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How to get RMSD from beginning to end after extending simulation
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1
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368
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March 5, 2022
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Can I give an arbitrary name for an index?
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4
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2500
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March 4, 2022
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Can a lysine residue be set as neutral, i.e. zero charge without protonation?
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15
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1082
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March 3, 2022
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File input/output error: tprout.tpr
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7
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1426
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March 3, 2022
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Adding ions
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4
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1615
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March 3, 2022
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Gromacs -charm-gui-minimization
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4
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470
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March 3, 2022
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How to select from a list of area_shrink_step.dat the correct one for my lipid bilayer system?
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4
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275
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March 3, 2022
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Value of the \sigma parameter for TIP4P water potentially incorrect in charmm36-jul2021.ff
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2
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452
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March 3, 2022
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SASA Calculating for protein-ligand
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4
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1651
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March 3, 2022
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How can GROMACS recognize halogens such as chlorine as hydrogen bond acceptor?
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4
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478
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March 3, 2022
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Simulating protein in the presence of 8M urea
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2
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528
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March 3, 2022
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Atom H1 in residue ACE 1 was not found in rtp entry
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1
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732
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March 3, 2022
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Problem with calculating the interaction energy between two groups
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1
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507
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March 3, 2022
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Why is mpi thinking gromacs args are for mpi?
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3
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656
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March 3, 2022
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Hydrogen bond lifetime calculation
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0
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532
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March 3, 2022
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Which version of the gromacs trajectory files can be used for g_mmpbsa?
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1
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296
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March 2, 2022
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Questions about using two gpus on one node, parallization across the node, and interpreting the outs
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1
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617
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March 2, 2022
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Issue with gmx extract-cluster
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1
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539
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March 2, 2022
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Simulated tempering with non-equal occupancy of states
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0
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326
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March 1, 2022
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Electrostatic pme/cut-off with zero partial charges
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3
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951
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March 1, 2022
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Gromacs (Illegal instruction (core dumped))
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3
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1708
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March 1, 2022
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Gromacs 2020.4 installerror: #error "compiling simd-avx2.h without avx2 support"
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0
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757
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March 1, 2022
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Calculating diffusion coefficient with MSD (gmx msd)
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0
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1011
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February 28, 2022
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Double system/single box simulation - Free energy calculation
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0
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394
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February 28, 2022
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Change of protein-protein-interaction free energy upon ligand binding (procedure and controls)
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0
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597
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February 27, 2022
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How could someone get the entropic and enthalpic contributions of a free energy calculation?
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1
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417
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February 27, 2022
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Binding free energy
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0
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242
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February 27, 2022
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How to calculate structure factor in Gromacs
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0
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449
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February 26, 2022
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The atom order (i,j,k,l) in defining an improper dihedral in Gromacs using the OPLS-AA force field
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2
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2001
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February 26, 2022
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2 particles communicated to PME rank 23 are more than 2/3 times the cut-off out
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0
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1169
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February 25, 2022
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