFYDSKCL
TLLQAHNHAYVMPIVRWGQTIKQELSEGWSRVIQHDMTAKLDGHSWTVEFLVYIDCTYQNGRCDEHGVARHGYAADAPFIESPRDARYHYAKRFGIEASY
RLSEQSIATTSTQNPVVRLLYVVVSLLLQNVWRYLHWEYVATPRRGGRRLWKWSFKEFINMIQRAAWTALATRRAVPANRPPDDRFTR
VLPQQVEVVSDLHLRPYYGDEDGTDGLYHSQAKRGTTAFHAYATLYARVKNKRYTLAVRRLEDGDTASSVLAEFLGILDGLDLDVKAVFLDREFYDSKCL
TLLQAHNHAYVMPIVRWGQTIKQELSEGWSRVIQHDMTAKLDGHSWTVEFLVYIDCTYQNGRCDEHGVARHGYAADAPFIESPRDARYHYAKRFGIEASY
RLSEQSIATTSTQNPVVRLLYVVVSLLLQNVWRYLHWEYVATPRRGGRRLWKWSFKEFINMIQRAAWTALATRRAVPANRPPDDRFTR
Blast result :
Comments
ISH3 has been isolated through its inactivation of the gvp operon (gas vesicle proteins, Vac-). ISH3B is present in the HindIII-E fragment of the pNRC100 plasmid from Halobacterium salinarum NRC-1 (Halladay et al., 1993). ISH3B is 97 % identical to ISH3A (over 471 bp).
Two copies are present in pNRC100 of Halobacterium sp. NRC-1 at coordinates 14061-12662 (2 additionnal bp were present at left extremity) ; 81981-83378. The most of differencies between this IS and ISH3C were localised at coordinates (pep) 61-126 and 331-316.
File updated: June 2 2010.
Two copies are present in pNRC100 of Halobacterium sp. NRC-1 at coordinates 14061-12662 (2 additionnal bp were present at left extremity) ; 81981-83378. The most of differencies between this IS and ISH3C were localised at coordinates (pep) 61-126 and 331-316.
File updated: June 2 2010.
References
1] DasSarma S., Halladay J.T., Jones J.G., Donovan J.W., Giannasca P.J., Tandeau de Marsac N. (1988) Proc. Natl. Acad. Sci., USA, 85, 6861-6865.
2] Jones J.G., Hackett N.R., Halladay J.T., Scothorn D.J., Yang C.-F., Ng W.-L., and DasSarma S. (1989) Nucl. Acids Res. 17, 7785-7793.
3] DasSarma S. (1989) Can. J. Microbiol. 35, 65-72.
4] Ng W.-L., Kothakota S., and DasSarma S. (1991) J. Bacteriol. 173, 1958-1964.
5] Ng W.-L., and DasSarma S. (1993) J. Bacteriol. 175, 4584-4596.
6] Pfeifer F., and Ghahraman P. (1993) Mol. Gen. Genet. 238, 193-200.
7] Halladay J.T., Donovan J.W., Jones J.G., Young D.C., and DasSarma S. (1993) Unpublised results
8] Wailap V. Ng., Stacy A. Ciufo, Smith T.M., Bumgarner R.E., Baskin D., Faust J., Hall B., Loretz C., Seto J., Slagel J., Hood L., and DasSarma S. (1998) Genome Research 8, 1131-1141
9] Pfeiffer F., Schuster S.C., Broicher A., Falb M., Palm P., Rodewald K., Ruepp.A., Soppa J., Tittor J., Oesterhelt D. (2008) Genomics 91, 335-346
2] Jones J.G., Hackett N.R., Halladay J.T., Scothorn D.J., Yang C.-F., Ng W.-L., and DasSarma S. (1989) Nucl. Acids Res. 17, 7785-7793.
3] DasSarma S. (1989) Can. J. Microbiol. 35, 65-72.
4] Ng W.-L., Kothakota S., and DasSarma S. (1991) J. Bacteriol. 173, 1958-1964.
5] Ng W.-L., and DasSarma S. (1993) J. Bacteriol. 175, 4584-4596.
6] Pfeifer F., and Ghahraman P. (1993) Mol. Gen. Genet. 238, 193-200.
7] Halladay J.T., Donovan J.W., Jones J.G., Young D.C., and DasSarma S. (1993) Unpublised results
8] Wailap V. Ng., Stacy A. Ciufo, Smith T.M., Bumgarner R.E., Baskin D., Faust J., Hall B., Loretz C., Seto J., Slagel J., Hood L., and DasSarma S. (1998) Genome Research 8, 1131-1141
9] Pfeiffer F., Schuster S.C., Broicher A., Falb M., Palm P., Rodewald K., Ruepp.A., Soppa J., Tittor J., Oesterhelt D. (2008) Genomics 91, 335-346