My proteins will jump over the box boundaries
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12
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177
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January 1, 2024
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How to calculate the free energy of different conformations of protein using mmpbsa
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0
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106
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December 30, 2023
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Fatal error: Atom 'HO2 in residue DG 1 was not found in rtp entry DG5 with 31 atoms while sorting at
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8
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226
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December 30, 2023
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Time evolution of one replica with temperatures from REMD
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2
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200
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December 27, 2023
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Simulation Breaks the system (separates both the chains of the Antibody)
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10
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819
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December 24, 2023
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How to find out the lowest conformaton state of protein from md run trajectory after ploting the FEL
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0
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122
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December 23, 2023
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How to deal with the periodicity of protein small molecule system
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0
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78
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December 22, 2023
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Miscibility parameter in polymers
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0
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77
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December 19, 2023
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Superimposed PCA for two proteins, mutated (with deletion) and wt
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0
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68
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December 18, 2023
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Msd graph with two slopes
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4
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144
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December 17, 2023
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Gmx sham / gmx xpm2ps : set the PC dimensions on the projection plots
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1
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150
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December 12, 2023
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How to drive descriptors from gromacs trajectories?
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0
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99
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December 10, 2023
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Gromacs distance calculation between multiple atoms, is it real?
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0
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144
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December 6, 2023
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Visual Interactive Analysis of Molecular Dynamics (VIAMD)
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0
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343
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December 5, 2023
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Osmotic permeability "Pf" for water transport
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0
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60
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December 5, 2023
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Noise in structure factor
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0
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125
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December 4, 2023
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VMD problem
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2
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182
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November 30, 2023
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Gmx trjconv -fit
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4
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217
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November 29, 2023
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Gmx clustsize - clusters in the gas phase
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2
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163
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November 27, 2023
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Coordination number from RDF plot
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4
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287
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November 27, 2023
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Details of viscosity estimation (gmx energy -vis)
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2
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181
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November 24, 2023
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Is it important to repeat analysis
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1
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94
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November 22, 2023
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Forcefield recommendations for protein-ligand system
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0
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98
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November 21, 2023
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Using trjcat for bulk trajectory merging issues
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7
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165
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November 21, 2023
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Surface tension calculation of gas-liquid
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0
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98
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November 21, 2023
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Minimization curve
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2
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156
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November 20, 2023
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Gmx editconf -pbc not removing periodicity
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4
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421
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November 18, 2023
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"Floating point exception (core dumped)", when trying to clac Hbond distance
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1
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175
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November 15, 2023
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Simulated ligand with weird geometries on start.pdb(dump=0) and md_0_100.gro files
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3
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77
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November 15, 2023
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Using gmx_wham for analysis of NAMD-generated umbrella-sampling
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3
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173
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November 15, 2023
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