What is "Microsoft Malware Protection"? Are you referring to the Microsoft Malicious Software Removal Tool?
Regardless, since you have Windows 7, 64-bit, I suggest you restore your system to a point prior to the last night. Then manually update MSE. Launch MSE. Click the down arrow by Help
(located in the right-hand corner) and select "Upgrade Microsoft Security Essentials".
Edit note: Yet again, I need to type faster (and not be trying to follow World Cup at the same time). lol