AbstractProton transport in proton exchange membrane is considered to depend on the hydrophilic domain formed by the microphase separation between hydrophobic and hydrophilic segments of the membrane. Therefore, the study of hydrated morphologies is crucial to understand proton transport. Here, the mesoscopic structure of sulfonated polyether ether ketone (SPEEK) membrane and SPEEK/polyethersulfone (PES) blend membrane is investigated by dissipative particle dynamics (DPD) simulation. The degree of sulfonation, water content, and PES content are considered to affect proton transport. Results show that the hydrophilic particles combine with water and are separated from hydrophobic particles to form clusters of different sizes. For the SPEEK membrane, with the increase in the sulfonation degree, clusters become large and begin to connect. Compared with isolated clusters at low water content, water clusters become large with increased water content. When water content λ = 16, the cluster size is the largest. The addition of PES accelerates the phase separation in the membrane and increases the size of water clusters. When SPEEK/PES = 4:6, the cluster size is the largest and provides the best proton transport pathway.