Over the past few decades, there has been gradual increase in demands for exploring natural mineral resources using effective geophysical methods that have proven their capabilities in real mineral exploration practices. The main objective of using geophysical methods is to estimate physical and geometric properties of sub-surface geological objects and structures such as susceptibility, shape, depth and lateral extension. For this purpose, inverse modeling is considered as an effective and efficient tool. As a result, precise estimates of these properties will have a significant impact on reducing exploration costs and delineating subsurface targets. In the current research, we have conducted a ground-based magnetic survey to collect total magnetic field data over the Pir Ali iron prospect located northeast of Yazd province, to be used as the input for the constrained three-dimensional inverse modeling algorithm developed by Li and Oldenburg. The geological information of the surface rock units covering the surveyed area plus the physical properties derived from a single borehole data were employed for constraining the inversion procedure. The total number of collected data were 1,039 mobile station readings over 17 north-south profiles plus 300 base station readings (time intervals of 5 minutes) used for diurnal correction. In order to prepare a high resolution map resembling the surface geology of the survey area, a spectral supervised