The objective of this paper was to propose a deepened analyze of a microfiltration membrane fouling by two biomolecules: a protein (Bovine Serum Albumin) and a peptide (Glutathione). In addition to an analysis of flux decline, the mass of biomolecules accumulated on the membrane during filtration was quantified and compared to adsorption experiments, using Fourier Transform Infra Red spectroscopy in Attenuated Total Reflection mode (ATR-FTIR). It was demonstrated that the same quantity of accumulated biomolecules on the apparent membrane area can generate totally different flux declines because of different fouling mechanisms. On the one hand, Glutathione can adsorb in the whole porous media of the membrane, penetrating through the pores, modifying the hydrophilicity at low concentrations and generating pore constriction at high concentrations. On the other hand, BSA organize a dense irreversible fouling in the first minutes of filtration containing a quantity equivalent to more than 45 monolayers, leading to pore blocking and pore constriction. This structure is resistant to rinsing and NaOH cleaning. Then a reversible fouling, containing a quantity equivalent to more than 90 monolayers is settled. The above structure can be removed with an intensive water rinsing and corresponds to a rather porous cake leading to a low resistance to water permeation, whereas the intermediate structure can only be removed with chemical cleaning and has a higher impact on water permeation. The original approach detailed in this paper allowed to go deeper in the understanding of the membrane fouling by soft matter, not detailed in previous papers.