ISfinder Mirror Site

ISPye5

Family IS3
Group IS407

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

Accession number	Transposition	Origin	Host
CP020442.2	ND	Paracoccus yeei	Paracoccus yeei Paracoccus yeei FDAARGOS_252 Paracoccus yeei TT13

DNA section

IS Length : 1197 bp

Ends

IR Length : 30/38

IRL : GGTAATCCTCCCCGTGGTTAATGGGATGCGAAGGTAGAGTTTTCTCGGCA
IRR : GGTAATCCTCCTCGTTTTAACGGGGCGCGACCGTAGAACTCACGCGGCCA

Insertion site

Left flank	Direct repeat	Right flank	DR Length
GCGCAACAGGTC	G/ATGG	TGAGCCTGTGCTCG	4
ACGGCGCGGTGC	ATG	GTGGCTTTTGTCGA	3
CGGCTACGAG		TTACCGCGGC	0
GTTCTGGCAG		GAGCCGCGTG	0
GACATCGGGG		CTCGACCTCG	0
GGAGACATAT		GGGGGGCGGA	0
GCCTAGGTAG		CCCCGCCTTC	0
CGCGCGTGAT		CGGCCAGCTG	0

DNA sequence

GGTAATCCTCCCCGTGGTTAATGGGATGCGAAGGTAGAGTTTTCTCGGCAAGATGGACGAGGAGATTCCGATGAAGAAGAGCCGTTTCACTGAAGCCCAG
ATCATGAGCGTGCTGCGCCAGGCGGAGGGCGGGCTGCCCGTTTCCGAGCTTTGCCGCGAGCATGGGATCAGCAGCGCGACGTTTTACAAATGGCGCGCGA
AGTTTGGCGGCATGGATGCATCCATGATGAGCCAGATGAAGGCCCTCGAGGATGAGAACAGGCGACTGAAGCGCATGTTCGCCGATCTCAGCATGCAGGC
CGATCTGCTTCGAGAGGCTCTGGGAAAAAAGTGACGCGTCCAGCTCAGCGCCGGGAGCTGGCCGAGAAGGCGGTGGCGACGAAGGGGGTTAGCATCGCGC
TGGCCTGCCGGGCGTTCGGCGTCAGCGAGACCTGCTTTCGCTATAGTCCGAAGCGTGACGACGAGAACGAGATGATTGCCGATCTGCTGGTCGGGCTGAC
GAATGTCCACGAGACCTGGGGTTTCGGCCTGTGTTTCCTACACCTGCGGAACGTCAAAGGACATGTCTGGAACCACAAGCGGGTCCACCGGATCTACTGC
GAGTTGGAGCTGAACCTGCGGATCAAGCTGCGGCGCAGGCTGAAGCGGGAGAAGCCCGATGAACTGGCAGTTCCAGAAGCCCCGAACCTGGTCTGGTCGA
TGGATTTCATGGCCGATCGGCTGGCCGACGGGCGGCAGTTCCGGCTGCTGAATGTGCTGGACGACTTCAACCGCGAGGGGCTGGGTATCGAGGTCGATTT
TTCGCTGCCCGCCGAGCGGGTCGTCCGAGCCCTGAACCAGATCATTGAATGGCGCGGCAAACCGCTGGCGATCCGGGTCGATAACGGCCCGGAATACGTC
AGTGCCACGCTGACAATCTGGGCCGAGAAGCAGGGCATCGCCCTGACCTACATCCAGCCCGGAAAGCCGCAGCAGAACGCCTATGTCGAGCGCTACAACC
GGACGGTTCGGCACGAATGGCTCGACCTCTACATCTTTGAAACCATCGAGGAGGTGCAGCAGATCGCCACCGAATGGCTATGGACCTACAACAACGAACG
CCCGAACATGGGCATCGGCGGCGTCACACCCGCCATGAAGCTGAAAATGGCCGCGTGAGTTCTACGGTCGCGCCCCGTTAAAACGAGGAGGATTACC

Recoding section

Recoding by frameshift
Frame -1
Type translational
Experimentally demonstrated No

Stimulators :

Shine-Dalgarno sequence :
Secondary structure :

Recoding motif :

Protein section

ORF number : 3

ORF 1

Length		Begin	End	Strand	Fusion ORF
264 bp	87 aa	71	334	+	No

ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MKKSRFTEAQIMSVLRQAEGGLPVSELCREHGISSATFYKWRAKFGGMDASMMSQMKALEDENRRLKRMFADLSMQADLLREALGKK

Blast result :

ORF 2

Length		Begin	End	Strand	Fusion ORF
903 bp	300 aa	256	1158	+	No

ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

EQATEAHVRRSQHAGRSASRGSGKKVTRPAQRRELAEKAVATKGVSIALACRAFGVSETCFRYSPKRDDENEMIADLLVGLTNVHETWGFGLCFLHLRNV
KGHVWNHKRVHRIYCELELNLRIKLRRRLKREKPDELAVPEAPNLVWSMDFMADRLADGRQFRLLNVLDDFNREGLGIEVDFSLPAERVVRALNQIIEWR
GKPLAIRVDNGPEYVSATLTIWAEKQGIALTYIQPGKPQQNAYVERYNRTVRHEWLDLYIFETIEEVQQIATEWLWTYNNERPNMGIGGVTPAMKLKMAA

Blast result :

ORF 3

Length		Begin	End	Strand	Fusion ORF
1088 bp	362 aa	71	1158	+	No

ORF function : Transposase
Chemistry : DDE

ORF sequence :

MKKSRFTEAQIMSVLRQAEGGLPVSELCREHGISSATFYKWRAKFGGMDASMMSQMKALEDENRRLKRMFADLSMQADLLREALGKKVTRPAQRRELAEK
AVATKGVSIALACRAFGVSETCFRYSPKRDDENEMIADLLVGLTNVHETWGFGLCFLHLRNVKGHVWNHKRVHRIYCELELNLRIKLRRRLKREKPDELA
VPEAPNLVWSMDFMADRLADGRQFRLLNVLDDFNREGLGIEVDFSLPAERVVRALNQIIEWRGKPLAIRVDNGPEYVSATLTIWAEKQGIALTYIQPGKP
QQNAYVERYNRTVRHEWLDLYIFETIEEVQQIATEWLWTYNNERPNMGIGGVTPAMKLKMAA

Blast result :

Comments

ISPye5 is 98% aa similar to ISPam3.
ISPye5 was identified by in silico nucleotide sequence analysis of Paracoccus yeei strain FDAARGOS_252 (there are 6 copies of ISPye5 and isoforms of ISPye5 present in the genome) and P. yeei TT13 (3 copies). The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.

References

1] Chmielowska C., Szuplewska M., Bartosik D. (2018) Direct submission.
2] Goldberg,B., Campos,J., Tallon,L., Sadzewicz,L., Sengamalay,N., Ott,S., Godinez,A., Nagaraj,S., Vavikolanu,K., Aluvathingal,J., Nadendla,S. and Sichtig,H. (2017) Direct GenBank submission.