ISPg5

  • Family IS3
  • Group IS3
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
AF224744 ND Porphyromonas gingivalis
Porphyromonas gingivalis
DNA section
IS Length : 1512 bp

Ends


IR Length : 36/37

IRL : TGACGTGTACTGAAAAAAGTTGACAGTTGGCGGGATGCAACCAGTATCCA
IRR : TGACGTGTACTGAAAAAAGTTGACAGTTGGGCGGGATAGTTCTACAATTG

Insertion site


Left flankDirect repeatRight flankDR Length
NNNTTCAGAAAAATCTACTANNN3

DNA sequence

TGACGTGTACTGAAAAAAGTTGACAGTTGGCGGGATGCAACCAGTATCCATTATGGGCAAACATTTAAACAACTTTGAACGCCTTAGCATCCTTGAGGAT
TACCTCTCGGGGTCAGATAGCAAAGTAGCCATTGAGCAGAAATATGGTCTAAGTCATGGTCTCATTCGCTCTTGGCTTCGTAAATTTGGACTCGAAGATA
AAGTTCATCCAGTCCCAATGAAAGTGTCCCAATCCCCCCAGAGTGAGCTACCCCTGAACGAAAAAGAAGAATTAGAGCAGCTACGTAAAGAAAATCGTGT
CCTCAAGAGTCGTCTCAAGCGAGAAGAACTAGGGCATCAAGCCTACAAGCTACTTGTAGAGTTGGCAGAAGAAACCTACGGCATTCAGATACGAAAAAAC
TCCGAAGCCAAGTAGTTCACCGTTTATCAGAGCCAGAGCCTAGGTATCCTATTGCTCGACTCTGCGAACTGCTTGGCTTTAGCCGTCAGGCCTTTTATAA
ACGTCATCTCAACGATTTAGCTAGGCACGAGGAGGATGTCCTATGCAGTAGTATCATCCAATATTGTTGGCACTTAAGACAAGCAGAGCACCTACCTCAA
GCTGGCTTCCGAGAGCTCATGGTGCTTTGTCAGCAATACTTCGGCCCCAAGTTCACGCTTGGGCGCGATCGCTTTTGCGCCCTACTCAGACGCCATGGTA
TGATGCTGCGCAAACGGTCTGTGCGCCCTCAGACAACCAACTCTCGGCATAGGCTCTACAAGTATGAAGACCTGCTCAATACAGAGCCTAAGTTTGTGCC
TCAAAGACCTGGGGAACTCCTTGTAGCAGACATCACCTACGTGGCTTACCAAGATGGGTTTGCCTATCTCTCCCTACTGACCGATGCCTATAGTCGCTGT
ATCGTAGGGTATTGCTTACATCCTACCCTAGAGGTTGAAGGCTGTTTGAATGCTCTACATCAAGCCTTTGCTTTCTACGATCAGCATCAAATTGATACGA
GCAATATGATTCATCATAGCGACCGAGGCATTCAGTATGCCAGTAAGAGCTACACCGATCTGTTGCATGGGCGAGGCTGTCGCATCAGCATGACTCAGAC
GGGAGATCCTCTGCATAATGCATTGGCTGAGCGGATGAACAATACGCTCAAGAACTCGTGGCACATCTCCTCTTCGAAGCAGTCTTTTGATCAAGCACTC
CTTTCTGTAGACCGAGCCGTGCGCATGTACAACGAGGCGCGTCCACATCAAGCTCTAGGGGCGAAAACGCCTATGCAAGTCATTGCGCCAGAGTCTAAAA
ATCCGTTACTAACGAGGAGGGAGCATGGGCCAGAGATTGCCCCCGAGCTATACCGAAGGATGAATGTCAGACAAAGAGCTAACTTTGCTCGTGTCAACCG
AAATTAGACTTAAGGGTAAGGGGTGTCAACCTAAAGTAGAATTATAGAAAGAACCAGTAAACCAATTGTAGAACTATCCCGCCCAACTGTCAACTTTTTT
CAGTACACGTCA
Recoding section
  • Recoding by frameshift
  • Frame
  • Type
  • Experimentally demonstrated

Stimulators :

  • Shine-Dalgarno sequence :
  • Secondary structure :

Recoding motif :

Protein section
ORF number : 3

 

ORF 1
LengthBeginEndStrandFusion ORF
381 bp126 aa35415+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MQPVSIMGKHLNNFERLSILEDYLSGSDSKVAIEQKYGLSHGLIRSWLRKFGLEDKVHPVPMKVSQSPQSELPLNEKEELEQLRKENRVLKSRLKREELG
HQAYKLLVELAEETYGIQIRKNSEAK

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
1119 bp372 aa2891407+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

RKSCPQESSQARRTRASSLQATCRVGRRNLRHSDTKKLRSQVVHRLSEPEPRYPIARLCELLGFSRQAFYKRHLNDLARHEEDVLCSSIIQYCWHLRQAE
HLPQAGFRELMVLCQQYFGPKFTLGRDRFCALLRRHGMMLRKRSVRPQTTNSRHRLYKYEDLLNTEPKFVPQRPGELLVADITYVAYQDGFAYLSLLTDA
YSRCIVGYCLHPTLEVEGCLNALHQAFAFYDQHQIDTSNMIHHSDRGIQYASKSYTDLLHGRGCRISMTQTGDPLHNALAERMNNTLKNSWHISSSKQSF
DQALLSVDRAVRMYNEARPHQALGAKTPMQVIAPESKNPLLTRREHGPEIAPELYRRMNVRQRANFARVNRN

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1373 bp457 aa351407+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MQPVSIMGKHLNNFERLSILEDYLSGSDSKVAIEQKYGLSHGLIRSWLRKFGLEDKVHPVPMKVSQSPQSELPLNEKEELEQLRKENRVLKSRLKREELG
HQAYKLLVELAEETYGIQIRKKLRSQVVHRLSEPEPRYPIARLCELLGFSRQAFYKRHLNDLARHEEDVLCSSIIQYCWHLRQAEHLPQAGFRELMVLCQ
QYFGPKFTLGRDRFCALLRRHGMMLRKRSVRPQTTNSRHRLYKYEDLLNTEPKFVPQRPGELLVADITYVAYQDGFAYLSLLTDAYSRCIVGYCLHPTLE
VEGCLNALHQAFAFYDQHQIDTSNMIHHSDRGIQYASKSYTDLLHGRGCRISMTQTGDPLHNALAERMNNTLKNSWHISSSKQSFDQALLSVDRAVRMYN
EARPHQALGAKTPMQVIAPESKNPLLTRREHGPEIAPELYRRMNVRQRANFARVNRN

 

Blast result :
Comments
ORF1 is 52%aa similar to IS1501 and ORF2 48% to ISSd1.
Six of the 11 ISPg5 elements have perfects three-base duplicated target sites flanking the element.
References
1] Califano,J.V., Kitten,T., Lewis,J.P., Macrina,F.L., Fleischmann,R.D., Fraser,C.M., Duncan,M.J. and Dewhirst,F.E. (2000) Infect. Immun. 68 (9), 5247-5253