Amber Archive May 2025 by subject
- [AMBER] AMBER installation
- [AMBER] AmberTools 25 and MBIS
- [AMBER] AmberTools 25 fails to compile with Python 3.13
- [AMBER] ante-MMPBSA ERROR: Creating complex topology failed
- [AMBER] Bug in CPPTRAJ following alignment
- [AMBER] Can't read CRD file
- [AMBER] Congratulations on Dr. Case's election to the new member of the National Academy of Sciences
- [AMBER] Constant ph molecular dynamics simulation
- [AMBER] Difference in atom/residue naming convention in PDB and CRD/TOP files generated from AmberTools
- [AMBER] Does mbar in fe-toolkit support linear conbination distance as a CV when reconstructing FES from US?
- [AMBER] GROMAC's insert-molecule equivalent in AMBER
- [AMBER] How to parametrize these RNA structure with "N" bases in the structure
- [AMBER] Issue with VdW Energies in MMGBSA Calculations
- [AMBER] Missing Angle Parameter Issue
- [AMBER] missing angle/dihedral parameters issue after MCPB.py/tleap
- [AMBER] Mutation TI simulation values
- [AMBER] pbsa warning/error
- [AMBER] pmemd.cuda Aborted: "double free or corruption (out)" during minimization
- [AMBER] Problem with selecting chains from TOP + CRD files for
- [AMBER] Question regarding fixing cispeptides in modelled loops and protonation states
- [AMBER] Release of AmberTools25
- [AMBER] RMSD calculation
- [AMBER] runtime error in AmberTools25 tests and pmemd24 license for computing center
- [AMBER] siRNA Base Pairing Instability Beyond 17-mer in MD Simulation
- [AMBER] Steered MD - Pushing RNA micro helix to protein's pocket
- [AMBER] Strange bond connecting the ends of two separate chains
- [AMBER] There seems to be a bug in the CPPTRAJ software
- [AMBER] Unable to build
- [AMBER] Weird atomic valence
- Bug in CPPTRAJ following alignment
- There seems to be a bug in the CPPTRAJ software
- Last message date: Thu May 29 2025 - 03:00:02 PDT
- Archived on: Mon Jun 02 2025 - 05:56:18 PDT