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FEP Calculations Protein-Protein Complex
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3
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112
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June 2, 2024
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Error: reading tpx file (md_0_1.tpr) version 119 with version 110 program
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5
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482
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June 1, 2024
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Grompp needs a posre.itp file
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1
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204
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June 1, 2024
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How to create a pdb file for antiparallel protomers of a dimer using CHARMM-GUI
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0
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66
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June 1, 2024
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Potential error when I merge 3 cells
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2
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691
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June 1, 2024
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Error while using position restarints in MD run
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36
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316
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June 1, 2024
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Why CA and CB H atoms in aminoacid residues are not included in topology when gromos FF is used?
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2
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63
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June 1, 2024
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Analysis for Protein-Ligand-POPC Membrane system
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0
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101
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June 1, 2024
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Adding NH3+ in both terminal in amber force field
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0
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89
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May 31, 2024
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How to fix the error by DFT calculation for charged molecule?
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2
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172
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May 31, 2024
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Querry about multiple job submit in single node, not getting full CPU time
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0
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78
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May 31, 2024
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Distance and angle between two amino acids
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2
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195
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May 31, 2024
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Topology file error after adding dihedral
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2
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150
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May 31, 2024
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How to use the .top file generated by acpype to set up the simulation system?
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3
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3243
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May 31, 2024
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Checkpoint file is not written
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6
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678
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May 31, 2024
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Querry about -pinoffset -pinstride in gmx mdrun
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4
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243
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May 31, 2024
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How to apply repeating boundary conditions in only the x-y dimensions?
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7
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135
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May 31, 2024
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Fatal error: There were 2 errors in input file(s) during ionization by using grompp module
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1
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107
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May 31, 2024
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Gmx mdrun with GPU
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3
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1146
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May 31, 2024
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Severe problem in center of mass calculation
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2
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65
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May 30, 2024
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Rapid Dissociation
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3
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133
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May 30, 2024
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Optimization CPU time
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1
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74
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May 30, 2024
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Calculation of distance between two atoms (amino acid and linad)
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3
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77
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May 30, 2024
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Inquiry on Performing Replica Exchange Umbrella Sampling MD in GROMACS
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1
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121
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May 30, 2024
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Unable to Simulate Two Ligands Simulateously
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3
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682
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May 30, 2024
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Gromacs Production Runs taking very long somtimes stopped running
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1
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114
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May 29, 2024
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Pdb2gmx will not recognize adjacent residue when adding entry to .hdb: glycam06j-1 and amber14sb
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3
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125
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May 29, 2024
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Confirming equilibration with RMSD
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1
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194
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May 29, 2024
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CHARMM36m for DNA in GROMACS
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2
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272
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May 29, 2024
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Having all pairtypes defined in the topology file
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4
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310
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May 29, 2024
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