ISfinder Mirror Site

ISPs1

Family IS5
Group IS427

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

Accession number	Transposition	Origin	Host
AY342395	ND	Pseudomonas syringae	Pseudomonas syringae pv. Savastanoi Pseudomonas syringae pv. syringae plasmid pPSR1

DNA section

IS Length : 910 bp

Ends

IR Length : 17

IRL : GGTTTTGTACGAAAAGTCGGTGGGGGTAGAATTGCCGCCATGATTGGCTG
IRR : GGTTTTGTACGAAAAGTATTGCCGCATACAACGTAGGCTGCAGGCCAGCG

Insertion site

Left flank	Direct repeat	Right flank	DR Length
TTGTTGTCCC	TA	AGGCCACGAA	2

DNA sequence

GGTTTTGTACGAAAAGTCGGTGGGGGTAGAATTGCCGCCATGATTGGCTGGAGGCCCGCATGGCAAAGCGTTACGAACTCTCCGACGCATCGTGGGAATT
GATCAAGGATCTGGTTTCTCCCGAGCAGAAAATGGGTCGCCCACGTAGTGATGATCGCCTGGTACTCCACGGAGTCCTTTGGATTTTGTGCTCGGGTGCT
GCCTGGCGTGATCTGCCGGAACGCTTTGGGCCTTGGTCGACGGTGTATCAGCGTTTTCGTGACTGGCGCGATAACGGCACGTTCGACCGGATACTGGAAC
GCTTGCACATTCGACTCAACCAGGAAGGACTGATCGATCTGGACACCTGGATGATCGACTCCACGGCGGTACGTGCAACCCGAGCCTCCTCAGGCGCCGG
AAAAAAGGGGGGCCTGAAGAACCGCTAGACCATGCTCTGGGGCGCAGTCGAGGCGGCCTGACAACCAAGATTCATATGGTTTGCGACGCTAATGGCGTGC
CATTGCGCTTCATGCTTTCACCGGGACAAGCCAGCGATATCGCCCACGCCCAGCTGTTGCTGGATCAGGTGCGCATTTCCGGTAAGCCGGGGCGACCACG
CAAACGCAGTAGATGGTTGCTGGCTGACAAAGGCTATGACGCGGAACACCTGCGTTACTACTGCGACCGTTACCGAATACAGCCTGTGATCCCGCTACGC
GCCATGCCACGCAAACCCCGGGCTGGCTTGCCCCGACTCTTTGATCGTCCAAAGTATCGGCAGCGCAACATCATTGAGCGGATGTTTGGCTGGCTAAAAG
AGAACCGCCGAATCGGCACCCGCTACGACAAGCTGGCCAAGAGCTACGCAGCCATGGTCACGCTGGCCTGCAGCCTACGTTGTATGCGGCAATACTTTTC
GTACAAAACC

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
369 bp	122 aa	60	428	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MAKRYELSDASWELIKDLVSPEQKMGRPRSDDRLVLHGVLWILCSGAAWRDLPERFGPWSTVYQRFRDWRDNGTFDRILERLHIRLNQEGLIDLDTWMID
STAVRATRASSGAGKKGGLKNR

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
636 bp	212 aa	275	910	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

RHVRPDTGTLAHSTQPGRTDRSGHLDDRLHGGTCNPSLLRRRKKGGPEEPLDHALGRSRGGLTTKIHMVCDANGVPLRFMLSPGQASDIAHAQLLLDQVR
ISGKPGRPRKRSRWLLADKGYDAEHLRYYCDRYRIQPVIPLRAMPRKPRAGLPRLFDRPKYRQRNIIERMFGWLKENRRIGTRYDKLAKSYAAMVTLACS
LRCMRQYFSYKT

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
851 bp	284 aa	60	910	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MAKRYELSDASWELIKDLVSPEQKMGRPRSDDRLVLHGVLWILCSGAAWRDLPERFGPWSTVYQRFRDWRDNGTFDRILERLHIRLNQEGLIDLDTWMID
STAVRATRASSGAGKKGGPEEPLDHALGRSRGGLTTKIHMVCDANGVPLRFMLSPGQASDIAHAQLLLDQVRISGKPGRPRKRSRWLLADKGYDAEHLRY
YCDRYRIQPVIPLRAMPRKPRAGLPRLFDRPKYRQRNIIERMFGWLKENRRIGTRYDKLAKSYAAMVTLACSLRCMRQYFSYKT

Blast result :

Comments

ISPs1 is 96% (ORFC) aa similar to ISPst8.
The stop codon is in the DR.
The third ORF is a putative transposase reconstructed in silico by possible -1 frameshift.

References

1] Yamada, T., Palm, C.J., Brooks, B., and Kosuge, T. (1985). Nucleotide sequences of the Pseudomonas savastonoi indoleacetic acid genes show homology with agrobacterium tumefaciens T-DNA. Proc. Natl. Acad. Sci., USA 82, 6522-6526.
2] Gaffney,T.D, Da Costa e Silva, O., Yamada, T., and Kosuge, T.(1990) . Indoleacetic acid operon of Pseudomonas syringae subsp. Savastanoi : Transcription analysis and promoter identification. J.Bacteriol. 172, 5593-5601.
3] Laine, M.J., Zhang, Y.-P., and Metzler, M.C. (1994) Plasmid 32, 270-279.
4] Sundin,G.W., Mayfield,C.T., Zhao,Y., Gunasekera,T.S., Foster,G.L. and Ullrich,M.S. (2004) Mol. Genet. Genomics 270 (6), 462-476