Second-harmonic generation (SHG) is a nonlinear coherent scattering process that is sensitiveto molecular structures in illuminated materials. We report SHG polarization measurement for the detection of protein conformational changes in solutions of macromolecular protein assemblies such as microtubules and protein crystals. The results illustrate the potential of this method for protein structural analysis in physiological solutions at room temperature without labelling.Second-harmonic generation (SHG) microscopy is a powerful modality that enables the visualization of fibre structures without labelling. Such structures include the fibrillar collagen in tendons, myosin thick filaments in myosarcoma, and the densely bundled microtubules in living specimens 1-3 . SHG is a coherent process in which two photons that have the same energy are effectively 'combined' to generate a new photon with twice the energy; it was first discovered in 1961 4 . Twenty-five years later, SHG was used to determine the orientation of collagen fibres in a rat tail tendon 5 . Because SHG is sensitive to static electric field, SHG microscopy was also used to measure the action potential of a nerve cell 6,7 . The microscope design is based on that used for laser-scanning confocal fluorescence microscopes, so that the simultaneous observation of fluorescence and SHG is possible 8 .SHG is now also used for whole-animal imaging in vivo 9,10 .The nonlinear susceptibility of a material to SHG is expressed as the 3 rd -rank tensor (SHG tensor) originating from molecules with broken centrosymmetry and their alignments in macromolecular assemblies 1,2 . This unique feature may enable the acquisition of data about the spatial distributions of filament orientations, and can provide information on protein secondary structures, such as the axial pitch of alpha-helices 11 . Furthermore, SHG microscopy can be used to visualize the spatial distribution of fibre polarity directions in tissues with interferometric configurations 12,13 . Therefore, the SHG signal potentially carries structural information about proteins, which can be recorded optically without labelling.