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Using the Martini3 Forcefield in pdb2gmx
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2
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135
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January 7, 2025
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Gmx_mmpbsa decomposition error
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0
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41
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January 7, 2025
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GMX hbond generating weird result
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4
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62
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January 7, 2025
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Net charge after solvation
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2
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14
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January 7, 2025
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No such molecule POP1 error during CG simulation minimization step
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33
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91
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November 21, 2024
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Issues with Ligand Topology Creation Using CGENFF and CHARMM-GUI
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2
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73
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January 7, 2025
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Equilibrating for 10 fs - mdp file
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3
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28
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January 7, 2025
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Can anyone provide GROMACS compatible CHARMM forcefiled parametr for Mg2+ ion?
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0
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17
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January 7, 2025
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NVT simulation and mdp file
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2
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94
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January 7, 2025
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Pressure off due missing LJ parameters
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4
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107
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January 7, 2025
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Error in CG simulation for Graphene
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1
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29
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January 7, 2025
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Cannot run short-ranged nonbonded interactions on a GPU because no GPU is detected - 3
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2
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60
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January 7, 2025
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Umberlla sampling for protein ligand complex
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30
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108
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January 7, 2025
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Stability for long NVE run
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2
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40
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January 6, 2025
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Distortion of cyclopeptide during energy minimization
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6
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29
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January 6, 2025
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Tapology protein
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2
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29
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January 6, 2025
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Distance Restraints type 6
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2
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1524
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January 5, 2025
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Custom exclusion of only coulomb interaction
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2
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43
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January 5, 2025
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Preparing index file
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0
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25
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January 5, 2025
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Charmm36 ff with PTM on GROMACS
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3
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36
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January 5, 2025
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Gromacs install with conda but can't run on GPU
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20
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449
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January 4, 2025
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PCA and FEL for mutated structures in Gromacs
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0
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56
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January 3, 2025
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How to apply Flat Bottom Position Restrains to 8 peptides
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4
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367
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January 3, 2025
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How to proceed after accidentally ceased
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3
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17
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January 3, 2025
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The force on at least one atom is not finite. This usually means atoms are overlapping
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1
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32
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January 2, 2025
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Errors during nvt
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5
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38
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January 2, 2025
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Hypervalent carbon (valence=5) not supported CGenFF
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6
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758
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January 1, 2025
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Energy minimization error
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11
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11303
|
December 30, 2024
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How to build the model and setup the simulation to study ion transport through a pore?
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1
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41
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December 30, 2024
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Lipid monolayer
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5
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31
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December 30, 2024
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