The genera, Nephila Nephilengys, etc., belonging to the Araneidae family spiders store various acylpolyamines in their venom glands which paralyze insects by blocking to nerve-muscle signal transduction of glutaminergic synapses. Because of structurally related compounds and complexity of venom constituents, it was difficult to separate and identify all of those compounds. Tandem mass spectrometer equipped with Liquid MALDI ionization source allowed to identify all of those constituents without extensive sample clean up procedures. Detailed structures of those acylpolyamines were determined by the observation of high energy collision induced dissociation (CID) and charge remote fragmentation method. It was able to classify acylpolyamines obtained Araneidae family spiders into type-A to F among those Type-C and E have isomeric structures. Genus Nephilengys exclusively store type-C acylpolyamines, on the other hand, genus Nephila stores type-E compounds which might suggest the applicability of chemotaxonomy.