IS1A

  • Family IS1
  • Group
MGE type ISRelated element(s) :
Isoform Synonym(s) IS1E, IS1K
Accession numberTranspositionOriginHost
X52534 Y Escherichia coli
Salmonella typhimurium SARA38
Escherichia coli W3110
Escherichia coli
Escherichia coli G7 plasmid pRI8801
DNA section
IS Length : 768 bp

Ends


IR Length : 18/23

IRL : GGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTG
IRR : GGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGA

Insertion site


Left flankDirect repeatRight flankDR Length
ATTTACTTATGACATTAAAAGTAACTTTT9
CACCGGCATACTCTGCGACATCGTATAAC9
ATCAGATGAATAGCCTGTCTTACAGTAAA9
ATCTAATAACTGTTTCTTTTTGTTTTTAT9
NNNNNNNNTTGTGTTTTTCATNNNNNNNN9

DNA sequence

GGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGAC
GGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTC
AACCCGGTACGCACCAGAAAATCATTGATATGGCCATGAATGGCGTTGGATGCCGGGCAACAGCCCGCATTATGGGCGTTGGCCTCAACACGATTTTACG
TCACTTAAAAAACTCAGGCCGCAGTCGGTAACCTCGCGCATACAGCCGGGCAGTGACGTCATCGTCTGCGCGGAAATGGACGAACAGTGGGGCTATGTCG
GGGCTAAATCGCGCCAGCGCTGGCTGTTTTACGCGTATGACAGTCTCCGGAAGACGGTTGTTGCGCACGTATTCGGTGAACGCACTATGGCGACGCTGGG
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
LengthBeginEndStrandFusion ORF
276 bp91 aa56331+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MASVSISCPSCSATDGVVRNGKSTAGHQRYLCSHCRKTWQLQFTYTASQPGTHQKIIDMAMNGVGCRATARIMGVGLNTILRHLKNSGRSR

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
525 bp174 aa229753+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

YGHEWRWMPGNSPHYGRWPQHDFTSLKKLRPQSVTSRIQPGSDVIVCAEMDEQWGYVGAKSRQRWLFYAYDSLRKTVVAHVFGERTMATLGRLMSLLSPF
DVVIWMTDGWPLYESRLKGKLHVISKRYTQRIERHNLNLRQHLARLGRKSLSFSKSVELHDKVIGHYLNIKHYQ

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
698 bp232 aa56753+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MASVSISCPSCSATDGVVRNGKSTAGHQRYLCSHCRKTWQLQFTYTASQPGTHQKIIDMAMNGVGCRATARIMGVGLNTILRHLKKLRPQSVTSRIQPGS
DVIVCAEMDEQWGYVGAKSRQRWLFYAYDSLRKTVVAHVFGERTMATLGRLMSLLSPFDVVIWMTDGWPLYESRLKGKLHVISKRYTQRIERHNLNLRQH
LARLGRKSLSFSKSVELHDKVIGHYLNIKHYQ

 

Blast result :
Comments
Note that: ORF1 = InsA: 91 aa, ORF2' = InsB: 125 aa, ORF1-2 = InsA-B'-InsB: 232 aa. Although insE was originally thought to encode an accessory protein involved in IS1 transposition (Jakowec et al., 1988), recent experiments (Freund and Susskind, 1996) showed that insE is not essential for the formation of IS1 cointegrates. When the transframe protein is efficiently produced, IS1 generates adjacent deletions and minicircle molecules (Sekine et al., 1997). These molecules consist of the entire IS1 sequence and a 5-9 bp sequence which intervenes between the IS1 terminal repeats (IRL and IRR) and corresponds to the original region flanking either IRL and IRR. IS1 is present in about 14% of the Salmonella strains tested but in more of 90% of those of Escherichia coli (Bisercic and Ochman, 1993b). Three other copies of IS1A have been described: IS1E in Escherichia coli W3110 (Umeda and Ohtsubo, 1991; X52537), IS1K in Escherichia coli (F'lac-proB) (Johnsrud, 1979; J01729) and IS1 in Salmonella typhimurium SARA38 (Bisercic and Ochman 1993b). Two IS1 copies, in inverted orientation, are present in the fae (biosynthesis of K88 fimbriae) regulatory region of Escherichia coli G7 (pRI8801), between the FaeA and FaeB regulatory proteins. It is also hypothesized that these IS1 interfered with the K88 biosynthesis regulation (Huisman et al., 1994). Similarly, two IS1 copies were found to flank a duplicated manC-manB region (involved in the GDP-mannose formation) and possibly participating in the antigenic diversity seen in surface polysaccharides of several Escherichia coli strains (Drummelsmith et al., 1997).
References