The Thermosphere Ionosphere Mesosphere Electrodynamic General Circulation Model (TIME-GCM) was used to study the atmospheric dynamical influence of the solar protons that occurred in Oct--Nov 2003, the fourth largest period of solar proton events (SPEs) measured in the past 40 years. The highly energetic solar protons produced odd hydrogen (HOx) and odd nitrogen (NOy). Significant short-lived ozone decreases (10--70%) followed these enhancements of HOx and NOy and led to a cooling of most of the lower mesosphere. Temperature changes up to 12.6 K were computed as well as wind (zonal, meridional, vertical) perturbations up to 20--25% of the background winds as a result of the solar protons. The solar proton-induced mesospheric temperature and wind perturbations diminished over a period of 4--6 weeks after the SPEs. The Joule heating in the mesosphere, induced by the solar protons, was computed to be relatively insignificant for these solar storms.