Carious dentin can be classified, on the basis of their clinical characteristics, into three groups; sound, sclerotic and active carious dentin. Active carious dentin differs from sclerotic dentin by its abscence of variable bacteria within tubles and amount of chemical content. But the apatite molecules of active carious dentin are not fully studied. The purpose of this study was to observed the physico-chemical characteristics of deep carious dentin. The samples of sound, sclerotic and active carious dentin were obtained respectively from 300 freshly extracted carious teeth. Bacterial-rich zone of superficial soft dentin layer was removed with hand instruments from all samples in advance. The samples were powdered and sieved (200 mesh) before analyses. Identification and estimation of the crystallinity of the samples were carried with X-ray diffraction and infrared absorption analyses. Measurements were made on a Rigaku Denki (Rigaku, geiger flex III, Japan) X-ray diffractometer with Cu-target at 30 Kv, 30 mA and are traced on a monochromatic tracer. Infrared absorption analysis was made on FT-IR spectrophometer (Nicolet Instrument Co.) using KBr pellets containing the samples and was recorded on data process (Model IR-80. Nicolet Instrument, Co). The following conclusions were as follows; 1. The nature of the main inorganic structure of sound, sclerotic and active carious dentin proved to be hydroxyapatite. 2. It was difficult to determine the identification due to their crystallinity of sound, sclerotic and active carious dentin. But sound dentin was the highest in crystallinity among them. 3. The magnesium whitlockite was to be found in active carious dentin, but not in sound and sclerotic dentin. 4. The carbonate content was highest in sound dentin, but the lowest was in active carious dentin.