  What are proteins made from, as the working parts of the living cells protein
machines? To answer this question, we need a technology to disassemble proteins
onto elementary func-tional details and to prepare lumped description of such
details. This lumped description might have a multiple material realization (in
amino acids). Our hypothesis is that informational approach to this problem is
possible. We propose a way of hierarchical classification that makes the
primary structure of protein maximally non-random. The first steps of the
suggested research program are realized: the method and the analysis of optimal
informational protein binary alphabet. The general method is used to answer
several specific questions, for example: (i) Is there a syntactic difference
between Globular and Membrane proteins? (ii) Are proteins random sequences of
amino acids (a long discussion)? For these questions, the answers are as
follows: (i) There exists significant syntactic difference between Globular and
Membrane proteins, and this difference is described; (ii) Amino acid sequences
in proteins are definitely not random.
