ISPme2

  • Family IS5
  • Group IS427
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
EU016112 Y Paracoccus methylutens
Paracoccus methylutens DM12
DNA section
IS Length : 851 bp

Ends


IR Length : 15/18

IRL : GGGCGTGTTGACAAAAGGGATTCACCGGGCGCGGTGATCGTGATTCAAGC
IRR : GGTCATGTTGACAAATGGCGGAGCCAGAGGCGGATCGACGTGATGTCGAT

Insertion site


Left flankDirect repeatRight flankDR Length
AACGTCGCCTTAAAGCAATTTA2

DNA sequence

GGGCGTGTTGACAAAAGGGATTCACCGGGCGCGGTGATCGTGATTCAAGCTGGTATCTGCAATGGAGACCAGCGTGGCACGAAACCTGATGTCGAACGAC
GAGTGGGCGTTCTTTGAACGCTTCATCCTGGCTGTCCGTTCTCCGAACGGCCGCAAGCCCACGAACCATCGGCTTGTTCTGGATGGGATTTTCTGGATCG
CCCGAACGGGGTCGCCCTGGCGCGACCTGCCGGAAGAGTTCGGCAAATGGTCGTCTGTCTATCGGCAGTTCCGGCGCTGGACGTTGGCGGGGCTGTGGGA
ACAGATCCTGGAGGCGCTGAACGAGAGCCGGATCGTGCCGGATGCGCTGCAGATGATCGACAGCACCGTGGTTCGCGCTCATCATCAGGCAGCGGGCGCA
AAAGGGGGACTCCGCGCCAAGGTTTCGGCCGCTCGCGAGGTGGCTTCACGACCAAGATCCATCTGCGGGTCAATGCGGCAGGCCTGCCCATGAGAACCGA
GATCACGGCCGGGCAGACATCGGACTACCTCGGCTTCGATCTGGTCATGGCTGACAACCTGCCCGAGCCAAGCGTTCTGCTCGCAGACCGCGGCTACGAC
TCCGACAACATCCGCAAGACCATGGAGGTGCGCGACGTGGTGCCGGTCATCCCCATGCGCAAAACCCGGAAGCTACGGGTCGCCGTTGACCGCAGGCTCT
ACCGCCTGCGCAATCTCGTTGAGCGGTGCTTCAACAAGCTCAAGAATGCCCGTCGCGTCGCCACCCGCTACGACAAGACCGCCGAAAGCTTCCTGGGCTT
CATCGACATCACGTCGATCCGCCTCTGGCTCCGCCATTTGTCAACATGACC
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
432 bp143 aa62493+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

METSVARNLMSNDEWAFFERFILAVRSPNGRKPTNHRLVLDGIFWIARTGSPWRDLPEEFGKWSSVYRQFRRWTLAGLWEQILEALNESRIVPDALQMID
STVVRAHHQAAGAKGGLRAKVSAAREVASRPRSICGSMRQACP

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
603 bp200 aa247849+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

MVVCLSAVPALDVGGAVGTDPGGAEREPDRAGCAADDRQHRGSRSSSGSGRKRGTPRQGFGRSRGGFTTKIHLRVNAAGLPMRTEITAGQTSDYLGFDLV
MADNLPEPSVLLADRGYDSDNIRKTMEVRDVVPVIPMRKTRKLRVAVDRRLYRLRNLVERCFNKLKNARRVATRYDKTAESFLGFIDITSIRLWLRHLST

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
788 bp262 aa62849+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

METSVARNLMSNDEWAFFERFILAVRSPNGRKPTNHRLVLDGIFWIARTGSPWRDLPEEFGKWSSVYRQFRRWTLAGLWEQILEALNESRIVPDALQMID
STVVRAHHQAAGAKRGTPRQGFGRSRGGFTTKIHLRVNAAGLPMRTEITAGQTSDYLGFDLVMADNLPEPSVLLADRGYDSDNIRKTMEVRDVVPVIPMR
KTRKLRVAVDRRLYRLRNLVERCFNKLKNARRVATRYDKTAESFLGFIDITSIRLWLRHLST

 

Blast result :
Comments
The third ORF is a putative ORFAB transposase reconstructed in silico by a possible -1 frameshift.
ISPme2 is 88% aa similar to ISPaes1.
ISPme2 has been identified by its transposition into entrapment vector pMEC1 (cI-tetA cassette).
References
1] Bartosik, D., M. Putyrski, L. Dziewit, E. Malewska, M. Szymanik, E. Jagiello, J. Lukasik and J. Baj.(2008). J Bacteriol 190: 3306-3313.

2] Dziewit, L. and Bartosik, D. (2010) Direct submission
3] Dziewit, L., Baj, J., Szuplewska, M., Maj A., Tabin, M., Czyzkowska, A., Skrzypczyk, G., Adamczuk, M., Sitarek, T., Stawinski, P., Tudek, A., Wanasz, K., Wardal, E., Piechucka, E., Bartosik, D. (2012) PLoS ONE 7: e32277