Xeon E5540 's Advantages
Lower TDP (80W vs 140W)
Intel Xeon E5 1650 v3 's Advantages
Released 5 years and 6 months late
Higher specification of memory (2133 vs 1066)
Newer PCIe version (3 vs 2)
Higher base frequency (3.5GHz vs 2.533GHz)
Larger L3 cache size (15MB vs 8MB)
More modern manufacturing process (22nm vs 45nm)