|
Questions on Non-equilibrium TI Phase with Slurm Scheduler in 'AZtutorial.py' Script
|
|
2
|
212
|
December 4, 2023
|
|
Error using mutate.py with charmm FF
|
|
3
|
192
|
December 1, 2023
|
|
Mutation involving two proteins
|
|
2
|
164
|
November 29, 2023
|
|
Performing Non-equilibrium Alchemical Transformations with Multiple Mutations
|
|
3
|
228
|
November 24, 2023
|
|
Please help me understand these values from the tutorial
|
|
4
|
213
|
November 23, 2023
|
|
Theoretical question about 'one box two systems'
|
|
4
|
167
|
November 22, 2023
|
|
PMX protein mutation tutorial
|
|
6
|
372
|
November 10, 2023
|
|
Different masses of dummy atoms in webserver pmx and standalone pmx
|
|
1
|
243
|
October 31, 2023
|
|
The use of GAFF1 vs GAFF2 with the pmx ff99SB*-ILDN forcefield
|
|
2
|
238
|
October 25, 2023
|
|
Pmx webserver is not running
|
|
1
|
153
|
October 18, 2023
|
|
Help Needed with Protein-Ligand Topology in pmx Tutorial
|
|
4
|
426
|
October 13, 2023
|
|
Problem with installing with Python2
|
|
10
|
497
|
October 13, 2023
|
|
Pmx ligandHybrid list index out of range error
|
|
4
|
433
|
July 19, 2023
|
|
Absolute Binding Free Energy with pmx
|
|
5
|
657
|
May 24, 2023
|
|
PMX user survey
|
|
0
|
223
|
May 23, 2023
|
|
PMX tutorial free energy sign
|
|
1
|
279
|
May 11, 2023
|
|
Pmx: possibility to run only once the dynamics of state A for A->B and A->C transformations + small question on the sign of dG
|
|
5
|
280
|
May 1, 2023
|
|
Is the pmx server running?
|
|
2
|
215
|
April 17, 2023
|
|
PMX repeatability is very poor
|
|
8
|
330
|
April 4, 2023
|
|
Janssen Ligand tutorial: why no -H2Hpolar flag in atoms_to_morph.py?
|
|
1
|
284
|
March 22, 2023
|
|
AMBER99SB-ILDN warning alert
|
|
3
|
374
|
March 10, 2023
|
|
Understanding the options of atom mapping and ligandHybrid
|
|
57
|
867
|
February 23, 2023
|
|
Oscillational period warning during tripeptide A2I forward simulation
|
|
14
|
690
|
January 31, 2023
|
|
Problem in using gentop
|
|
12
|
337
|
January 20, 2023
|
|
List index out of range when running pmx gentop
|
|
2
|
362
|
December 29, 2022
|
|
Bonds that rotated more than 30 degrees:
|
|
1
|
391
|
November 3, 2022
|
|
IndexError: list index out of range while preparing pdb file
|
|
1
|
452
|
September 15, 2022
|
|
Ligand topolgies for pmx
|
|
5
|
604
|
September 1, 2022
|
|
Pmx RBFE gives oddly large deltaG
|
|
1
|
422
|
August 14, 2022
|
|
PMX engineered resiude
|
|
4
|
303
|
July 18, 2022
|