ISAcp3

  • Family IS5
  • Group IS427
MGE type ISRelated element(s) :
Isoform Synonym(s)
Accession numberTranspositionOriginHost
CP001472 ND Acidobacterium capsulatum
Acidobacterium capsulatum ATCC 51196
DNA section
IS Length : 860 bp

Ends


IR Length : 16/21

IRL : GAATCAGTCTCATAATTCCCTTGGGTTGAGATTTGTTGCATTCTGGAATT
IRR : GAAGCGGTCTCATAAATATCTGAGCATCATGTGGAGGCATGCGAGTTGAG

Insertion site


Left flankDirect repeatRight flankDR Length
TACTCACAGACTAGGACCAGGGTAT2

DNA sequence

GAATCAGTCTCATAATTCCCTTGGGTTGAGATTTGTTGCATTCTGGAATTGCTCTGATGTCTCCGCGCGGCTTGGATGGCAGGACGCTGGGAGTTAACCG
AAGAACAGTGGTTGTTGGTAGAGCCGGTGTTGCGGCCTGCTTCGGCAGGTGTGCGGCGGGGCCGTCCCTGGCACGACACGCGGGCCGTGCTGAATGGTGT
GTTGTGGGTCTTGGGAACCGGGGCGCAGTGGCGTGAGTTGCCGGAGAAGTATCCGCCATACCAAACCTGCCACCGCCGTTTCCAGCAGTGGATCCGCGAT
GGCAAGCTGGTGGAAGCGCTGAGGCTGCTGGCGCGATTGCTGCACGAGCAGGGCAAGCTCAACCTGGAGGAAGCGTTCGTGGATGCAACCTTCGCGAGCG
CCAAAAAAGGGGCTTCGCCATCGGCCCGACCCGCCGCGGGAAGGGCACGAAGATCGTCGCTATCGCCGCTGATAACAGTCTTCCACTCGCCGTTACTGTG
GAAAGCGCTTCGCCGGCAGAGTGCCATCTCGTCGAAGATGCCCTTGCCGCCAGCTTCCTCGACGAACTTCCCGCCAGGTTGATCGGCGACAAGGCCTATG
ACTCGGACGGACTGGACAGAAAACTGGCCGAAGACTATGGAATCGAAATGATTGCACCGAACCGTCGCAACCGCTCCAAAACACAGGATGGCCGCCCCTT
GCGCCGCTACAGGAAGCGATGGAAGGTCGAAAGGCTCTTCGCATGGATGCACAACTTCCGAAGGCTCGTAAACCGATGGGAGTACCACATCGAAAATTAC
CTCGGAATGGCTCAACTCGCATGCCTCCACATGATGCTCAGATATTTATGAGACCGCTTC
Recoding section
  • Recoding by frameshift
  • Frame -1
  • Type translational
  • Experimentally demonstrated No

Stimulators :

  • Shine-Dalgarno sequence :
  • Secondary structure :

Recoding motif :

AAAAAAG
Protein section
ORF number : 3

 

ORF 1
LengthBeginEndStrandFusion ORF
507 bp168 aa76582+No
ORF function : Transposase
Description : First part of the transposase

ORF sequence :

MAGRWELTEEQWLLVEPVLRPASAGVRRGRPWHDTRAVLNGVLWVLGTGAQWRELPEKYPPYQTCHRRFQQWIRDGKLVEALRLLARLLHEQGKLNLEEA
FVDATFASAKKGASPSARPAAGRARRSSLSPLITVFHSPLLWKALRRQSAISSKMPLPPASSTNFPPG

 

Blast result :
ORF 2
LengthBeginEndStrandFusion ORF
615 bp204 aa237851+No
ORF function : Transposase
Description : Second part of the transposase

ORF sequence :

VAGEVSAIPNLPPPFPAVDPRWQAGGSAEAAGAIAARAGQAQPGGSVRGCNLRERQKRGFAIGPTRRGKGTKIVAIAADNSLPLAVTVESASPAECHLVE
DALAASFLDELPARLIGDKAYDSDGLDRKLAEDYGIEMIAPNRRNRSKTQDGRPLRRYRKRWKVERLFAWMHNFRRLVNRWEYHIENYLGMAQLACLHMM
LRYL

 

Blast result :
ORF 3
LengthBeginEndStrandFusion ORF
776 bp258 aa76851+Yes
ORF function : Transposase
Chemistry : DDE

ORF sequence :

MAGRWELTEEQWLLVEPVLRPASAGVRRGRPWHDTRAVLNGVLWVLGTGAQWRELPEKYPPYQTCHRRFQQWIRDGKLVEALRLLARLLHEQGKLNLEEA
FVDATFASAKKRGFAIGPTRRGKGTKIVAIAADNSLPLAVTVESASPAECHLVEDALAASFLDELPARLIGDKAYDSDGLDRKLAEDYGIEMIAPNRRNR
SKTQDGRPLRRYRKRWKVERLFAWMHNFRRLVNRWEYHIENYLGMAQLACLHMMLRYL

 

Blast result :
Comments
ISAcp3 is 66% aa similar to ISDds9.
The third ORF is the putative ORFAB transposase reconstructed in silico by possible -1 frameshift.
There is a conflict with the name of this IS, we have renamed it because it used a name (ISAca3) already attributed to another sequence in Acinetobacter calcoaceticus.
References
1] ISfinder submission (2018)
2] Ward,N.L., Challacombe,J.F., Janssen,P.H., Henrissat,B., Coutinho,P.M., Wu,M., Xie,G., Haft,D.H., Sait,M., Badger,J., Barabote,R.D., Bradley,B., Brettin,T.S., Brinkac,L.M., Bruce,D., Creasy,T., Daugherty,S.C., Davidsen,T.M., DeBoy,R.T., Detter,J.C., Dodson,R.J., Durkin,A.S., Ganapathy,A., Gwinn-Giglio,M., Han,C.S., Khouri,H., Kiss,H., Kothari,S.P., Madupu,R., Nelson,K.E., Nelson,W.C., Paulsen,I., Penn,K., Ren,Q., Rosovitz,M.J., Selengut,J.D., Shrivastava,S., Sullivan,S.A., Tapia,R., Thompson,L.S., Watkins,K.L., Yang,Q., Yu,C., Zafar,N., Zhou,L. and Kuske,C.R. (2009) Appl. Environ. Microbiol. 75 (7), 2046-2056.