ISfinder Mirror Site

ISSsp2

Family IS3
Group IS150

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

Accession number	Transposition	Origin	Host
AB270530	ND	Sphingomonas sp.	Sphingomonas sp. KA1 plasmid pCAR3

DNA section

IS Length : 1511 bp

Ends

IR Length : 22/30

IRL : TGTCCGCCGTCAGCACCAATGGCGCAGATTTGAGGTTGTGATTTAAGGAG
IRR : TGTCCGTCGTCAGAACATTCGGCACGGATTGCGGCGTAAATTAGCGGAGT

Insertion site

Left flank	Direct repeat	Right flank	DR Length
GGCTCCGACC		GAATGCATCG	0

DNA sequence

TGTCCGCCGTCAGCACCAATGGCGCAGATTTGAGGTTGTGATTTAAGGAGGGTTTGGGTCTCGTCGTAGTGACGAAGGAACGAAGATGAGACCCAAACCC
TCAAGCGCCAAAAAGCCTGCGGAGCAGGTGGTGAAGGACATCCGGCGGGCGGCCCGGCGGCACTTCTCGGCGGAAGACAAGATCCGGATCGTGCTCGATG
GCCTGCGCGGCGAGGACAGCATTGCCGAGCTTTGCCGCAAGGAAGGCATCGCGCAGAGCCTGTATTACACATGGTCGAAAGAGTTCATGGAAGCTGGCAA
GCGCCGCCTGGCCGGCGACACCGCGCGTGCCGCGACCACCGACGAGGTGAAGGATCTGCGCCGCGAGTCCAGTGCCCTGAAGGAATGCGTCGCCGATCTG
ACGCTTGAGAACCGGCTGCTCAAAAAAAGCATGATCGCGGATGGGGGCGACGACGAATGAGGTATCCCGGATCGGAGAAGCTCGAGATCATCAGGATCGT
CGAACAGTCGCACCTGCCGGCCAAGCGCACGCTGGACCAGCTCGGCATCCCCCGCCGGACGTTTTATCGCTGGTATGACCGCTACCTCGGAGGCGGACCG
GAGGCGTTGGAAGATCGGCCATCGGCGCCGAGCCGGGTGTGGAACCGCATCCCGGCGGGCATCCACGACCAGATCATCGAGCTGGCGCTGGAACAGTCCG
AGCTGAGCCCTCGGGAGCTGGCCGTGCGCTTCACCGACGAGCAGCGCTACTTCGTGTCCGAAGCCACGGTTTACCGCCTTTTGAAGGCCCACGACCTGAT
CACCAGCCCGGCTTATGTCGTGATCAAGGCCGCCGATCAGTTCCACACCAAAACCACCCGGCCGAACGAGATGTGGCAGACTGATTTTACCTACTTCAAG
ATCATCGGCTGGGGCTGGATGTATCTGTCGACCGTGCTCGACGACTTCTCGCGCTATATCATCGCCTGGAAACTGTGCACCAATATGCGCGCCGAGGACG
TCACCGACACGCTCGACCTCGCGCTCAAGGCCTCGGGCTGCGACAGCGCCACCGTGCTGCACAAGCCCAGGCTGCTCAGCGATAATGGCCCCAGCTACAT
CGCGAGCGAACTGGCTGAATATATCGAGGCCCAGAACATGAGCCATGTGCGCGGTGCTCCGCTGCACCCACAAACGCAGGGCAAGATCGAGCGCTGGCAC
CAGACCCTGAAAAACCGCATCCTGCTGGAGAACTACTTCCTGCCAGGTGATCTCGAGGCTCAGATCGAGGCCTTTGTCGAGCACTATAATCACCAGCGCT
ACCACGAGAGCCTGAACAACGTGACGCCCGCCGACGCCTACTTCGGCAGGGCCGCAGCCATCATCAAACAGCGTGAAAGGATCAAGCGGCAGACCATCGA
GCATCGGCGCTTGCAACACCGCAAGCTCGCCGCGTAACATCAACCCCCAGACGAGGCCCGCACTCCGCTAATTTACGCCGCAATCCGTGCCGAATGTTCT
GACGACGGACA

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
375 bp	124 aa	86	460	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MRPKPSSAKKPAEQVVKDIRRAARRHFSAEDKIRIVLDGLRGEDSIAELCRKEGIAQSLYYTWSKEFMEAGKRRLAGDTARAATTDEVKDLRRESSALKE
CVADLTLENRLLKKSMIADGGDDE

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
1029 bp	342 aa	409	1437	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

EPAAQKKHDRGWGRRRMRYPGSEKLEIIRIVEQSHLPAKRTLDQLGIPRRTFYRWYDRYLGGGPEALEDRPSAPSRVWNRIPAGIHDQIIELALEQSELS
PRELAVRFTDEQRYFVSEATVYRLLKAHDLITSPAYVVIKAADQFHTKTTRPNEMWQTDFTYFKIIGWGWMYLSTVLDDFSRYIIAWKLCTNMRAEDVTD
TLDLALKASGCDSATVLHKPRLLSDNGPSYIASELAEYIEAQNMSHVRGAPLHPQTQGKIERWHQTLKNRILLENYFLPGDLEAQIEAFVEHYNHQRYHE
SLNNVTPADAYFGRAAAIIKQRERIKRQTIEHRRLQHRKLAA

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1352 bp	450 aa	86	1437	+	Yes

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MRPKPSSAKKPAEQVVKDIRRAARRHFSAEDKIRIVLDGLRGEDSIAELCRKEGIAQSLYYTWSKEFMEAGKRRLAGDTARAATTDEVKDLRRESSALKE
CVADLTLENRLLKKKHDRGWGRRRMRYPGSEKLEIIRIVEQSHLPAKRTLDQLGIPRRTFYRWYDRYLGGGPEALEDRPSAPSRVWNRIPAGIHDQIIEL
ALEQSELSPRELAVRFTDEQRYFVSEATVYRLLKAHDLITSPAYVVIKAADQFHTKTTRPNEMWQTDFTYFKIIGWGWMYLSTVLDDFSRYIIAWKLCTN
MRAEDVTDTLDLALKASGCDSATVLHKPRLLSDNGPSYIASELAEYIEAQNMSHVRGAPLHPQTQGKIERWHQTLKNRILLENYFLPGDLEAQIEAFVEH
YNHQRYHESLNNVTPADAYFGRAAAIIKQRERIKRQTIEHRRLQHRKLAA

Blast result :

Comments

ISSsp2 is 88% aa similar to ISCc3. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] Habe,H., Ashikawa,Y., Saiki,Y., Yoshida,T., Nojiri,H. and Omori,T. (2002) FEMS Microbiol. Lett. 211 (1), 43-49.
2] Inoue,K., Widada,J., Nakai,S., Endoh,T., Urata,M., Ashikawa,Y., Shintani,M., Saiki,Y., Yoshida,T., Habe,H., Omori,T. and Nojiri,H. (2004) Biosci. Biotechnol. Biochem. 68 (7), 1467-1480.
3] Inoue,K., Habe,H., Yamane,H., Omori,T. and Nojiri,H. (2005) FEMS Microbiol. Lett. 245 (1), 145-153.
4] Urata,M., Uchimura,H., Noguchi,H., Sakaguchi,T., Takemura,T., Eto,K., Habe,H., Omori,T., Yamane,H. and Nojiri,H. (2006) Appl. Environ. Microbiol. 72 (5), 3198-3205.
5] Shintani,M., Urata,M., Inoue,K., Eto,K., Habe,H., Omori,T., Yamane,H. and Nojiri,H. (2007)J. Bacteriol. 189 (5), 2007-2020.