Four components were used to identification the effective physical-chemical factors of water on the variations of dominant fish families. The total variation of the variables was concluded 94/17 % and 90/5%, related to the loaded components in artificial reefs of Bandar-E-Salakh and Bandar-E-Bostaneh respectively.Assessment of the loaded factors in each of the components were identified that nitrate, nitrite, phosphate and chlorophyll a factors with positive load and temperature and salinity with negative factor load as the most important factors affecting the demographic changes of some fish families. Temperature, pH, nitrate, nitrite and phosphate were diagnosed parameters for water quality in two areas based on PCA results. The results of this study showed that nutrients (nitrate, nitrite, phosphate and chlorophyll a) had great influence on structure of fish in artificial reefs, that together with the physical-chemical parameters of water to impact on the chain and food web of fish and fauna of these ecosystems, ultimately.