ISMch3

  • Family IS3
  • Group IS150
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_011758 ND Methylobacterium chloromethanicum
Methylobacterium chloromethanicum CM4 plasmid pMCHL01
DNA section
IS Length : 1510 bp

Ends


IR Length : 23/31

IRL : TGTCCGGCGTCAGCACTCTTGAGACAGATTGAGGGCCTTCACGAACGGAG
IRR : TGTCCGTCGTCAGATGATTTGAGACGGTTTGGGCTGCTCAGGAACGAAGG

Insertion site


Left flankDirect repeatRight flankDR Length
GGCACCGATCGCCTGCGGGC0
CTTTCGACTTTGCGCCGGTT0

DNA sequence

TGTCCGGCGTCAGCACTCTTGAGACAGATTGAGGGCCTTCACGAACGGAGGATGGCTGGTTCATCGTAGCCCCCAGGAGCGAAGATGAAGCAGCCATCCG
GGCCGGCACGGAAGCCGGCAGAAGCCGTCATCAAGGACATCCGCCGGGCCACGCGTCGGCAGTTCTCGTCCGAAGAGAAGATCCGCATCGTGCTGGAGGG
CCTGCGCGGCGAGGACAGCATCGCCGAGCTGTGCCGGCGCGAGGGCATTGCCAGCTCGATGTACTACGGCTGGTCCAAGGAGTTTCTGGAAGCCGGCAAG
AAGCGGCTGGCCGGCGACACCGCCCGTGCGGCGACCGCCGACGAGGTCAAGGATCTGCGCCGCGAGGCAGGCGCTCTGAAGGAGGTCGTAGCCGACCTCC
TCCTGGAAAATCGTCTGCTCAAAAAAAGCATGAGCGGGGCTGGGGGCGACGCGGCATGAGGTACCCGGCCTCCGAGAAGCTGGAGATCATCCGGCTGGTC
GAGCAATCCCACCTGCCGGTGCGCGTCACCCTGGAGAAGCTCGGCATCACCAGGGCAACGTTCTACCGGTGGTACGACGCCTATCAGCGCGGCGGCCCCG
AGGCCCTGGCTGATCGCCCCTCGCGGCCCAGCCGGGTCTGGAACCGGTTGCCGACAGAGATTCGCGAGCAGATCGTCACCCTCGCGCTGGAGGAGCCGGA
ACTCAGCCCGCGTGAGTTGGCGGTGCGCTTCACCGACGAGCGGCGGTACTTCGTCTCCGAGGCGACCGTCTACCGCCTGCTCAAGGCCCAGGACCTGATC
ACCAGCCCGGCCTACATCGTCGTCAAGGCAGCCGACGAGTTCCGCGACAAGACCACTGCGCCCAACCAACTCTGGCAGACGGACTTCACCTACCTGAAGG
TCGTCGGATGGGGCTGGTACTACCTCTCGACCATTCTCGATGACTTCTCACGCTACATCGTGGCATGGAAGCTGTGCACGACGATGCAGGCCAGCGACGT
CACCGCCACGCTTGATCTCGCGTTGGCGGCAGCCGAACTCGATCACGTGCAGGCGGTGCACCGGCCACGGCTGCTCACCGACAATGGATCGAGCTACGTC
GCTGGCGATCTGGCCGACTGGCTCGGCAGCCGGGGCATGACCCACATCCGCGGTGCGCCCCGCCATCCGCAGACGCAGGGCAAGATCGAGCGCTGGCACC
AGACGCTCAAGAACCGCATCCTGCTCGAACACGCCTACCTGCCAGGCGAGTTGGAGGCGCGTATCGCCGTCTTCGTCGAGCACTACAACCATGCCCGCGC
TCACGAGAGCCTCGGCAACCTCACCCCTGCCGACGTCTACTTTGGCCGCAGCGAGGCTATCCTGCAGGCACGGGCCCGGATCAAGCGTCAGACCCTCATC
GATCGCCGCTTGCGCCATCACGCGCAGGCCGCCTAACCTCTCAACCCAGATGGACCAGAGCCTTCGTTCCTGAGCAGCCCAAACCGTCTCAAATCATCTG
ACGACGGACA
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
375 bp124 aa85459+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MKQPSGPARKPAEAVIKDIRRATRRQFSSEEKIRIVLEGLRGEDSIAELCRREGIASSMYYGWSKEFLEAGKKRLAGDTARAATADEVKDLRREAGALKE
VVADLLLENRLLKKSMSGAGGDAA

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
1155 bp364 aa2821436+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

VSGSRQPRGRRSEGGRSRPPPGKSSAQKKHERGWGRRGMRYPASEKLEIIRLVEQSHLPVRVTLEKLGITRATFYRWYDAYQRGGPEALADRPSRPSRVW
NRLPTEIREQIVTLALEEPELSPRELAVRFTDERRYFVSEATVYRLLKAQDLITSPAYIVVKAADEFRDKTTAPNQLWQTDFTYLKVVGWGWYYLSTILD
DFSRYIVAWKLCTTMQASDVTATLDLALAAAELDHVQAVHRPRLLTDNGSSYVAGDLADWLGSRGMTHIRGAPRHPQTQGKIERWHQTLKNRILLEHAYL
PGELEARIAVFVEHYNHARAHESLGNLTPADVYFGRSEAILQARARIKRQTLIDRRLRHHAQAA

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
1352 bp449 aa851436+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MKQPSGPARKPAEAVIKDIRRATRRQFSSEEKIRIVLEGLRGEDSIAELCRREGIASSMYYGWSKEFLEAGKKRLAGDTARAATADEVKDLRREAGALKE
VVADLLLENRLLKKHERGWGRRGMRYPASEKLEIIRLVEQSHLPVRVTLEKLGITRATFYRWYDAYQRGGPEALADRPSRPSRVWNRLPTEIREQIVTLA
LEEPELSPRELAVRFTDERRYFVSEATVYRLLKAQDLITSPAYIVVKAADEFRDKTTAPNQLWQTDFTYLKVVGWGWYYLSTILDDFSRYIVAWKLCTTM
QASDVTATLDLALAAAELDHVQAVHRPRLLTDNGSSYVAGDLADWLGSRGMTHIRGAPRHPQTQGKIERWHQTLKNRILLEHAYLPGELEARIAVFVEHY
NHARAHESLGNLTPADVYFGRSEAILQARARIKRQTLIDRRLRHHAQAA

 

Blast result :
Comments
ISMch3 is 96% aa similar to ISMex16. The third ORF is a putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
References
1] Ming-Chun Lee and David Robinson, direct submission.