A document administration system includes a server connecting document storing apparatuses via a network. Each document storing apparatus includes a plurality of boxes, and a document storing portion for making the document storing apparatus store a document in one of the boxes. The server includes a storing destination deciding portion for deciding one of the document storing apparatuses and one of the boxes thereof for storing the document, based on one or more of information including information on the document corresponding to the storing request, information on the document storing apparatuses registered in a document storing registering portion, and information on the boxes obtained by a box information obtaining portion, and a controller for transmitting the document to the document storing apparatuses having the one of the boxes selected by the storing destination deciding portion and making the document storing portion store the document in the one of the boxes.