Methods, computer program products, computer systems, and the like, which protect messages in an electronic messaging system, are disclosed. The methods, computer program products, computer systems, and the like include detecting an occurrence of an event, and, in response to the detecting the occurrence of the event, scanning a message. The occurrence of the event indicates that the message should be scanned. The message includes recipient information, which identifies a recipient of the message, and is stored in a message store. The message has been received at a message destination associated with the recipient. The scanning uses a malware definition. The scanning is performed prior to the message being retrieved from the message store in response to a request by the recipient to retrieve the message from the message store. The event is other than the request by the recipient to retrieve the message from the message store.