Sequence analysis tools
ICGEB Trieste July 4,2001
Please use the ExPASy mirrorsites.
- Translate the (eukaryotic) DNA sequence given in the
on the anonymous FTP server of ExPASy.
The protein matches the PROSITE pattern PS00236;
making use of this information, find the correct open reading frame.
Determine the major biochemical characteristics of
the protein sequence, i.e. molecular weight, isoelectric point,
Does the protein
contain a signal sequence, and/or transmembrane regions?
your results to the corresponding
- Rabbit myosin (SWISS-PROT Q28641, heavy chain) is
annotated to have a
potential coiled coil region. Reproduce this
- Given the EMBL entry AJ012609: Determine the
functional domains of
the corresponding protein from drosophila. Use ProfileScan,
Pfam HMM search (HMM = Hidden Markov Model) and SMART. Then
do the same using InterPro Scan.
- Translate the EMBL sequence
X94921 from Gulo Gulo.Determine the potential transmembrane
regions of this protein. What familie(s)does it belong to?
What is the "biological" validity of the different
post-translational modification sites suggested by the ScanProsite
(Hint: codon usage /http://www2.ebi.ac.uk/translate/)