Method for organizing individual molecules on a patterned substrate and structures assembled thereby

A structure comprising:

• a substrate having a patterned surface of a plurality of binding sites and a nonbinding background, each of the plurality of binding sites having:
• a binding site shape that is rotationally asymmetric around an axis perpendicular to the patterned surface;
• and
• a first orientation direction defined along the plane of the patterned surface and relative to the binding site shape,
• wherein the first orientation direction of a first binding site of the plurality of binding sites is fixed, relative to the substrate, and is different than the first orientation direction of a second binding site of the plurality of binding sites;
• and
• a molecular shape comprising polynucleotides generated by a polynucleotide platform having:
• a shape corresponding to the binding site shape;
• and
• a second orientation direction defined relative to the shape of the molecular shape,
• the molecular shape being bound to the substrate and having a higher binding affinity for the plurality of binding sites when the second orientation direction is aligned with the first orientation direction than for a binding site having a misaligned first orientation with respect to the second orientation direction or for the nonbinding background in any orientation.