The Origin of the Designability of Protein Structures

We examined what determines the designability of 2-letter codes (H and P) lattice proteins from three points of view. First, whether the native structure is searched within all possible structures or within maximally compact structures. Second, whether the structure of the used lattice is bipartite...

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Bibliographic Details
Published in:arXiv.org 1999-05
Main Authors: Tatsumi, Rie, Chikenji, George
Format: Article
Language:English
Subjects:
Chains
Core making
Monomers
Proteins
Online Access:Get full text
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Summary:We examined what determines the designability of 2-letter codes (H and P) lattice proteins from three points of view. First, whether the native structure is searched within all possible structures or within maximally compact structures. Second, whether the structure of the used lattice is bipartite or not. Third, the effect of the length of the chain, namely, the number of monomers on the chain. We found that the bipartiteness of the lattice structure is not a main factor which determines the designability. Our results suggest that highly designable structures will be found when the length of the chain is sufficiently long to make the hydrophobic core consisting of enough number of monomers.
ISSN:2331-8422
DOI:10.48550/arxiv.9812316