Related Issues (20)
- Can't run protein-nanoparticle simulation. HOT 1
- Having Issues with the AlphaFold2+MD notebook about "no module named colabfold" HOT 1
- Error in Protein_ligand.ipynb antechamber commands HOT 3
- Hydrogen added to ligand against intent?
- Ligand parameterization panda code error HOT 2
- Protein_ligand.ipynb PDBFixer problem HOT 2
- Hi, Pablo sir kindly help me with running metalloproteins - ligand complex. I don't find a way to run them. Please suggest me what should i do now?
- Continuing trajectory analysis from previous MD simulation HOT 1
- Protein+Membranes.ipynb | Parameters to generate the topology HOT 1
- Martini+cg2all.ipynb | Parameters to generate the Martini topology HOT 1
- RMSD
- Simulating a metallo-protein Apo form
- PDB database structure containing small molecules with certain pattern not working in protein_ligand notebook
- Protein_ligand.ipynb
- Issues regarding scripts to run MD Simulation HOT 2
- Hbond and SASA
- ValueError: The topology and CHAIN trajectory files don't have the same number of atoms!
- Issue converting CG dcd to all atom dcd using the "Martini+cg2all.ipynb" HOT 1
- Can't enable GPU
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