ISfinder

ISKpn4

Family IS110
Group IS1111

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

Accession number	Transposition	Origin	Host
EF408254	ND	Klebsiella pneumoniae	Klebsiella pneumoniae

DNA section

IS Length : 1377 bp

Ends

IR Length : 13

IRL : ggctgtaATGGACTCTCCCCGCACCGCGTTTCTTCTATAAGACCGAGGTG
IRR : ----catATGGACTCTCCCCACAAGCAGTGAGGAAAGCTTTTTTCGATCC

Insertion site

Left flank	Direct repeat	Right flank	DR Length
ATCTAACAATTCA		TTCAAGCCGACGC	0

DNA sequence

GGCTGTAATGGACTCTCCCCGCACCGCGTTTCTTCTATAAGACCGAGGTGTCTGTTTGCTGGGAGAGTGGCAATGAAGCGCATAGCAGTCGATTTGGCCA
AGTCCGTTTACCAGGTTGCCGAAAGTATCCATGTCGGCCGGGTGGATCGTCGCAGACGGCTCGATCCGGAGGCATTCCGGCGATATGTACAGGAGCAGCC
GGAGCCTGTCGAGTGGGTGATGGAAGCCTGCGGTACGGCGCATTACTGGGGGCGGGTGGCGCAGGCGCTGGGTCATCGGGTGGTGCTGTTGCACCCGCGC
TACGTACGGCCGTATCGCCGGCGCAACAAGACCGACCGTAACGACTGCGATGCCATCCTCGAAGCGGCGCGTTGTGCCGACATGCACCCGGTGCCGGTGA
AAAGCCATGAGCAGCAGCAAGTGCAGCAGCTGCATAACCTGCGCGAGGCCTGGAAAAAGACCCGGGTGCAGCACATCAACTTGCTGCGCGGCATCCTGCG
CGAACTGGGCGTGGCGGCGCCGAGTAGCACCCAGGCCTTTCTACGCCAGGCCTGCGAGCTGATCGAACGTGCCGAAGTTTGCGCCCTGCGCGGCGCGCTG
CAGATGGTGCTGGCCGAAATCAGCCTGTGCGAACAGGCGATGCGCGACAGCGAAGAACAACTGGCGCGCTGGCATGCCGACGATGACATCGTGCACAAAC
TCGACGAAGTCAGCGGTATCGGGCTGCTCACCGCCAGCGCCCTGAAAACTGCCGTCGGCAAACCCGAACGCTTCGCCAGCGGCCGACACCTGAGCGCCTG
GCTCGGCATGACCCCCAACGAATACAGCAGCGGCGAACGGCGCAGACTCGGGTGCATCAGCTGCAAAGGCAACACCTACGTGCGCACCCTGCTGATCCAC
GGCGCCCGCGCGGCGCTGCTGGCCGCCAAGCGCTGCCAGACGCGAACGCCCGAGCGCCTGACCCAGTTGCAGCGCTGGTCCCTGCAAACGGCCGAACGTA
TCGGCCACAACAAGGCGGCCGTGGCGTTAGCGAACAAACTGGTGAGGATCTGCTGGGCAGTGTGGTGCCATGAGCGACGTTTCAGCGGCGACTGGCAGAG
TGCAAGGCCCGCCTGACGGCGGGGGTAATCAGCAAGACGAGGTGAACTTCCTGCGGTTGTGGTGAGAAGCGAGACTGTCGGAACAGGCGAGTCCTGCAGC
GGAACAAGGCCGATAACAATCATGATCCTCGGGATCGTTTGAACGCTTGGCCCCCGCTGCGCGAACTACAGAATGGCCCGGGCACTAGCCCACGCAAGGC
CGGATATGCGATTGCAACCGCGCTGACGACAGGATCGAAAAAAGCTTTCCTCACTGCTTGTGGGGAGAGTCCATATG

Protein section

ORF number : 1

ORF 1

Length		Begin	End	Strand	Fusion ORF
1044 bp	347 aa	73	1116	+	No

ORF function : Transposase
Chemistry : DEDD

ORF sequence :

MKRIAVDLAKSVYQVAESIHVGRVDRRRRLDPEAFRRYVQEQPEPVEWVMEACGTAHYWGRVAQALGHRVVLLHPRYVRPYRRRNKTDRNDCDAILEAAR
CADMHPVPVKSHEQQQVQQLHNLREAWKKTRVQHINLLRGILRELGVAAPSSTQAFLRQACELIERAEVCALRGALQMVLAEISLCEQAMRDSEEQLARW
HADDDIVHKLDEVSGIGLLTASALKTAVGKPERFASGRHLSAWLGMTPNEYSSGERRRLGCISCKGNTYVRTLLIHGARAALLAAKRCQTRTPERLTQLQ
RWSLQTAERIGHNKAAVALANKLVRICWAVWCHERRFSGDWQSARPA

Blast result :

Comments

The IR of ISKpn4 are not at its termini. In the IS sequence, as given, 7nt separate IRl from the left-hand end of the element and 3nt separates IRr from the right –hand end. Like other IS110 family IS1111 subgroup members ISKpn4 targets a specific site in the 59-be (or attC sites) in gene cassettes associated with integrons and is inserted in only one orientation. An isoform of ISKpn4 is found in GenBank Accession Number DQ522236 from Pseudomonas aeruginosa (protein identity of 98.5% and 99.4% similarity).
ISKpn4 is 95% aa similar to ISPa21 (90% identity).

References

1] Partridge and Hall (2003) J. Bacteriol. 185, 6371-6384
2] Post,V. and Hall, R.M. (2007) unpublished