MD Simulation for protein-ligand complex embedded in membrane
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0
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13
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February 3, 2025
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Membrane Protein ligand simulation
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7
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51
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February 3, 2025
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Compute the energy of a molecule
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2
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13
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February 3, 2025
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What is the difference between tensile MD simulation and non-equilibrium MD simulation?
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6
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65
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February 2, 2025
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How to select amide hydrogen in a cyclic peptide nanotube in index file?
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0
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15
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February 2, 2025
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A patched or uneven lipid bilayer Symmetric membrane after minimisation (Fmax<100)
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10
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1027
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February 2, 2025
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Energy minimization does not work
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8
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43
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February 1, 2025
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Starting a new simulation from a frame different than the last frame of the prev. simulation
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1
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51
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February 1, 2025
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Unable to generate topology for my ligand
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0
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53
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February 1, 2025
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Order Parameters calculation for POPC and POPS in multi-component lipid mixture
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2
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31
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January 31, 2025
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Difficulty with Lipid PDB generation for gromacs
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0
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24
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January 31, 2025
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Dehydrated bilayer simulation
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2
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28
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January 30, 2025
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Error from mdrun in version 2024.5 but not 2023.2
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0
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52
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January 30, 2025
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High Fluctuations in DNA RMSD Analysis After PBC Correction
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6
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22
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January 30, 2025
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Gmx mdrun error
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0
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29
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January 30, 2025
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How does "-[no]correct (no)" flag works in gmx potential tool?
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5
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36
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January 30, 2025
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Pdb2gmx not able to form bonds in an unusual ligand
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5
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45
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January 30, 2025
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CHARMM force field parameters for Ru(II)
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0
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30
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January 29, 2025
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Protein ligand complex and aggregation
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0
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15
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January 29, 2025
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Pressure application to separate oil in water through amorphous polymer membrane
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12
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55
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January 29, 2025
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Residue 'FE' not found in residue topology database
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0
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15
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January 29, 2025
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Gromacs 2024.2 giving weird result!
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9
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315
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January 29, 2025
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"No default Bond types" error during grompp for specbond.dat bonds
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0
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10
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January 29, 2025
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GROMACS versions
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1
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13
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January 29, 2025
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GPU not being enabled even though I compile it with CUDA support on a Azure VM
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2
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25
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January 29, 2025
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Resolving Charge Imbalance for CHARMM DNA Backbone Parameterization in GROMACS
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2
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16
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January 28, 2025
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Gmx rms will not write .dat file
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1
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13
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January 28, 2025
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Does different GROMACS versions affect results?
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9
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345
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January 28, 2025
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Simulating pulling a small solute across a lipid bilayer
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7
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23
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January 28, 2025
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Question regarding choice of group for Least Square Fitting Step
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4
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1869
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January 28, 2025
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