ISH2

  • Family IS4
  • Group ISH8
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
J01726 ND Halobacterium salinarum
Halobacterium tunesiensis A2
Halobacterium salinarum R1
Halobacterium salinarum PHH1 plasmid pHH1
Halobacterium salinarum NRC-1 plasmid pNRC100
Halobacterium salinarum NRC34020
Halobacterium salinarum NRL
Halobacterium salinarum S9
DNA section
IS Length : 521 bp

Ends


IR Length : 19

IRL : CATTCGTCTTTAGTTAAGAAATCGCGTGACAGCGGTAGGATCTCTTCGCT
IRR : CATTCGTCTTTAGTTAAGAGCGAAACCGCCACATGGCGTAGGGCTGAACA

Insertion site


Left flankDirect repeatRight flankDR Length
ATCCGCGTGTCGGCTCCGTGTCTGACGGTT10
TGCTGGGGTATGGCCTCACAATGGTACNNN10
ATCACGACTACTGGGGAAGCTTGGTTATCC10
NNNNNNCTTTCTCGTTCGCTACGGNNNNNN10
GTCGTAGATGATACCCGGATCTTCGAGCTG10
NNNNNNTATAGTTAACGCCAACATNNNNNN10
NNNNNNNNNNTCCAGGGCGTNNNNNNNNNN10
NNNNNNNNNNTGCCTCCGAGNNNNNNNNNN10
NNNNNNNNNNGTGCGAACGGNNNNNNNNNN10
NNNNNNNNNNACGGGAAGACNNNNNNNNNN10
ACTACGACCAAGGCGGCTACTATCACGTCT10
CGATGCCTAACTCGCGGAGGTCATCGAAAA10
CCGAGTACAACCCAGAGGACTTCCCTGGGG10
CTTCGATATAGTTAACGCCAACATCTGGTC10
TTCTGGAAAGCATCATCCTCTTCTTGTGCC10
GATTCCGGAACCACGTACGTTTCCGTACCA10
TTGGATGTTCCAGGGGCAATAGCACCCCAA10
NNNNNNNNNNGAATACACACGNNNNNNNNNN11
NNNNNNNNNNACCCAACAGGTNNNNNNNNNN11
NNNNNNNNNNACCCAGCCCCGNNNNNNNNNN11
TATGGAAGAACCGTTGAAAAGTATGTTCGCA11
NNNNNNNNNNGTCCGGGTACAGNNNNNNNNN12
NNNNNNCAGAACCCCATCTACTGGGCGCGGTACGNNNNNN20
CTCGAAGATACGTCGCATAATCAGTGTAAAAGTCAATCAGTTCTGTTCCGCCATAGGGGGAGAGTGTTGGGACTC55
TGCCGACACGCGCGGAACGA0
ACCTCCTCCGCCTCCACAGG0

DNA sequence

CATTCGTCTTTAGTTAAGAAATCGCGTGACAGCGGTAGGATCTCTTCGCTGTGCAAGACGCGGCTGAGATCTCTTTTGATAATATTTTAACCTAAATCGA
AATAAGACGATAATCTTACCGTGCACCCGGTGCACGTATTTCTAAGAGCGTCTAAGACTATGGCTCGAACCAAAATGGGCGTCTCCATCCGAACTGAACT
CGTTGATGAACTCGATTCACTCGTCGATGAGTGTTCAGATCTCGGAGCAAGCCGCTCCGAGATCGTTGAAGCCATCCTCACAGCATATTTTCAGAACGAT
GAAGACCAAATCAAACAGACGCGAGAGCTGATTATCCGCAACAGAAAACGCTCTAACTCGTAGAGAAGTTCGTGCACCGAGTGCACGAACTTCTTAGAGC
GTCATTCAAAACCACGACCTAGCTAAATTAATATCGGATTGGTCTTGGGCGAATAGAAATCTTCTCTTCACTGTTCAGCCCTACGCCATGTGGCGGTTTC
GCTCTTAACTAAAGACGAATG
Protein section
ORF number : 1

 

ORF 1
LengthBeginEndStrandFusion ORF
204 bp67 aa160363+No
ORF function : Transposase
Chemistry : DDE

ORF sequence :

 

Blast result :
Comments
ISH2 is associated with the inactivation of the bacteriorhodopsin (bop) gene (coding for the purple membrane protein), and the appearance of Vac- (gas vacuole formation) and Rub- (bacterioruberin) phenotypes.
In the Pum- (purple membrane protein) mutants, the bacterio-opsin gene has been inactivated by the insertion of one of two transposable elements (ISH1 or ISH2) (DasSarma et al., 1983).
ISH2 shares nearly perfect terminal homology (but no internal homology) with ISH26, and it is possible that ISH2 transposition is complemented in trans by ISH26 (Ebert et al., 1987). An "A" should be added at position 388 (Pfeifer and Blaseio, 1989).
All coordinates have been changed accordingly. ISH2 is present in multiple copies in the Halobacterium salinarum S9 (formerly Halobacterium halobium) genome.
Four copies are present in pNRC100 of Halobacterium sp. NRC-1 at coordinates 70690-71210 ; 74654-75174 ; 150254-150774 ; 153539-154059.
The ISH2 protein was identified upon analysis of "The low molecular weight proteome of Halobacterium salinarum."
References
1] DasSarma S., RajBhandary U.L., and Khorana H.G. (1983) Proc. Natl. Acad. Sci., USA 80, 2201-2205.
2] Pfeifer F., Betlach M., Martienssen R., Friedman J., and Boyer H.W. (1983) Mol. Gen. Genet. 191, 182-188.
3] DasSarma S., RajBhandary U.L., and Khorana H.G. (1984) Proc. Natl. Acad. Sci., USA 81, 125-129.
4] Pfeifer F., Friedman J., Boyer H.W., and Betlach M. (1984) Nucl. Acids Res. 12, 2489-2497.
5] Pfeifer F., and Betlach M. (1985) Mol. Gen. Genet. 198, 449-455.
6] Ebert K., Goebel W., Moritz A., Rdest U., and Surek B. (1986) System. Appl. Microbiol. 7, 30-35.
7] Pfeifer F. (1986) System. Appl. Microbiol. 7, 36-40.
8] Ebert K., Hanke C., Delius H., Goebel W., and Pfeifer F. (1987) Mol. Gen. Genet. 206, 81-87.
9] Pfeifer F., Blaseio U., and Ghahraman P. (1988) J. Bacteriol. 170, 3718-3724.
10] DasSarma S. (1989) Can. J. Microbiol. 35, 65-72.
11] Pfeifer F., and Blaseio U. (1989) J. Bacteriol. 171, 5135-5140.
12] Pfeifer F., Blaseio U., and Horne M. (1989) Can. J. Microbiol. 35, 96-100.
13] Ng, W.-L., Kothakota, S., and DasSarma, S. (1991) J. Bacteriol. 173, 1958-1964.
14] Pfeifer F., and Englert C. (1992) J. Bioenergetics and Biomembranes 24, 577-585
15] 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
16] Klein C., Aivaliotis M., Olsen J.V., Falb M., Besir H., Scheffer B., Bisle B., Tebbe A., Konstantinidis K., Siedler F., Pfeiffer F., Mann M., Oesterhelt D. (2007) J. Proteome Res. 6: 1510-1518
17] 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