Amber Archive May 2021: by author

Abdul Basit
- [AMBER] Multiple Dihedral Parameters (Sun May 16 2021 - 09:51:03 PDT)
Airy Sanjeev
- [AMBER] Distance between nucleotides and amino acids (Mon May 03 2021 - 03:19:47 PDT)
Akinyemi Omoniyi
- Re: [AMBER] Error: Could not open file frcmod.ions1lm_126_hfe_opc: not found (Sun May 30 2021 - 05:48:57 PDT)
- [AMBER] Error: Could not open file frcmod.ions1lm_126_hfe_opc: not found (Sat May 29 2021 - 21:39:39 PDT)
- Re: [AMBER] CMake Error at cmake/jedbrown/FindFFTW.cmake:307 (add_library): (Wed May 19 2021 - 21:46:31 PDT)
- [AMBER] CMake Error at cmake/jedbrown/FindFFTW.cmake:307 (add_library): (Tue May 18 2021 - 02:03:26 PDT)
Alessandro Contini
- [AMBER] Lite Hash Rate and pmemd.cuda (Wed May 19 2021 - 01:12:05 PDT)
ARITRA MITRA
- Re: [AMBER] Query regarding density analysis in CPPTRAJ. Raising this issue again. (Thu May 13 2021 - 08:06:14 PDT)
- Re: [AMBER] Query regarding density analysis in CPPTRAJ. Raising this issue again. (Thu May 13 2021 - 07:34:06 PDT)
- [AMBER] Query regarding density analysis in CPPTRAJ. Raising this issue again. (Tue May 11 2021 - 11:02:38 PDT)
- [AMBER] Query regarding density analysis (Sun May 09 2021 - 08:12:40 PDT)
Athena N
- [AMBER] AMBER 18 citation endnote file (Tue May 11 2021 - 23:16:36 PDT)
Ayesha Fatima
- [AMBER] converting gromacs topology to amber (Tue May 04 2021 - 15:04:26 PDT)
- Re: [AMBER] converting gromacs topology to amber (Mon May 03 2021 - 06:49:23 PDT)
- Re: [AMBER] converting gromacs topology to amber (Mon May 03 2021 - 06:30:12 PDT)
- [AMBER] converting gromacs topology to amber (Sun May 02 2021 - 09:32:31 PDT)
Azurmendi, Hugo
- [AMBER] Digest of issues installing AMBER21 in Centos 7 (Sat May 08 2021 - 10:00:26 PDT)
Blake Armstrong
- [AMBER] Simulating dehydrated bilayers with a vacuum above and below (Fri May 28 2021 - 01:37:39 PDT)
Brian Radak
- Re: [AMBER] Cpptraj segfaults on single REMD trajectories? (Fri May 14 2021 - 10:40:40 PDT)
- [AMBER] Cpptraj segfaults on single REMD trajectories? (Fri May 14 2021 - 08:19:29 PDT)
- Re: [AMBER] MBAR energies when using soft-core potential in pmemd TI (Mon May 10 2021 - 06:21:56 PDT)
Carlos Simmerling
- Re: [AMBER] Residue-Ligand binding free energy calculations (Mon May 24 2021 - 10:20:36 PDT)
- Re: [AMBER] Clustering getting killed (Sat May 22 2021 - 08:18:49 PDT)
- Re: [AMBER] How do I generate prmtop file for system containing more than 1 ligand? (Wed May 19 2021 - 09:19:40 PDT)
- Re: [AMBER] Mutate double stranded DNA? (Thu May 13 2021 - 01:59:19 PDT)
- Re: [AMBER] stacking interactions represented by force field equation? (Mon May 10 2021 - 07:52:55 PDT)
Cato, Lee
- [AMBER] solvent accessibility (Tue May 11 2021 - 09:20:13 PDT)
Charo del Genio
- Re: [AMBER] Conformation search speed increase with Cartesian restraints (Thu May 20 2021 - 04:40:15 PDT)
- Re: [AMBER] Conformation search speed increase with Cartesian restraints (Wed May 19 2021 - 10:25:51 PDT)
Daniel Roe
- Re: [AMBER] Joining two molecules (Fri May 28 2021 - 06:25:09 PDT)
- Re: [AMBER] Joining two molecules (Fri May 28 2021 - 02:34:35 PDT)
- Re: [AMBER] Seek a solution for can't generate the mol2 files for the metal site residues (Thu May 27 2021 - 06:30:29 PDT)
- Re: [AMBER] Joining two molecules (Wed May 26 2021 - 06:33:26 PDT)
- Re: [AMBER] kindly help with this mmpbsa.py.MPI error (Tue May 25 2021 - 06:40:02 PDT)
- Re: [AMBER] Joining two molecules (Tue May 25 2021 - 06:38:51 PDT)
- Re: [AMBER] distance matrix all atoms (Mon May 24 2021 - 08:36:02 PDT)
- Re: [AMBER] Clustering getting killed (Sat May 22 2021 - 10:29:10 PDT)
- Re: [AMBER] Clustering getting killed (Sat May 22 2021 - 10:28:07 PDT)
- Re: [AMBER] solvent accessibility (Fri May 14 2021 - 11:04:20 PDT)
- Re: [AMBER] CPPTRAJ nastruct not recognising G-U wobble base pairs (Fri May 14 2021 - 11:02:07 PDT)
- Re: [AMBER] New In CPPTRAJ (May 2021) (Fri May 14 2021 - 11:00:01 PDT)
- Re: [AMBER] Cpptraj segfaults on single REMD trajectories? (Fri May 14 2021 - 10:57:27 PDT)
- Re: [AMBER] understanding DSSP outout (Fri May 14 2021 - 08:42:05 PDT)
- Re: [AMBER] Cpptraj segfaults on single REMD trajectories? (Fri May 14 2021 - 08:32:20 PDT)
- [AMBER] New In CPPTRAJ (May 2021) (Thu May 13 2021 - 11:50:29 PDT)
- Re: [AMBER] Query regarding density analysis in CPPTRAJ. Raising this issue again. (Thu May 13 2021 - 09:26:02 PDT)
- Re: [AMBER] Query regarding density analysis in CPPTRAJ. Raising this issue again. (Thu May 13 2021 - 08:02:05 PDT)
- Re: [AMBER] Amber stuck on Control data for the run (Wed May 12 2021 - 06:47:37 PDT)
- Re: [AMBER] CPPTRAJ nativecontacts (Tue May 11 2021 - 12:21:44 PDT)
- Re: [AMBER] Query regarding density analysis in CPPTRAJ. Raising this issue again. (Tue May 11 2021 - 12:09:03 PDT)
- Re: [AMBER] CPPTRAJ nativecontacts (Mon May 03 2021 - 08:48:13 PDT)
- Re: [AMBER] converting gromacs topology to amber (Mon May 03 2021 - 06:40:40 PDT)
- Re: [AMBER] Distance between nucleotides and amino acids (Mon May 03 2021 - 06:11:58 PDT)
- Re: [AMBER] converting gromacs topology to amber (Mon May 03 2021 - 05:57:36 PDT)
- Re: [AMBER] atom-order problem with prmtop and cpptraj (Mon May 03 2021 - 05:47:16 PDT)
David A Case
- Re: [AMBER] Umbrella sampling (Protein Receptor--ligand) (Sun May 30 2021 - 17:31:59 PDT)
- Re: [AMBER] Error: Could not open file frcmod.ions1lm_126_hfe_opc: not found (Sun May 30 2021 - 05:05:08 PDT)
- Re: [AMBER] Fortran runtime error: (Fri May 28 2021 - 07:12:04 PDT)
- Re: [AMBER] MMGB/PBSA ligand with lone pair (Thu May 27 2021 - 07:12:34 PDT)
- Re: [AMBER] xleap (Thu May 27 2021 - 05:08:45 PDT)
- Re: [AMBER] - Including ion type of interactions in free energy calculation (Wed May 26 2021 - 07:27:44 PDT)
- Re: [AMBER] Umbrella sampling (Wed May 26 2021 - 06:26:59 PDT)
- Re: [AMBER] AMberTools21 installation (Wed May 26 2021 - 06:12:46 PDT)
- Re: [AMBER] Covalent bonds across periodic boundaries supported yet/ever? (Wed May 26 2021 - 06:08:31 PDT)
- [AMBER] test message (Tue May 25 2021 - 05:13:54 PDT)
- [AMBER] Query about AmberTools21 conda distribution (Sat May 22 2021 - 05:08:08 PDT)
- Re: [AMBER] AMBER/EVB (Thu May 20 2021 - 06:25:08 PDT)
- Re: [AMBER] Algorithm Details of Addions/Addions2 (Thu May 20 2021 - 06:15:17 PDT)
- Re: [AMBER] Combining GLYCAM and AMBER/GAFF (Thu May 20 2021 - 06:10:42 PDT)
- Re: [AMBER] Applying change to van der Waals for specific pairs of atom (Thu May 20 2021 - 06:08:06 PDT)
- Re: [AMBER] How do I generate prmtop file for system containing more than 1 ligand? (Wed May 19 2021 - 10:22:23 PDT)
- Re: [AMBER] CMake Error at cmake/jedbrown/FindFFTW.cmake:307 (add_library): (Tue May 18 2021 - 05:32:22 PDT)
- Re: [AMBER] Miniconda pkg install error (Mon May 17 2021 - 05:30:02 PDT)
- Re: [AMBER] Multiple Dihedral Parameters (Sun May 16 2021 - 12:09:44 PDT)
- Re: [AMBER] solvent accessibility (Sat May 15 2021 - 13:00:33 PDT)
- Re: [AMBER] solvent accessibility (Fri May 14 2021 - 18:22:04 PDT)
- Re: [AMBER] Selenomethionine force field parameters (Fri May 14 2021 - 09:01:17 PDT)
- Re: [AMBER] Error running make install (Fri May 14 2021 - 05:33:57 PDT)
- Re: [AMBER] Selenomethionine force field parameters (Thu May 13 2021 - 18:45:09 PDT)
- Re: [AMBER] AmberTools21 cmake build (Thu May 13 2021 - 05:56:02 PDT)
- Re: [AMBER] Error due to faulty Connection atoms (Wed May 12 2021 - 06:11:24 PDT)
- Re: [AMBER] Amber stuck on Control data for the run (Wed May 12 2021 - 06:07:01 PDT)
- Re: [AMBER] MMPBSA.py and rms fit: Results depend on reference frame (Wed May 12 2021 - 06:00:55 PDT)
- Re: [AMBER] Error Installing Amber20 on group's cluster (Wed May 12 2021 - 05:50:35 PDT)
- Re: [AMBER] Keeping input protein hydrogens? (Mon May 10 2021 - 13:58:28 PDT)
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Mon May 10 2021 - 06:06:59 PDT)
- Re: [AMBER] MBAR energies when using soft-core potential in pmemd TI (Mon May 10 2021 - 06:00:31 PDT)
- Re: [AMBER] Query about AmberTools21 conda distribution (Sun May 09 2021 - 12:59:44 PDT)
- Re: [AMBER] Inconsistent results on TI with cpu vs gpu code (Sun May 09 2021 - 12:56:04 PDT)
- Re: [AMBER] Digest of issues installing AMBER21 in Centos 7 (Sun May 09 2021 - 05:46:51 PDT)
- Re: [AMBER] Amber20 CUDA.serial tests comparison failed with gb calculation: differences at e-01 level (Fri May 07 2021 - 05:30:56 PDT)
- Re: [AMBER] 答复: [ambermd.org代发]Re: AMBER20/AMBERTools21 Installation Errors when compiling mpich (Fri May 07 2021 - 05:14:07 PDT)
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Thu May 06 2021 - 05:34:47 PDT)
- Re: [AMBER] AMBER20/AMBERTools21 Installation Errors when compiling mpich (Thu May 06 2021 - 05:14:09 PDT)
- Re: [AMBER] guidance for microsecond long MD simulations (Wed May 05 2021 - 11:42:59 PDT)
- Re: [AMBER] converting gromacs topology to amber (Wed May 05 2021 - 05:04:37 PDT)
- Re: [AMBER] atom-order problem with prmtop and cpptraj (Mon May 03 2021 - 05:26:05 PDT)
- Re: [AMBER] pmemd.cuda fails with "cudaMemcpyToSymbol: SetSim copy to cSim failed invalid device symbol" (Mon May 03 2021 - 05:11:08 PDT)
- Re: [AMBER] Troubleshooting long idle times in pmemd.MPI (Sun May 02 2021 - 05:30:29 PDT)
- Re: [AMBER] Troubleshooting long idle times in pmemd.MPI (Sat May 01 2021 - 10:02:18 PDT)
- Re: [AMBER] Installation Ambertools21 Mac M1 (arm64) (Sat May 01 2021 - 09:51:00 PDT)
- Re: [AMBER] installation of AmberTools 21 (Sat May 01 2021 - 05:40:48 PDT)
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Sat May 01 2021 - 05:25:01 PDT)
- Re: [AMBER] installation of AmberTools 21 (Sat May 01 2021 - 05:20:23 PDT)
Dawid das
- Re: [AMBER] - DFT method for heme QM calculation (Tue May 25 2021 - 06:30:25 PDT)
Dr. Anselm Horn
- Re: [AMBER] Joining two molecules (Tue May 25 2021 - 07:05:45 PDT)
- Re: [AMBER] Problem re. non-integer charge in glycoprotein (Mon May 17 2021 - 03:42:04 PDT)
- Re: [AMBER] differences in counterion position with water models and questions (Mon May 10 2021 - 05:37:52 PDT)
Ephraim Marondedze
- Re: [AMBER] Fortran runtime error: (Fri May 28 2021 - 23:09:03 PDT)
- [AMBER] Fortran runtime error: (Fri May 28 2021 - 01:13:48 PDT)
Fabian Glaser
- [AMBER] distance matrix all atoms (Mon May 24 2021 - 06:59:58 PDT)
Feng Pan
- Re: [AMBER] MULTI_RMSD NFE-Error : Cannot read &colvar namelist! (Sat May 29 2021 - 11:49:09 PDT)
- Re: [AMBER] MULTI_RMSD NFE-Error : Cannot read &colvar namelist! (Fri May 28 2021 - 22:07:57 PDT)
Florian Nachon
- Re: [AMBER] Installation Ambertools21 Mac M1 (arm64) (Sun May 02 2021 - 04:38:41 PDT)
- Re: [AMBER] Installation Ambertools21 Mac M1 (arm64) (Sat May 01 2021 - 05:49:43 PDT)
Francis Acquah
- [AMBER] CPPTRAJ nastruct not recognising G-U wobble base pairs (Thu May 13 2021 - 15:48:36 PDT)
Gargi Bhattacharya
- [AMBER] kindly help with this mmpbsa.py.MPI error (Tue May 25 2021 - 03:44:01 PDT)
Gerald Monard
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Tue May 11 2021 - 17:32:58 PDT)
German P. Barletta
- Re: [AMBER] solvent accessibility (Sat May 15 2021 - 12:41:01 PDT)
Giorgos Lambrinidis
- [AMBER] Inconsistent results on TI with cpu vs gpu code (Sun May 09 2021 - 09:19:12 PDT)
- [AMBER] Inconsistent results on TI with cpu vs gpu code (Wed May 05 2021 - 10:42:58 PDT)
Goetz, Andreas
- [AMBER] Test (Sun May 09 2021 - 18:03:14 PDT)
- Re: [AMBER] Questions about QM/MM simulations (Goetz, Andreas) (Fri May 07 2021 - 12:05:34 PDT)
- Re: [AMBER] Questions about QM/MM simulations (Wed May 05 2021 - 21:40:35 PDT)
Guillem Vila I Julià
- Re: [AMBER] Error due to faulty Connection atoms (Wed May 19 2021 - 06:25:15 PDT)
- [AMBER] Error due to faulty Connection atoms (Mon May 03 2021 - 03:11:25 PDT)
Gustaf Olsson
- Re: [AMBER] Joining two molecules (Mon May 31 2021 - 02:34:18 PDT)
- Re: [AMBER] Joining two molecules (Mon May 31 2021 - 00:37:12 PDT)
- Re: [AMBER] Joining two molecules (Fri May 28 2021 - 02:47:27 PDT)
- Re: [AMBER] Joining two molecules (Fri May 28 2021 - 01:44:19 PDT)
- Re: [AMBER] Joining two molecules (Wed May 26 2021 - 05:44:56 PDT)
- Re: [AMBER] Joining two molecules (Wed May 26 2021 - 02:16:47 PDT)
- Re: [AMBER] Joining two molecules (Wed May 26 2021 - 00:51:26 PDT)
- Re: [AMBER] Joining two molecules (Wed May 26 2021 - 00:49:31 PDT)
- Re: [AMBER] Joining two molecules (Wed May 26 2021 - 00:48:40 PDT)
- [AMBER] Joining two molecules (Tue May 25 2021 - 03:19:30 PDT)
- Re: [AMBER] AMberTools21 installation (Mon May 24 2021 - 02:59:53 PDT)
- Re: [AMBER] AMberTools21 installation (Sun May 23 2021 - 23:33:58 PDT)
- Re: [AMBER] Combining GLYCAM and AMBER/GAFF (Thu May 20 2021 - 23:49:46 PDT)
- [AMBER] Combining GLYCAM and AMBER/GAFF (Tue May 18 2021 - 06:25:30 PDT)
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Mon May 10 2021 - 07:41:35 PDT)
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Mon May 10 2021 - 07:41:18 PDT)
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Mon May 10 2021 - 06:11:25 PDT)
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Mon May 10 2021 - 06:00:47 PDT)
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Mon May 10 2021 - 04:09:27 PDT)
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Mon May 10 2021 - 03:54:50 PDT)
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Thu May 06 2021 - 05:59:00 PDT)
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Thu May 06 2021 - 05:51:29 PDT)
- Re: [AMBER] [EXTERNAL] Release of AmberTools21 (Thu May 06 2021 - 05:10:08 PDT)
Gustavo Seabra
- Re: [AMBER] Mutate double stranded DNA? (Thu May 13 2021 - 11:25:00 PDT)
- [AMBER] Mutate double stranded DNA? (Wed May 12 2021 - 18:01:42 PDT)
H. Kawasaki
- [AMBER] Miniconda pkg install error (Mon May 17 2021 - 00:35:07 PDT)
- [AMBER] AmberTools21 cmake build (Wed May 12 2021 - 23:49:40 PDT)
Hans De Winter
- [AMBER] Restraints and TI in absolute binding free energies (Thu May 20 2021 - 03:39:25 PDT)
Hosein Geraili Daronkola
- [AMBER] MBAR energies when using soft-core potential in pmemd TI (Sun May 09 2021 - 15:15:01 PDT)
Huimin Tian
- [AMBER] Seek a solution for can't generate the mol2 files for the metal site residues (Wed May 26 2021 - 18:33:33 PDT)
Jan Brezovsky
- Re: [AMBER] Query about AmberTools21 conda distribution (Sat May 22 2021 - 08:09:21 PDT)
- [AMBER] Query about AmberTools21 conda distribution (Wed May 05 2021 - 00:52:31 PDT)
Jeffrey Wagner
- Re: [AMBER] Selenomethionine force field parameters (Fri May 14 2021 - 14:05:36 PDT)
- Re: [AMBER] Selenomethionine force field parameters (Fri May 14 2021 - 10:57:18 PDT)
- Re: [AMBER] Selenomethionine force field parameters (Fri May 14 2021 - 07:54:44 PDT)
Jiri Sponer
- Re: [AMBER] stacking interactions represented by force field equation? (Tue May 11 2021 - 10:04:20 PDT)
- Re: [AMBER] stacking interactions represented by force field equation? (Mon May 10 2021 - 09:02:38 PDT)
Joe Leonard
- [AMBER] Compiling Fortran on M1 chipset (Wed May 19 2021 - 10:11:36 PDT)
Katia Galentino
- [AMBER] MMGB/PBSA ligand with lone pair (Thu May 27 2021 - 01:55:37 PDT)
Kellon Belfon
- Re: [AMBER] Selenomethionine force field parameters (Sat May 15 2021 - 15:26:18 PDT)
- Re: [AMBER] Selenomethionine force field parameters (Sat May 15 2021 - 14:23:31 PDT)
- Re: [AMBER] Selenomethionine force field parameters (Sat May 15 2021 - 07:46:26 PDT)
- Re: [AMBER] Selenomethionine force field parameters (Fri May 14 2021 - 11:57:44 PDT)
- Re: [AMBER] Selenomethionine force field parameters (Thu May 13 2021 - 20:35:25 PDT)
- Re: [AMBER] Selenomethionine force field parameters (Thu May 13 2021 - 17:14:55 PDT)
Kevin Keane
- Re: [AMBER] Troubleshooting long idle times in pmemd.MPI (Sat May 01 2021 - 11:42:39 PDT)
Kshatresh Dutta Dubey
- Re: [AMBER] Release of AmberTools21 (Sat May 01 2021 - 04:40:23 PDT)
Lachele Foley
- Re: [AMBER] Combining GLYCAM and AMBER/GAFF (Thu May 20 2021 - 19:32:21 PDT)
Laura SCALVINI
- [AMBER] pmemd.cuda fails with "cudaMemcpyToSymbol: SetSim copy to cSim failed invalid device symbol" (Mon May 03 2021 - 01:08:18 PDT)
Lennart Gundelach
- Re: [AMBER] MMPBSA.py and rms fit: Results depend on reference frame (Thu May 27 2021 - 02:07:15 PDT)
- [AMBER] MMPBSA.py and rms fit: Results depend on reference frame (Wed May 12 2021 - 00:33:55 PDT)
Liao
- Re: [AMBER] Conformation search speed increase with Cartesian restraints (Wed May 19 2021 - 14:02:32 PDT)
- [AMBER] Conformation search speed increase with Cartesian restraints (Tue May 18 2021 - 20:41:58 PDT)
Luis Simon
- Re: [AMBER] MULTI_RMSD NFE-Error : Cannot read &colvar namelist! (Sat May 29 2021 - 05:35:39 PDT)
Mariano Curti
- Re: [AMBER] Mutate double stranded DNA? (Thu May 13 2021 - 00:29:18 PDT)
Mark Fisher
- [AMBER] N6-myristoyl lysine parameters (Tue May 04 2021 - 19:02:39 PDT)
Markus Metz
- [AMBER] Keeping input protein hydrogens? (Mon May 10 2021 - 09:48:36 PDT)
Martin Rosellen
- [AMBER] stacking interactions represented by force field equation? (Mon May 10 2021 - 07:31:31 PDT)
Matias Machado
- Re: [AMBER] Covalent bonds across periodic boundaries supported yet/ever? (Wed May 26 2021 - 13:14:38 PDT)
- Re: [AMBER] Amber stuck on Control data for the run (Wed May 12 2021 - 07:00:41 PDT)
- Re: [AMBER] stacking interactions represented by force field equation? (Tue May 11 2021 - 08:40:20 PDT)
- Re: [AMBER] Avoiding steric snafus with protein mutations in tleap? (Sat May 08 2021 - 11:15:29 PDT)
Matthew Guberman-Pfeffer
- Re: [AMBER] DFT method for heme QM calculationPranita, (Tue May 25 2021 - 12:26:21 PDT)
Min Chiang Gary Ong
- [AMBER] How do I generate prmtop file for system containing more than 1 ligand? (Wed May 19 2021 - 06:24:13 PDT)
- Re: [AMBER] Error Installing Amber20 on group's cluster (Wed May 12 2021 - 08:11:17 PDT)
- [AMBER] Error Installing Amber20 on group's cluster (Tue May 11 2021 - 19:58:04 PDT)
Neha Gandhi
- Re: [AMBER] AMberTools21 installation (Mon May 24 2021 - 02:39:55 PDT)
- [AMBER] AMberTools21 installation (Fri May 21 2021 - 23:40:34 PDT)
Niel Henriksen
- Re: [AMBER] APR- Umbrella sampling of Receptor- ligand complex (Mon May 31 2021 - 20:37:49 PDT)
Patil Pranita Uttamrao
- [AMBER] Regarding the forcefield parameters for cytochrome P450 heme group (Fri May 28 2021 - 12:39:00 PDT)
- [AMBER] - DFT method for heme QM calculation (Tue May 25 2021 - 01:46:13 PDT)
- [AMBER] - Including ion type of interactions in free energy calculation (Mon May 24 2021 - 22:34:20 PDT)
Qinghua Liao
- Re: [AMBER] installation of AmberTools 21 (Sun May 02 2021 - 06:45:59 PDT)
- Re: [AMBER] installation of AmberTools 21 (Fri Apr 30 2021 - 16:35:23 PDT)
Rafał Madaj
- Re: [AMBER] Selenomethionine force field parameters (Sat May 15 2021 - 15:05:54 PDT)
- Re: [AMBER] Selenomethionine force field parameters (Fri May 14 2021 - 23:58:26 PDT)
- [AMBER] Selenomethionine force field parameters (Thu May 13 2021 - 10:50:25 PDT)
RAJAS MALLENAHALLI RAO
- Re: [AMBER] Problem re. non-integer charge in glycoprotein (Mon May 17 2021 - 05:23:36 PDT)
- [AMBER] Problem re. non-integer charge in glycoprotein (Fri May 14 2021 - 09:24:07 PDT)
Rana Rehan Khalid
- [AMBER] APR- Umbrella sampling of Receptor- ligand complex (Sun May 30 2021 - 12:38:54 PDT)
- [AMBER] Umbrella sampling (Protein Receptor--ligand) (Sat May 29 2021 - 14:44:39 PDT)
- [AMBER] Umbrella Sampling error (Wed May 26 2021 - 14:56:12 PDT)
- [AMBER] ligand receptor dissociation study (Wed May 26 2021 - 09:23:04 PDT)
- [AMBER] Umbrella sampling (Tue May 25 2021 - 15:00:35 PDT)
- Re: [AMBER] Residue-Ligand binding free energy calculations (Mon May 24 2021 - 10:26:13 PDT)
- [AMBER] Residue-Ligand binding free energy calculations (Mon May 24 2021 - 10:16:05 PDT)
Ray Luo
- Re: [AMBER] polarizable FF in amber18 or 20 (Mon May 03 2021 - 10:11:36 PDT)
- Re: [AMBER] polarizable FF in amber18 or 20 (Sat May 01 2021 - 12:14:51 PDT)
Richard Kullmann
- Re: [AMBER] CPPTRAJ nativecontacts (Mon May 10 2021 - 06:29:46 PDT)
- [AMBER] CPPTRAJ nativecontacts (Mon May 03 2021 - 07:28:36 PDT)
Robert Molt
- Re: [AMBER] DFT method for heme QM calculationPranita, (Tue May 25 2021 - 12:51:46 PDT)
- [AMBER] Algorithm Details of Addions/Addions2 (Mon May 17 2021 - 09:12:37 PDT)
Rodrigo da Silva Bitzer
- Re: [AMBER] Error running make install (Fri May 14 2021 - 14:24:37 PDT)
- [AMBER] Error running make install (Thu May 13 2021 - 13:33:29 PDT)
Rudy Richardson
- Re: [AMBER] installation of AmberTools 21 (Sat May 01 2021 - 05:55:50 PDT)
- Re: [AMBER] installation of AmberTools 21 (Sat May 01 2021 - 05:26:18 PDT)
Sadaf Rani
- [AMBER] understanding DSSP outout (Thu May 06 2021 - 23:53:06 PDT)
Scott Brozell
- Re: [AMBER] trpcage benchmark: reduce 32x or dimerize ? (Tue May 04 2021 - 12:37:05 PDT)
Smith, Richard
- [AMBER] Applying change to van der Waals for specific pairs of atom (Tue May 18 2021 - 13:43:51 PDT)
Song, Lin
- Re: [AMBER] ligand receptor dissociation study (Wed May 26 2021 - 09:39:04 PDT)
- Re: [AMBER] Applying change to van der Waals for specific pairs of atom (Wed May 19 2021 - 15:03:55 PDT)
Soumyajit Karmakar
- [AMBER] Difficulty in doing umbrella sampling using LCOD method (Thu May 06 2021 - 08:21:19 PDT)
Sruthi Sudhakar
- [AMBER] Error in pca analysis (Mon May 31 2021 - 10:21:31 PDT)
- [AMBER] Clustering getting killed (Sat May 22 2021 - 06:43:09 PDT)
Thomas Cheatham
- Re: [AMBER] Covalent bonds across periodic boundaries supported yet/ever? (Wed May 26 2021 - 13:27:16 PDT)
- Re: [AMBER] Umbrella sampling (Wed May 26 2021 - 10:28:24 PDT)
Thomas Fox
- [AMBER] Effect of noisy force calculations (Wed May 12 2021 - 06:49:48 PDT)
Tucker Burgin
- [AMBER] Covalent bonds across periodic boundaries supported yet/ever? (Thu May 20 2021 - 08:58:59 PDT)
- [AMBER] Avoiding steric snafus with protein mutations in tleap? (Fri May 07 2021 - 08:36:52 PDT)
Vaibhav Dixit
- Re: [AMBER] Regarding the forcefield parameters for cytochrome P450 heme group (Fri May 28 2021 - 22:21:01 PDT)
- Re: [AMBER] differences in counterion position with water models and questions (Wed May 12 2021 - 09:20:40 PDT)
- [AMBER] differences in counterion position with water models and questions (Thu May 06 2021 - 23:07:13 PDT)
- [AMBER] guidance for microsecond long MD simulations (Wed May 05 2021 - 10:10:24 PDT)
- Re: [AMBER] polarizable FF in amber18 or 20 (Mon May 03 2021 - 11:02:43 PDT)
- Re: [AMBER] atom-order problem with prmtop and cpptraj (Mon May 03 2021 - 05:39:09 PDT)
- Re: [AMBER] atom-order problem with prmtop and cpptraj (Mon May 03 2021 - 05:18:21 PDT)
- [AMBER] atom-order problem with prmtop and cpptraj (Mon May 03 2021 - 01:16:13 PDT)
- Re: [AMBER] polarizable FF in amber18 or 20 (Sat May 01 2021 - 23:35:25 PDT)
Victoria E Hill
- [AMBER] Amber stuck on Control data for the run (Wed May 12 2021 - 03:11:49 PDT)
Vlad Cojocaru
- Re: [AMBER] Mutate double stranded DNA? (Fri May 14 2021 - 09:03:41 PDT)
- Re: [AMBER] Mutate double stranded DNA? (Thu May 13 2021 - 03:45:46 PDT)
xichen li
- Re: [AMBER] New In CPPTRAJ (May 2021) (Fri May 14 2021 - 02:37:30 PDT)
Ye Mei
- [AMBER] A bug in PMEMD which may cause aray (ti_dvdl_values) index out-of-boundary error (Thu May 27 2021 - 17:54:46 PDT)
Yogeshwaran Krishnan
- [AMBER] FEW MMGBSA calculation (Tue May 11 2021 - 02:10:15 PDT)
- [AMBER] MMPBSA calculation error (Tue May 04 2021 - 05:09:25 PDT)
Yoshitaka Moriwaki
- Re: [AMBER] Installation Ambertools21 Mac M1 (arm64) (Sun May 02 2021 - 00:04:50 PDT)
刘为
- [AMBER] How to calculate the contribution to protein-protein aggregation from hydrophobic interactions ? (Thu May 13 2021 - 06:05:05 PDT)
周丽萍
- [AMBER] MMGBSA using charmm36 force field-- positive value (Sun May 16 2021 - 18:21:39 PDT)
石谷沁
- [AMBER] Surprisingly Poor Performance of Quadro RTX5000 -- Any Ideas on Reasons... (Sun May 16 2021 - 18:53:56 PDT)
- [AMBER] 答复: [ambermd.org代发]Re: Amber20 CUDA.serial tests comparison failed with gb calculation: differences at e-01 level (Fri May 07 2021 - 20:03:25 PDT)
- [AMBER] Amber20 CUDA.serial tests comparison failed with gb calculation: differences at e-01 level (Fri May 07 2021 - 02:19:24 PDT)
- Re: [AMBER] [ambermd.org代发]Re: AMBER20/AMBERTools21 Installation Errors when compiling mpich (Fri May 07 2021 - 01:53:34 PDT)
- [AMBER] 答复: [ambermd.org代发]Re: AMBER20/AMBERTools21 Installation Errors when compiling mpich (Thu May 06 2021 - 17:49:21 PDT)
- Re: [AMBER] [ambermd.org代发]Re: AMBER20/AMBERTools21 Installation Errors when compiling mpich (Thu May 06 2021 - 06:40:12 PDT)
- [AMBER] AMBER20/AMBERTools21 Installation Errors when compiling mpich (Thu May 06 2021 - 00:56:19 PDT)
马芳芳
- Re: [AMBER] Questions about QM/MM simulations (Goetz, Andreas) (Fri May 07 2021 - 01:48:21 PDT)
- [AMBER] Questions about QM/MM simulations (Wed May 05 2021 - 18:55:39 PDT)

Amber Archive May 2021 by author