In amoeboid form, cells are typically around 20-40 μm, and are roughly cylindrical with a single clear pseudopod at the front. Sometimes filose extensions are formed at the posterior, but these do not aid in locomotion. Usually this form is taken when food is plentiful, while the flagellate form is used for rapid locomotion. The latter is slightly smaller, with either two or four anterior flagella associated with a ventral feeding groove. This suggests a close relationship to certain other groups, collectively known as excavates, among which the Heterolobosea are one of the lines with mitochondria, and typically have a single nucleus with a nucleolus at its center.
There is one genus, Percolomonas, which lacks an amoeboid stage, while Vahlkampfia, Pseudovahlkampfia, and the acrasids generally lack flagellate stages. Under certain conditions acrasids will come together and produce stalked structures, which function as sporangia. These are composed entirely of living cells and are assembled from individual or small groups of amoebae, rather than streams as in the superficially similar dictyosteliids. The best known such genera are Acrasis and Guttulina.