Partial Rollover will absolutely work. Go to the 1099-R in the "Forms" part of the Program for the Investment Company (I did not use Easy Step). Fill out the top part exactly as it was sent to you. Part way down the form if this was a MRD put in the partial amount of the distribution ($43K in your case). If its not a MRD skip this step and then scan down to line B2 and put in the amount of the rollover ($5K in your case) and it will calculate the correct taxable distribution.
