Instruct: Identify the main and secondary category of Arxiv papers based on the titles and abstracts
Query: Recurrent oligomers in proteins - an optimal scheme reconciling accurate
  and concise backbone representations in automated folding and design studies   A novel scheme is introduced to capture the spatial correlations of
consecutive amino acids in naturally occurring proteins. This knowledge-based
strategy is able to carry out optimally automated subdivisions of protein
fragments into classes of similarity. The goal is to provide the minimal set of
protein oligomers (termed ``oligons'' for brevity) that is able to represent
any other fragment. At variance with previous studies where recurrent local
motifs were classified, our concern is to provide simplified protein
representations that have been optimised for use in automated folding and/or
design attempts. In such contexts it is paramount to limit the number of
degrees of freedom per amino acid without incurring in loss of accuracy of
structural representations. The suggested method finds, by construction, the
optimal compromise between these needs. Several possible oligon lengths are
considered. It is shown that meaningful classifications cannot be done for
lengths greater than 6 or smaller than 4. Different contexts are considered
were oligons of length 5 or 6 are recommendable. With only a few dozen of
oligons of such length, virtually any protein can be reproduced within typical
experimental uncertainties. Structural data for the oligons is made publicly
available.

33
The categories of this paper are: plasm-ph
31
The categories of this paper are: ao-sci
23
The categories of this paper are: solv-int
8
The categories of this paper are: hep-ex
35
The categories of this paper are: mtrl-th
20
The categories of this paper are: acc-phys
24
The categories of this paper are: dg-ga
0
The categories of this paper are: hep-ph
1
The categories of this paper are: cs
27
The categories of this paper are: comp-gas
37
The categories of this paper are: supr-con
9
The categories of this paper are: nlin
34
The categories of this paper are: chem-ph
19
The categories of this paper are: eess
28
The categories of this paper are: alg-geom
32
The categories of this paper are: atom-ph