While using the Alaning Scanning of the programme, it usually generates three sets of data.
(1) Normal , (2) Mutated, and (3) Mutated - Normal
My questions are,
a. I have already run a MMGBSA, (which is basically the normal or un-mutated one), and later decided to run only the Alanine Scanning of a residue separately.
How can I indicate the programme to consider the previous MMGBSA data for the Normal Non-mutated part, without repeating it again for scanning calculation. (Obviously I will keep other parameters, time, interval, temp, ff, etc same). It will save a lot of time.
b. Can alanine scanning of two residues be done in one go? Like by adding consecutive lines in the same input file?
..
&alanine_scanning
mutant= 'ALA', mutant_res= 'A/123' , cas_int_diel=1
/
&alanine_scanning
mutant= 'ALA', mutant_res= 'A/321' , cas_int_diel=1
/
Thanking you in anticipation.