An automated cell-free protein production system comprises: a protein expression reaction unit comprising a reaction vessel that includes a plurality of dialysis tubes, each including a dialysis membrane and being open at its top; a reaction temperature control unit configured to heat or cool the reaction vessel; a pipette array comprising a plurality of pipettes and configured to suck or discharge solutions using the pipettes; a pipette array moving unit configured to move the pipette array in an upward and downward direction, a forward and backward direction or a left and right direction so as to move solutions; a protein purification unit including a magnetic field application device; and a multi-well plate mounting unit having mounted therein a multi-well plate kit configured to supply solutions that are used for protein production.