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PBC = xy with pressure coupling gives erroneous results
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2
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29
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April 20, 2024
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Bond between protein and ligand
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4
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32
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April 19, 2024
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Are NVT+NPT equilibrations necessary to precede lipid self-assembly simulations
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2
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31
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April 19, 2024
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MDtutorial ligand restraints: Cannot use restrained groups for this system
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1
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17
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April 19, 2024
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Assessing the stability of a mutant protein withGROMACS
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1
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24
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April 18, 2024
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What are your thoughts on my MD step at preprocessing?
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1
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29
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April 16, 2024
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How to build 2Fe-2S cluster model for simulation?
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5
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318
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April 14, 2024
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SHAKE agorithm and topology
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0
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29
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April 12, 2024
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Vacuum Simulations in GROMACS 2020+
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4
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285
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April 11, 2024
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Can I print half time step velocities of a run with leap-frog algorithm?
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5
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54
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April 11, 2024
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How to create rtp.file for a specific Chlorophyll a molecule
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3
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43
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April 8, 2024
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Running genion non-interactively. No dialogues
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4
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84
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April 5, 2024
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Forecfield incorporation in gromacs
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10
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132
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April 3, 2024
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Dummy Alchemical Ions in Gromacs
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0
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43
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April 2, 2024
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Abnormally Large 2nd Moment of Acceleration Values (<U^2> = <F^2>/M^2)
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0
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28
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April 1, 2024
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Define the ion-water interactions
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0
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45
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April 1, 2024
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How to add the isoleucine and phytol tail using the best software?
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0
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39
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March 27, 2024
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Core-shell model definition in Gromacs
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0
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56
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March 26, 2024
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Fatal error while doing Protein-ligand simulation using GROMACS 2023
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3
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358
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March 26, 2024
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Error energy minimization - Martini
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1
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72
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March 22, 2024
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EM converge before reaching the target steps, NVT indicated segmentation fault
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5
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67
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March 21, 2024
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Lipid self-asssembly artifacts due to single axis elongation
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1
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74
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March 20, 2024
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Coarse-grained md simulatioin
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2
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70
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March 14, 2024
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How to perform a triplicate molecular dynamics simulation?
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1
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75
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March 12, 2024
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How to use brownian dynamics with gromacs
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2
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83
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March 12, 2024
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L-L Extraction: Interface Simulation
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0
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80
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March 11, 2024
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Why are non-water solvents in the aminoacids.rtp in gromos54a8?
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2
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72
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March 11, 2024
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Difference observed in protein RMSD between different complexes but protein is same
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26
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208
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March 11, 2024
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Help regarding quenching in gromacs
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0
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52
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March 9, 2024
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Parameterization of an adenylylated tyrosine residue in CHARMM36
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0
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60
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March 7, 2024
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