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Interpretation of Nonzero 14-LJ and 14-Coul Terms for Nonbonded Groups
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6
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24
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May 7, 2025
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Unusual RMSD of ligand-protein
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5
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30
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May 4, 2025
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listRanges does not have a first element with value 0
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3
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49
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April 12, 2025
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SMD output files and interpretation
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0
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7
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May 2, 2025
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The options about xmax and xmin for gmx densmap
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1
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21
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May 2, 2025
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Rotating protein in trajectory
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6
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31
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May 1, 2025
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Protein-Lipid system, protein keeps flipping or jumping
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2
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28
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April 25, 2025
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Is an RMSD value above 0.36 nm (apo-form) and 0.4 to 0.5 nm (complex-form) is acceptable?
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0
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10
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April 23, 2025
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Debye Method Implementation
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0
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18
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April 22, 2025
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Error in docked complex simulation
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1
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30
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April 22, 2025
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Equivalent to the old sas2mat
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0
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14
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April 17, 2025
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GROMACS Result Analysis. Potential Issues?
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7
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80
|
April 17, 2025
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PBC Artifacts in 20 bp DNA System
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0
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5
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April 16, 2025
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Topology for janus MoSSe
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0
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5
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April 14, 2025
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For two examples, the eigenvalues obtained from `g_covar` are all zeros
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3
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22
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April 11, 2025
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GROMACS RMSD Analysis: Understanding Non-Zero Initial Values
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2
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19
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April 4, 2025
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Segmentation fault (core dumped) for gmx covar
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5
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14
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April 2, 2025
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Error for protein ligand simulation in gromacs
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0
|
15
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April 1, 2025
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How does "-[no]correct (no)" flag works in gmx potential tool?
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10
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107
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March 28, 2025
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MSD curve has a large non-linear part
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5
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37
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March 26, 2025
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How to use gmx polystat for MSID
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3
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18
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March 26, 2025
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Distance between COM HP-beta-cyclodextrin and Gliclazide
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2
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17
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March 24, 2025
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Ligand leaving binding pocket
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15
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174
|
March 23, 2025
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Can we calculate the MSD by considering only the first portion of the MSD graph?
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0
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19
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March 21, 2025
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Increase in potential energy of peptide conformations Post MD run
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4
|
25
|
March 18, 2025
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Head group atom of lipids
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4
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20
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March 17, 2025
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In gmx wham, what is profile.xvg?
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0
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21
|
March 11, 2025
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Change in position of Histidine residue lead to difference in columb interaction energy
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0
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4
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March 3, 2025
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How gmx RMS read the input of group selection
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1
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16
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March 1, 2025
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Failed to run long trajectory to compute MSD
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0
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9
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February 27, 2025
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