ISfinder Mirror Site

ISPsy6

Family IS1182
Group

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

Accession number	Transposition	Origin	Host
AE016853	ND	Pseudomonas syringae	Pseudomonas syringae DC3000

DNA section

IS Length : 1603 bp

Ends

IR Length : 16/16

IRL : CAGACTGTGTGAAAACCTAGCAATCTGCGCAGCGCTCAAAGAAAATGCTC
IRR : CAGACTGTGTGAAAACACACTGATGAAGGCCCAAGCAAACGCCCCGACTT

Insertion site

Left flank	Direct repeat	Right flank	DR Length
AGAGACCTCC	TTCG	GGAGGTCTCT	4
GAAAAGACGC	TTAG	GCGTCTTTTT	4
AAAAACCGGC	TTTC	GCCGGTTTTT	4
AAAAGGCGCC	GAAG	CGCCCTTTTT	4
AAAGGCAGCC	CTGA	GGCTGCCTTT	4
GAAAGAGACC	TTCG	GGTCTCTTTT	4
AAAAGCCACC	CGAA	GGTGGCTTTT	4
AAAAACCACC	TCGAA	GGTGGTTTTT	5
AAACGGCACC	CTTG	AGGTGCCGTT	4
AAAAGCGACC	TCAG	GGTCGCTTTT	4
AAAAAGGACT	CTTC	GGAGTCCTTT	4
CAAGGGGACC	CTCT	GGTCCCCTTT	4

DNA sequence

CAGACTGTGTGAAAACCTAGCAATCTGCGCAGCGCTCAAAGAAAATGCTCCGTATCGAAAGATACAGAGCATTTTTCGTTATGGCCTACATCCAAGGTGA
GTCCCGCAGCCAGACCAGCCTATTCCCGGTCTCGCTGGAAGAGTTGATCCCCGAGGATCACCTCGTTCGTGTCATTGACCTGTACGTTGCCAAGCTCGAT
CTGGTGCAACTGGGCTTCGATAAAGCGATTCCAAAAAGCACGGGGCGCCCTGCTTATGATCCCGCCGATCAGCTAAGACTCTACCTCTACGGCTATTTTC
AGCGGATTCGCTCATCGCGACGTCTTGAAGCCGAGTGTCAGCGCAACATCGAAGTGATGTGGCTGATCAACCGGCTCAAGCCCGACTTCAAGACCATCGC
CGACTTTCGCAAGAACAATAAACCCGCCTTCATCGCGACCTGCCGTGCTTTCGTTCGATTTTGTCGCACAGCAGGCTTGATCGCCGGTGAATTGGTGGCC
ATCGACGGCAGCAAGTTTCAGGCGGTCGCCTCCTCACGGCGTCATGTGAATTTGAAGCAGCTCAAGCGCCAGGAAGAAAAACTGGATAAGCGCATCGCTC
AGTATCTGGCCGAGCTGGATGAGGCCGACAAGGCTGAAACCACAGATTCAATTGATCGCAGCGCAATCAAAGCAGCACTGGCACAGCTTGAGGCTCGACA
ACAGGATAATCAGAGTTGCCAGGCACTGATGCGTTCGATGGGCATCGAGCAGTTCAACACTCATGAAAGCGATGCCCGAATGATGCGCACGGCCAAAGGG
CCACGTGTGGCCTACAACGTGCAAACCGTCGTGGACGCCGAGCATTGCCTGATTTTGCATCATGAGGTCACCCAGGATGGCGATGACCGAAAGCAACTGG
AGCCGATGGCCAAGGCCGCCAAAGCAGAGTTACAGCAAGATGAGCTGACGGTCACTGCCGATGCCGGCTACTCCAATGGCAAGCAGTTTCAGGCCTGCGA
GGATGCTTCGATTACGGCCTATGTACCGCCCAATCGTTCGAAAAACCCTGGCAGTCATGAAGAGCAGCTCTTTGAGCGAAAAGACTTTATCTATGAGGCC
GGACACGATCGTTTCCAGTGTCCGGCAGGCAAATGGTTAACGCTAAAACAGCACAACAAAGGTGATCGGATCTATCAGGCTGAGGTCGATGACTGCGCCA
ACTGCGCGCTGAAAACGCAATGCACTCGAGCCCAGCGCCGTTATGTCTCACGACATGCCCATGAAGAGGCTTTCGAGCGGATGGAGCAAAGAATGCAGGC
GCATCCTGAGATGATGGCCAACCGAAGATCCATCGTTGAGCACCCCTTCGGCAACCTCAAGCAATGGCTATTTGGTAATGGCCGTTTCTTGCTGCGACAA
CTGGAGGGGACAAAAGCTGAAATGGCCTTGGCGGTGAATGCTTATAACCTGAAACGAGCGATTAAAGTGCTCGGTGTGCGCCATCTGATGGCTTTGATGG
GCTGAGCGGTCATTTTTTCGTCTGCTGCCAATACAAAACAAAACGCCCCGAACAAGTCGGGGCGTTTGCTTGGGCCTTCATCAGTGTGTTTTCACACAGT
CTG

Protein section

ORF number : 1

ORF 1

Length		Begin	End	Strand	Fusion ORF
1461 bp	486 aa	45	1505	+	No

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MLRIERYRAFFVMAYIQGESRSQTSLFPVSLEELIPEDHLVRVIDLYVAKLDLVQLGFDKAIPKSTGRPAYDPADQLRLYLYGYFQRIRSSRRLEAECQR
NIEVMWLINRLKPDFKTIADFRKNNKPAFIATCRAFVRFCRTAGLIAGELVAIDGSKFQAVASSRRHVNLKQLKRQEEKLDKRIAQYLAELDEADKAETT
DSIDRSAIKAALAQLEARQQDNQSCQALMRSMGIEQFNTHESDARMMRTAKGPRVAYNVQTVVDAEHCLILHHEVTQDGDDRKQLEPMAKAAKAELQQDE
LTVTADAGYSNGKQFQACEDASITAYVPPNRSKNPGSHEEQLFERKDFIYEAGHDRFQCPAGKWLTLKQHNKGDRIYQAEVDDCANCALKTQCTRAQRRY
VSRHAHEEAFERMEQRMQAHPEMMANRRSIVEHPFGNLKQWLFGNGRFLLRQLEGTKAEMALAVNAYNLKRAIKVLGVRHLMALMG

Blast result :

Comments

There are 14 intact copies of ISPsy6 in the chromosome of this strain, and 12 copies are flanked by a 4 or 5 bp target site duplication. The 2 remaining copies appear to have exchanged their direct repeats, suggesting a chromosomal inversion occured between these 2 copies of ISPsy6. The chromosome contains at least one truncated copy of this element.
ISPsy6 is 42% aa similar to IS660.

References

1] Buell,C.R., Joardar,V., Lindeberg,M., Selengut,J., Paulsen,I.T.,Gwinn,M.L., Dodson,R.J., Deboy,R.T., Durkin,A.S., Kolonay,J.F., Madupu,R., Daugherty,S., Brinkac,L., Beanan,M.J., Haft,D.H., Nelson,W.C., Davidsen,T., Zafar,N., Zhou,L., Liu,J., Yuan,Q., Khouri,H., Fedorova,N., Tran,B., Russell,D., Berry,K.,Utterback,T., Van Aken,S.E., Feldblyum,T.V., D'Ascenzo,M., Deng,W.L., Ramos,A.R., Alfano,J.R., Cartinhour,S., Chatterjee,A.K., Delaney,T.P., Lazarowitz,S.G., Martin,G.B., Schneider,D.J., Tang,X., Bender,C.L., White,O., Fraser,C.M. and Collmer,A. (2003) PNAS, 100(18),10181-10186.