Through this final work, Microsoft Exchange System, anti-spam and antimalware protection has been explained. In the introductory part, the text introduces readers into the issue of the development of computer systems and programs. The second chapter defines the terms of protection for computers, after are explained threats for computers. The third chapter conceptually and chronologically describes the development of anti-malware and anti-spam protection. In the fourth chapter anti-spam protection in Microsoft Exchange 2013 is detailed described, the fourth chapter is divided into three sub-headings in which are described implementation and configuration of anti-spam agents very detailed. The fifth chapter is elaborating the subject of anti-malware protection of Microsoft Exchange 2013. , as well as in the previous chapter, implementation and system configuration anti-malware protection are described detailed by subtitles. In the conclusion is summary of this final work, all facts which were mentioned in this work are specified, further, conclusions and opinions about anti-malware and anti-spam protection are rendered. In the literature, tables and figures are listed all the sources used in the final work.