BACKGROUND: Plant mediated synthesis of metallic nanoparticles has been studied and reported, however, to date, the biomolecules involved in the synthesis of metallic nanoparticles have not been characterized. This study was therefore undertaken to characterize the biomolecules of Syzygium cumini involved in the synthesis of silver nanoparticles. RESULTS: Synthesis kinetics and morphological characterization of silver nanoparticles (SNP) synthesized using leaf extract (LE) and seed extract (SE) as well as their polar (water) fractions from Syzygium cumini were compared. The polyphenols content and high performance liquid chromatography (HPLC) profile of different fractions revealed good correlation between size and synthesis rate of SNP. SE contains more polyphenols and biochemical constituents than LE and therefore, showed higher synthesis rate and bigger sized SNP. To analyse the nature of biomolecules involved in the synthesis of SNP, LE and SE were fractionated on a polarity basis by solvent-solvent partitioning. Only the water fractions of LE and SE showed potential for SNP synthesis. Atomic force microscopy (AFM) and scanning electron microscopy (SEM) analysis of SNP indicated that all fractions catalyze the synthesis of spherical nanoparticles. The average size of SNP synthesized by LE, leaf water fraction, SE and seed water fraction were 30, 29, 92, and 73 nm respectively. CONCLUSION: Results suggest that only highly polar soluble constituents are responsible for SNP synthesis. The size of SNP was found to be directly correlated with the amount of polyphenols as well as surfactants present in the reaction solution. Thus, the amount of polyphenols could be one of the crucial parameters determining the size and distribution of SNP. (C) 2010 Society of Chemical Industry