Knocking out a gene in mice provide the means to investigate potential regulators of the compositional, structural, and biomechanical properties of bone. Suppressing genes related to matrix turnover (bone remodeling) can have a significant effect on properties related to overall bone quality, which are normally measured using tests such as micro-computed tomography (&mgr;-CT) and three point-bending to determine the structural and mechanical properties, respectively. Although Raman spectroscopy is known to non-destructively characterize biochemical properties of bone such as degree of mineralization and crystallinity, the correlation between these measurements and those of overall bone quality has not yet been systematically investigated. In this study we present a comparison of structural and mechanical properties of bone from mice deficient in matrix metalloproteinase 2 (MMP2) to compositional properties measured with RS. Femora were collected from MMP2+/+ and MMP2-/- mice at 16 weeks of age. Multiple Raman spectra were collected from the mid-diaphysis of intact femora in order to measure the bone's average compositional properties. In addition, &mgr;-CT was used to characterize the structure and bone mineral density (BMD) at the mid-diaphysis, and three-point bending assessed the biomechanical properties of the same bones. Raman derived measurements of mineralization (ratio of Phosphate ν1 to CH2 bending), mineral crystallinity, collagen and mineral contents were significantly lower in the MMP null mice and demonstrated correlation with volumetric BMD, bending strength and modulus. In addition, all these measurements were shown to inversely correlate with post-yield-deflection (p<0.01). These results indicate the potential for RS to qualitatively assess bone quality.