Peptides are sequences of amino acids. In case of their coiled coil structural
motif we can predict what bonds will form and create larger structures.
We use chains made of peptides for assembly of stable periodic nets. We represent
peptides as a chain structure graph in our mathematical model, which
we embed into a planar net to guarantee the proper form. Relations between
links given in a relation matrix decide whether or not links will self-assemble
into a net. Because of the use of orthogonal link sets, relation matrices are
permutation matrices. We can further limit relation matrices by applying
several conditions derived from nature, stability and net shapes. For the
search of periodic nets and uniqueness check we propose area restrictions.
The presented lazy embedding algorithm connects one pair of links in a step
and embeds them only if there is only one embedding option left.
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