awk is a pattern-matching program for processing files, especially when they are
databases (when each line has a simple field oriented layout).
The awk utility is a data extraction and reporting tool that uses a datadriven scripting langua
Protein secondary structure
Regular, recurring arrangements in space of adjacent amino acid residues
in a polypeptide chain.
Maintained by hydrogen bonds between amide hydrogen and carbonyl
oxygen of the peptide backbone.
2. -strands (sheets)
Protein sequence analysis
What can we do with sequence?
M. Michael G
Hydrophobicity profile is simply the plot of the hydrophobicity indices of
th residues against their sequence numbers.
i t th i
E g SAMPLEDATAWITHHYDINDICES
-1, 1, 1, -1, 2, -2, -2, 1, -1, 1, 2, 2, -1, -2, -2,
Phylogeny is the description of biological relationships, usually expressed as a tree.
A statement of phylogeny among objects assumes homology and depends on
Phylogenetic analysis is an investigation of the evolutionary relations
Vol. 17 no. 8 2001
AL2CO: calculation of positional conservation in
a protein sequence alignment
Jimin Pei 2 and Nick V. Grishin 1, 2,
Hughes Medical Institute and 2 Department of Biochemistry, University of