The two database searching programs, genewisedb and estwisedb can be run with pthread support on SMP boxes. To do so you need to compile the source code with pthread support (it is very easy, see section 3.3). Then the programs need to be run with the additional option -pthread. On most machines the executable will pick up the number of available processors automatically and run that number of threads. If you want to override this use the -pthr_no option.