ISfinder Mirror Site

ISPbe2

Family IS5
Group IS427

MGE type ISRelated element(s) :
Isoform Synonym(s)

Accession number	Transposition	Origin	Host
HQ384167	Y	Paracoccus bengalensis	Paracoccus bengalensis DSM 17099

DNA section

IS Length : 851 bp

Ends

IR Length : 16/20

IRL : GGCCGTGTTGACAAAAGGGGTTCTCTTGAGCTGCGCCCTGTGATTCAAAC
IRR : GGTCATGTTGACAAATGGCGGATCCATAGCCTGATGCAGGCGACGTCGAT

Insertion site

Left flank	Direct repeat	Right flank	DR Length
TTCTCAAAGT	TA	GCGTTGAAGA	2

DNA sequence

GGCCGTGTTGACAAAAGGGGTTCTCTTGAGCTGCGCCCTGTGATTCAAACTCATCTCCACGTGGGAGGTGAGCTTGGCGCGCAATTTGATATCCGACGAC
GAGTGGGCCTTCTTCGAGGGCTTCATTCGCGCCGTCAGACGCCCGAATGGGCGGAAGCCTGCGGATCATCGTATTGTTCTGGATGGTATTTTCTGGATCG
CAAGGACTGGTGCGCCATGGCGTGACCTGCCCGAAGAGTTCGGAAAGTGGTCGTCTGTCTACCGCCAGTTCCGCCGCTGGACCCTTGCGGGGCTGTGGGA
GGATATCCTGGATGCGTTGAACCACGCGGGTATTGCGCCGGACAAGCTGCAGATGGTCGACAGTACTGTGATCCGCGCCCATCATCATGCGGCGGGCGCA
AAAGGGGGACTCCAAAAGAGGCTCTTGGCCGTTCGAGAGGTGGGTTCTCGACCAAGATCCACCTCCGCGTTAACGGCGCAGGTCTCCCGATGAGGACCGA
GATCACGCCGGGGCAGGATTCCGACTACACCGGCTATGATCTGGTGATGGCCGACAATCTGCCGCAGCCAGCCGTTCTGGTCGCGGACAGGGGCTATGAC
TCTGACAAAATTCGAGAAGACATCGAGAGCCGCAATGCTCTGCCGATGATACCGATGCGAAAGAACCGCAAGGTGCGCAAGGCTGTAGACCTGACGATCT
ACACGCTGCGCAACATGGTCGAGCGTTGCTTCAACAAGCTGAAGAACAGCCGTCGGCTTGCAACCCGCTACGACAAAACCGCCGAAAGCTTTCTCGGCTT
CATCGACGTCGCCTGCATCAGGCTATGGATCCGCCATTTGTCAACATGACC

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
426 bp	141 aa	68	493	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

VSLARNLISDDEWAFFEGFIRAVRRPNGRKPADHRIVLDGIFWIARTGAPWRDLPEEFGKWSSVYRQFRRWTLAGLWEDILDALNHAGIAPDKLQMVDST
VIRAHHHAAGAKGGLQKRLLAVREVGSRPRSTSALTAQVSR

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
624 bp	207 aa	226	849	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

PARRVRKVVVCLPPVPPLDPCGAVGGYPGCVEPRGYCAGQAADGRQYCDPRPSSCGGRKRGTPKEALGRSRGGFSTKIHLRVNGAGLPMRTEITPGQDSD
YTGYDLVMADNLPQPAVLVADRGYDSDKIREDIESRNALPMIPMRKNRKVRKAVDLTIYTLRNMVERCFNKLKNSRRLATRYDKTAESFLGFIDVACIRL
WIRHLST

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
782 bp	260 aa	68	849	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

VSLARNLISDDEWAFFEGFIRAVRRPNGRKPADHRIVLDGIFWIARTGAPWRDLPEEFGKWSSVYRQFRRWTLAGLWEDILDALNHAGIAPDKLQMVDST
VIRAHHHAAGAKRGTPKEALGRSRGGFSTKIHLRVNGAGLPMRTEITPGQDSDYTGYDLVMADNLPQPAVLVADRGYDSDKIREDIESRNALPMIPMRKN
RKVRKAVDLTIYTLRNMVERCFNKLKNSRRLATRYDKTAESFLGFIDVACIRLWIRHLST

Blast result :

Comments

ISPbe2 has been identified by its integration to the entrapment vector pMEC1. ISPbe2 is 98% aa similar to ISPaes1. At position 401, ISPbe2 harbours the sequence 5'-AAAAGGGGG-3' that might function as a -1 translational frameshifting site.
The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] Dziewit, L., Baj, J., Szuplewska, M., Maj A., Tabin, M., Czyzkowska, A., Skrzypczyk, G., Adamczuk, M., Sitarek, T., Stawinski, P., Tudek, A., Wanasz, K., Wardal, E., Piechucka, E., Bartosik, D. (2012) PLoS ONE 7: e32277