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The present invention relates to compositions and methods for detecting analytes using detectably labeled fluorescent protein scaffolds. In certain embodiments of the invention, the scaffolds are viral particles in which the capsid viral structure provides a scaffold to attach detectably labeled fluorescent dyes and capture moieties that can be utilized to determine the presence of a desired analyte in a sample using any suitable method. The protein scaffold can contain amino acids carrying reactive groups (e.g., amines and thiols) that are spatially distributed on it with large enough separation to enable the attachment of a greater number of fluorescent label molecules without quenching.