ISMba6

  • Family IS4
  • Group ISH8
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
NC_007355 ND Methanosarcina barkeri
Methanosarcina barkeri fusaro
DNA section
IS Length : 1453 bp

Ends


IR Length : 19/22

IRL : CATGCGTCATCGGTTAAGCATTAAATTCCCTCTCTTGTATGTGTTTTTTA
IRR : CATTGGTCATCGGTTAAGGATTTATTTCCTTCTTCTGTTACTCTTTTTGA

Insertion site


Left flankDirect repeatRight flankDR Length
AATAATTAATAAAATAATTGCAATGTTGTG10
CTGAAAACTCATAGTGATTTAGAATAAAAT10
ACCTTCAACTAATAATATTTTATCATTTAT10
GGAAAGACTGAATAGGATTCTTTTTTGACT10

DNA sequence

CATGCGTCATCGGTTAAGCATTAAATTCCCTCTCTTGTATGTGTTTTTTATATTAATAATTTAAATATCTCTGTATCTATGTCTCCTTGTCCCCCACCTA
CTCTTGAAGACTCTCTTCGGGAAATATTTCCCGAAGAGTGGTTAAGGCAAACTGCCAAAGAAACTGGTCTTATAGTACGTGAACGTAAAATTGACCCTGT
CATTATCTTTTGGGTTTTAACTCTCAGTTTTGGTGTACGCTTGCAGCGTACACTTGCCAGTTTAAAACGAGAATATGAAACTGAGTCACAAAAAACCATA
AGTGATAGCAGCTGGTACTATCGTTTTACTCCAGAACTTGTTGAGTTTCTTCACCAGTGTGTAATTCATGGCATGGAAGAGCTTGCAAAAGAACCTGGTA
GGAAACTTAGCAAGAAACTCGAAACCTTCCAAGATGTTGTCATTCAGGACATCACAATTGTTCGTCTCCATTCCTCGTTAGCAGACAGGTTTCCTGCAGC
AAGATCAAGAACAGTAGCTGCAGGAGTAAAAGTTGGAGTTATGGTAAGTGCAATTGCTAACGGACCTAGAACCATTGCTCTGTACTCTGAAAAAACAGCT
GAAATAAAGACATTAAAAATAGGTACCTGGATCAAAGACCATATTCTCCTTGTTGATCTTGGTTTCTACAAAACTCAAATGTTTGCAAGAGTTGAAGAAA
ATGGGGGATATTTTGTCTCAAGGATTAGGAAGAATATGGACCCTATTCTTGTTTCTATTGAAGAGGGACTTTCTAAGACAAAAAGCAAAGAGTTCGCTGG
AAAACCTGTTAGTGAATGTATTAAGCAACTTTCTGGAAAAGATATTGATGCAGTTGTAAAAATAGAATTCAAAAGAAGAGAGTATAAAGGCAAGCAAAAA
CAGGACGAGATGATTGTACGTCTTGTTGCCGTATATAACGATGAGGATGAAAAATACCACATTTACATCACAAATATTCATAAAGATATTTTGAATGCAA
AAGACATTGCAAACTTATATGGGGCAAGATGGGACATAGAACTGTTGTTTAAGGAATTGAAAAGCAAATACTCGCTGGACGTTCTTGAAACAAAGAATGT
GCAGGTAATTGAAGCTCTAATCTGGACAGCAATATTGACACTAATCGTTAGCAGAAGAATCTATTCTCTTGTCAGAAAATCAACAACTCATCCTGAAAAA
ATGGCTAGATATACGCAGTTACGTTGGAGTACAATATTTGCAGAGAATGCATCAGATTTATTGACAGTAATTCTGCATAGATGTGGAATTCAAAGAACTT
TTGAAACGATAATGAGCGTATATGAAAGTCAAGCATTAGATCCTCATGTAAACAGAGAAAGGTTTAGAGATGAATGGTTTGAGTAATAAATGAAAAAGTG
GATTCAAAAAGAGTAACAGAAGAAGGAAATAAATCCTTAACCGATGACCAATG
Protein section
ORF number : 1

 

ORF 1
LengthBeginEndStrandFusion ORF
1305 bp435 aa791383+No
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MSPCPPPTLEDSLREIFPEEWLRQTAKETGLIVRERKIDPVIIFWVLTLSFGVRLQRTLASLKREYETESQKTISDSSWYYRFTPELVEFLHQCVIHGME
ELAKEPGRKLSKKLETFQDVVIQDITIVRLHSSLADRFPAARSRTVAAGVKVGVMVSAIANGPRTIALYSEKTAEIKTLKIGTWIKDHILLVDLGFYKTQ
MFARVEENGGYFVSRIRKNMDPILVSIEEGLSKTKSKEFAGKPVSECIKQLSGKDIDAVVKIEFKRREYKGKQKQDEMIVRLVAVYNDEDEKYHIYITNI
HKDILNAKDIANLYGARWDIELLFKELKSKYSLDVLETKNVQVIEALIWTAILTLIVSRRIYSLVRKSTTHPEKMARYTQLRWSTIFAENASDLLTVILH
RCGIQRTFETIMSVYESQALDPHVNRERFRDEWFE

 

Blast result :
Comments
ISMba6 was found by screening completely sequenced genomes for sequences homologous to the IS4 transposase using BLASTP. Multiple sequence alignments revealed a conserved DDE motif : D(N2)-68-D(N3)-127-E(C1). The copy number in Methanosarcina barkeri str. fusaro is 4.
References
1] Copeland,A., Lucas,S., Lapidus,A., Barry,K., Detter,J.C., Glavina,T., Hammon,N., Israni,S., Pitluck,S., Goodwin,L.A., Saunders,E.H., Schmutz,J., Larimer,F., Land,M., Anderson,I. and Richardson,P. (2005) Unpublished
2] De Palmenaer D, Siguier P, Mahillon J (2008) BMC Evol Biol , 8(1):18