Amber Archive Mar 2018: by subject

[AMBER] 3D-RISM solvation free energy of a molecule in an organic solvent (not water)
- Smith, Micholas D. (Mon Mar 19 2018 - 10:59:09 PDT)
- Tyler Luchko (Lists) (Mon Mar 19 2018 - 10:53:36 PDT)
- Smith, Micholas D. (Mon Mar 19 2018 - 07:40:12 PDT)
[AMBER] ABMD write error to MDOUT
- Hugo Macdermott-Opeskin (Wed Feb 28 2018 - 20:28:49 PST)
[AMBER] Accelerated MD - Please advice
- maryam azimzadehirani (Thu Mar 22 2018 - 07:41:41 PDT)
[AMBER] Additional Ph.D. and Post-doc positions in MD simulations of enzymes
- Jan Brezovsky (Mon Mar 05 2018 - 09:04:16 PST)
[AMBER] After running MD, the number of atom in mdcrd file becomes 0
- Gu, Wenze (Sun Mar 04 2018 - 07:45:20 PST)
- David A Case (Sat Mar 03 2018 - 14:07:35 PST)
- Gu, Wenze (Sat Mar 03 2018 - 06:57:22 PST)
- koushik kasavajhala (Fri Mar 02 2018 - 14:57:50 PST)
- Carlos Simmerling (Fri Mar 02 2018 - 14:51:06 PST)
- Gu, Wenze (Thu Mar 01 2018 - 16:20:21 PST)
- Carlos Simmerling (Thu Mar 01 2018 - 16:02:45 PST)
- Carlos Simmerling (Thu Mar 01 2018 - 16:02:16 PST)
- Gu, Wenze (Thu Mar 01 2018 - 15:43:56 PST)
- Carlos Simmerling (Thu Mar 01 2018 - 11:37:46 PST)
- Gu, Wenze (Thu Mar 01 2018 - 11:16:09 PST)
[AMBER] AMBER qualitatively compared to other packages
- George M. Giambasu (Wed Mar 28 2018 - 06:35:21 PDT)
- Thomas Evangelidis (Wed Mar 28 2018 - 04:38:44 PDT)
- David A Case (Tue Mar 27 2018 - 06:53:51 PDT)
- Dmitry Suplatov (Fri Mar 23 2018 - 04:24:37 PDT)
[AMBER] AMBER/ORCA for QM/MM
- minyuan.mail.ustc.edu.cn (Sun Mar 04 2018 - 04:18:38 PST)
- Goetz, Andreas (Sat Mar 03 2018 - 19:35:30 PST)
- minyuan.mail.ustc.edu.cn (Sat Mar 03 2018 - 16:53:58 PST)
- Goetz, Andreas (Fri Mar 02 2018 - 23:29:31 PST)
- MinYuan (Fri Mar 02 2018 - 02:22:38 PST)
- Goetz, Andreas (Thu Mar 01 2018 - 18:04:23 PST)
- MinYuan (Thu Mar 01 2018 - 17:13:59 PST)
- Goetz, Andreas (Thu Mar 01 2018 - 03:02:35 PST)
- Charles-Alexandre Mattelaer (Thu Mar 01 2018 - 01:54:03 PST)
- minyuan.mail.ustc.edu.cn (Thu Mar 01 2018 - 01:45:40 PST)
- Goetz, Andreas (Thu Mar 01 2018 - 00:25:54 PST)
- minyuan.mail.ustc.edu.cn (Thu Mar 01 2018 - 00:09:39 PST)
- Goetz, Andreas (Wed Feb 28 2018 - 20:10:34 PST)
- minyuan.mail.ustc.edu.cn (Wed Feb 28 2018 - 19:23:16 PST)
[AMBER] amber16 sander can't read the box information from restart file
- David A Case (Wed Mar 07 2018 - 05:47:41 PST)
[AMBER] Amber16/AmberTools17 CUDA version
- David A Case (Mon Mar 05 2018 - 05:17:28 PST)
[AMBER] Calculate water density in the protein water channel by Amber 16
- 张玥 (Mon Mar 26 2018 - 22:52:22 PDT)
- 张玥 (Mon Mar 26 2018 - 06:20:26 PDT)
[AMBER] Calculating ligand contribution is failing- MMPBSA method
- George Tzotzos (Tue Mar 27 2018 - 03:15:05 PDT)
- varun dewaker (Sun Mar 25 2018 - 22:20:24 PDT)
[AMBER] Can I include Mg ions in receptor mask when using MMPBSA.py
- Pengfei Li (Mon Mar 19 2018 - 16:08:30 PDT)
- Pengfei Li (Mon Mar 19 2018 - 15:29:59 PDT)
[AMBER] can't compile
- Daniel Roe (Wed Mar 07 2018 - 07:20:35 PST)
- Ryan Richter (Wed Mar 07 2018 - 07:02:05 PST)
[AMBER] center of mass restraint in pmemd.cuda
- Feng Pan (Mon Mar 26 2018 - 12:35:39 PDT)
- Rajarshi Roy (Wed Mar 21 2018 - 04:41:17 PDT)
- Rajarshi Roy (Tue Mar 20 2018 - 20:54:15 PDT)
- Feng Pan (Tue Mar 20 2018 - 20:41:50 PDT)
- Rajarshi Roy (Tue Mar 20 2018 - 20:39:05 PDT)
- Feng Pan (Tue Mar 20 2018 - 18:44:30 PDT)
- Rajarshi Roy (Tue Mar 20 2018 - 18:34:08 PDT)
- Feng Pan (Tue Mar 20 2018 - 14:46:49 PDT)
- Rajarshi Roy (Tue Mar 20 2018 - 08:15:25 PDT)
- Ross Walker (Tue Mar 20 2018 - 07:42:42 PDT)
- Rajarshi Roy (Mon Mar 19 2018 - 03:39:57 PDT)
- David A Case (Sun Mar 18 2018 - 11:52:25 PDT)
- Rajarshi Roy (Thu Mar 15 2018 - 03:07:49 PDT)
[AMBER] constant pH simulations pemed.cuda
- Eric Lang (Thu Mar 08 2018 - 08:19:10 PST)
- Cruzeiro,Vinicius Wilian D (Thu Mar 08 2018 - 08:13:43 PST)
- Jacopo Sgrignani (Thu Mar 08 2018 - 07:50:53 PST)
- Cruzeiro,Vinicius Wilian D (Thu Mar 08 2018 - 07:48:02 PST)
- Jacopo Sgrignani (Thu Mar 08 2018 - 07:45:53 PST)
[AMBER] Convertion between Gaussian and Gaff ANGULAR Force Constant Units
- micheal lop (Thu Mar 15 2018 - 09:43:15 PDT)
[AMBER] Count water in active site
- Lizelle Lubbe (Thu Mar 15 2018 - 06:22:57 PDT)
[AMBER] cpptraj mask for hbond analysis
- Daniel Roe (Fri Mar 30 2018 - 12:00:15 PDT)
- David A Case (Fri Mar 30 2018 - 11:58:07 PDT)
- Michael Yonkunas (Fri Mar 30 2018 - 09:09:27 PDT)
[AMBER] created a new atom named (is an error or we can ignore it)
- Rana Rehan Khalid (Sat Mar 03 2018 - 14:47:11 PST)
- David A Case (Sat Mar 03 2018 - 14:25:37 PST)
- Rana Rehan Khalid (Sat Mar 03 2018 - 09:56:12 PST)
- Carlos Simmerling (Sat Mar 03 2018 - 04:27:35 PST)
- Rana Rehan Khalid (Sat Mar 03 2018 - 02:43:16 PST)
[AMBER] Created a new atom named:
- Carlos Simmerling (Sat Mar 03 2018 - 06:57:27 PST)
- Rana Rehan Khalid (Sat Mar 03 2018 - 06:40:15 PST)
- Carlos Simmerling (Sat Mar 03 2018 - 06:27:58 PST)
- Rana Rehan Khalid (Sat Mar 03 2018 - 06:23:22 PST)
[AMBER] Creating gaff-suitable PDB file for SO2
- M Conte (Mon Mar 05 2018 - 23:27:39 PST)
- David A Case (Mon Mar 05 2018 - 05:13:25 PST)
- M Conte (Wed Feb 28 2018 - 22:24:30 PST)
[AMBER] CUDA (GPU): Implementation does not currently support the use of COM simulations.Require iat(1) >= 0.
- Ross Walker (Sat Mar 31 2018 - 06:06:05 PDT)
- rabi1993.iitg.ernet.in (Fri Mar 30 2018 - 22:03:23 PDT)
[AMBER] disulfide bridge -reg
- Jeyaram R A (Mon Mar 05 2018 - 21:56:51 PST)
- David A Case (Mon Mar 05 2018 - 05:00:46 PST)
- Abdul-Rashid III Sampaco (Mon Mar 05 2018 - 01:58:55 PST)
- Jeyaram R A (Mon Mar 05 2018 - 01:46:14 PST)
[AMBER] Energy Calculations in Amber
- David A Case (Mon Mar 05 2018 - 05:04:30 PST)
- minyuan.mail.ustc.edu.cn (Sun Mar 04 2018 - 06:10:54 PST)
[AMBER] ERROR TUTORIAL AMBER - creating PDB files from the AMBER coordinate files
- Edjan Silva (Fri Mar 23 2018 - 22:47:14 PDT)
- Yuliana Bosken (Fri Mar 23 2018 - 15:41:52 PDT)
- Edjan Silva (Fri Mar 23 2018 - 10:16:30 PDT)
[AMBER] error while installing AMBER for GPU
- malkeet singh Bahia (Tue Mar 20 2018 - 07:51:30 PDT)
- Ross Walker (Tue Mar 20 2018 - 07:46:36 PDT)
- malkeet singh Bahia (Mon Mar 19 2018 - 11:14:23 PDT)
- malkeet singh Bahia (Mon Mar 19 2018 - 11:11:23 PDT)
- David A Case (Wed Mar 14 2018 - 13:07:36 PDT)
- David A Case (Wed Mar 14 2018 - 13:01:57 PDT)
- malkeet singh Bahia (Wed Mar 14 2018 - 11:59:46 PDT)
- malkeet singh Bahia (Wed Mar 14 2018 - 11:47:51 PDT)
- Roitberg,Adrian E (Wed Mar 14 2018 - 11:15:36 PDT)
- malkeet singh Bahia (Wed Mar 14 2018 - 11:10:45 PDT)
- malkeet singh Bahia (Wed Mar 14 2018 - 11:08:59 PDT)
- Dr. M. Shahid (Wed Mar 14 2018 - 08:49:29 PDT)
- malkeet singh Bahia (Wed Mar 14 2018 - 07:53:09 PDT)
- malkeet singh Bahia (Tue Mar 13 2018 - 11:31:15 PDT)
- malkeet singh Bahia (Tue Mar 13 2018 - 11:28:15 PDT)
- malkeet singh Bahia (Tue Mar 13 2018 - 11:08:29 PDT)
- Daniel Roe (Tue Mar 13 2018 - 09:34:30 PDT)
- malkeet singh Bahia (Tue Mar 13 2018 - 09:14:47 PDT)
- David A Case (Mon Mar 12 2018 - 10:24:15 PDT)
- David A Case (Mon Mar 12 2018 - 10:22:33 PDT)
- malkeet singh Bahia (Mon Mar 12 2018 - 07:59:33 PDT)
[AMBER] FE atom in PARMCHK.DAT file
- David A Case (Wed Mar 21 2018 - 07:32:20 PDT)
[AMBER] Force Fields and Water Models
- Vlad Cojocaru (Wed Mar 07 2018 - 03:17:54 PST)
- meryem m'hachi (Wed Mar 07 2018 - 02:08:07 PST)
[AMBER] force-filed parametrization for dichloromethane
- David A Case (Fri Mar 23 2018 - 04:43:27 PDT)
- daniele selli (Wed Mar 21 2018 - 02:27:08 PDT)
[AMBER] Fwd: ACS COMP Boston awards deadline set
- Carlos Simmerling (Tue Mar 13 2018 - 12:00:21 PDT)
[AMBER] Fwd: error while installing AMBER for GPU
- Maciej Maciejczyk (Tue Mar 20 2018 - 05:15:36 PDT)
- David A Case (Tue Mar 20 2018 - 05:04:09 PDT)
- malkeet singh Bahia (Tue Mar 20 2018 - 03:13:47 PDT)
- Luka Bilić (Tue Mar 20 2018 - 00:12:36 PDT)
- malkeet singh Bahia (Mon Mar 19 2018 - 23:29:40 PDT)
[AMBER] generating solvated Fe2+
- Pengfei Li (Mon Mar 26 2018 - 09:30:56 PDT)
- Thomas Pochapsky (Thu Mar 22 2018 - 12:48:53 PDT)
[AMBER] Help with mdcrd in VMD
- Vikram Dalal (Sat Mar 31 2018 - 10:16:49 PDT)
[AMBER] Help With tinker_to_amber
- Angelo Rossi (Sun Mar 11 2018 - 14:48:15 PDT)
- David A Case (Sat Mar 10 2018 - 12:57:07 PST)
- Angelo Rossi (Sat Mar 10 2018 - 10:49:03 PST)
[AMBER] How to Convert gaussian force constant to Gaff?
- Pengfei Li (Tue Mar 20 2018 - 06:14:03 PDT)
- Hector A. Baldoni (Mon Mar 19 2018 - 18:44:54 PDT)
- Pengfei Li (Mon Mar 19 2018 - 15:52:13 PDT)
- Pengfei Li (Mon Mar 19 2018 - 15:43:30 PDT)
- Barış Kurt (Fri Mar 09 2018 - 08:02:05 PST)
[AMBER] How to Develop New Amber ForceField For Borons
- FyD (Thu Mar 08 2018 - 11:14:44 PST)
- David Cerutti (Thu Mar 08 2018 - 09:40:10 PST)
- Barış Kurt (Thu Mar 08 2018 - 05:58:25 PST)
- FyD (Sat Mar 03 2018 - 22:44:48 PST)
- David A Case (Sat Mar 03 2018 - 14:14:26 PST)
- Barış Kurt (Sat Mar 03 2018 - 08:00:20 PST)
[AMBER] How to generate parameters for two MG 2+ ions ---GTP
- Rana Rehan Khalid (Thu Mar 01 2018 - 08:09:52 PST)
[AMBER] Inconsistency with the number of counter ions required for neutralization
- maryam azimzadehirani (Mon Mar 19 2018 - 07:48:16 PDT)
- David A Case (Mon Mar 19 2018 - 05:07:34 PDT)
- maryam azimzadehirani (Mon Mar 19 2018 - 04:01:35 PDT)
[AMBER] Lennard Jones 12-6-4 with Multiple Ion Types
- Pengfei Li (Mon Mar 19 2018 - 16:03:36 PDT)
- Jason Swails (Sun Mar 18 2018 - 15:07:13 PDT)
- Seitz, Anthony Joseph (Fri Mar 09 2018 - 11:28:19 PST)
[AMBER] MacOS pmemd.cuda
- David Cerutti (Thu Mar 29 2018 - 12:54:34 PDT)
- Kadir Ozcan (Thu Mar 29 2018 - 12:21:22 PDT)
[AMBER] MCPB.py
- Pengfei Li (Tue Mar 27 2018 - 14:13:27 PDT)
- Thakur, Abhishek (Mon Mar 26 2018 - 09:39:25 PDT)
- Pengfei Li (Mon Mar 26 2018 - 09:24:03 PDT)
- Thakur, Abhishek (Thu Mar 22 2018 - 12:12:54 PDT)
[AMBER] MM-GBSA for membrane protein
- jixiaofeng (Wed Mar 21 2018 - 18:59:02 PDT)
[AMBER] mm_pbsa.pl error
- Wu Xu (Sun Mar 04 2018 - 16:25:47 PST)
- David A Case (Sat Mar 03 2018 - 14:21:38 PST)
- Wu Xu (Sat Mar 03 2018 - 10:01:16 PST)
- liu junjun (Sat Mar 03 2018 - 08:17:21 PST)
- Wu Xu (Sat Mar 03 2018 - 08:08:26 PST)
[AMBER] Need advice with GPU choice.
- Setyanto Md (Sat Mar 31 2018 - 01:54:08 PDT)
[AMBER] NFE, PMD, and MULTI_RMSD questions
- Feng Pan (Wed Mar 14 2018 - 11:31:32 PDT)
- Russell Davidson (Tue Mar 13 2018 - 16:26:53 PDT)
[AMBER] Normal Mode Analysis - output from nmode?
- David A Case (Sun Mar 25 2018 - 08:13:41 PDT)
- Robert DeLisle (Sat Mar 24 2018 - 10:42:51 PDT)
[AMBER] Normal Mode Analysis in Amber
- Robert DeLisle (Thu Mar 22 2018 - 07:59:25 PDT)
- David A Case (Thu Mar 22 2018 - 05:30:41 PDT)
- Robert DeLisle (Wed Mar 21 2018 - 19:59:24 PDT)
[AMBER] PB Bomb in pb_aaradi(): No radius assigned for atom 7 CB 3C
- Ray Luo (Thu Mar 01 2018 - 16:56:52 PST)
- Morrow,John Kenneth (Thu Mar 01 2018 - 14:15:24 PST)
[AMBER] Penalty score
- Henrik Hariman (Sun Mar 04 2018 - 07:15:18 PST)
- David A Case (Sat Mar 03 2018 - 14:29:40 PST)
- Henrik Hariman (Sat Mar 03 2018 - 11:24:34 PST)
[AMBER] peptide and bilayer membrane simulations
- Chetna Tyagi (Wed Mar 28 2018 - 08:54:51 PDT)
- David A Case (Wed Mar 28 2018 - 06:56:07 PDT)
- Chetna Tyagi (Wed Mar 28 2018 - 02:46:39 PDT)
- Beale, John (Wed Mar 28 2018 - 02:41:50 PDT)
- Chetna Tyagi (Wed Mar 28 2018 - 02:30:27 PDT)
[AMBER] PMEMD error: "Increase lin__limit in nb_pairlist.F90!!!"
- Colin Brown (Wed Mar 21 2018 - 07:42:01 PDT)
[AMBER] pmemd.MPI with a single-entry group file?
- Kevin Keane (Thu Mar 22 2018 - 20:30:02 PDT)
- David A Case (Thu Mar 22 2018 - 18:52:30 PDT)
- Kevin Keane (Thu Mar 22 2018 - 16:12:25 PDT)
[AMBER] Position of amino acid from surface
- roja rahmani (Sat Mar 24 2018 - 05:21:46 PDT)
[AMBER] prep to mol2 conversion
- Rana Rehan Khalid (Thu Mar 22 2018 - 07:11:15 PDT)
- Rana Rehan Khalid (Thu Mar 22 2018 - 06:12:05 PDT)
- Rana Rehan Khalid (Thu Mar 22 2018 - 05:55:42 PDT)
- David A Case (Thu Mar 22 2018 - 05:34:39 PDT)
- Rana Rehan Khalid (Thu Mar 22 2018 - 04:45:03 PDT)
[AMBER] Problem with cphstat
- Tasneem Kausar (Mon Mar 12 2018 - 09:12:09 PDT)
- Eric Lang (Mon Mar 12 2018 - 08:33:03 PDT)
- Tasneem Kausar (Mon Mar 12 2018 - 07:53:28 PDT)
- Eric Lang (Mon Mar 12 2018 - 05:14:15 PDT)
- Tasneem Kausar (Sun Mar 11 2018 - 22:29:49 PDT)
[AMBER] Problems with creating prmtop file from Charmm-GUI generated membrane system
- Chetna Tyagi (Fri Mar 23 2018 - 03:55:00 PDT)
[AMBER] pysmst code
- David A Case (Thu Mar 22 2018 - 05:21:00 PDT)
[AMBER] QM/MM with Orca: selected input parameters not taken into account
- Ruth Helena Tichauer (Mon Mar 12 2018 - 03:51:51 PDT)
- Ruth Helena Tichauer (Fri Mar 09 2018 - 00:44:28 PST)
- Ruth Helena Tichauer (Thu Mar 08 2018 - 14:11:55 PST)
- Goetz, Andreas (Thu Mar 08 2018 - 12:01:57 PST)
- James Kress (Thu Mar 08 2018 - 09:03:15 PST)
- Ruth Helena Tichauer (Thu Mar 08 2018 - 01:54:35 PST)
[AMBER] Query for force field parameters of 'R' and 'S' enantiomers
- rabi1993.iitg.ernet.in (Fri Mar 30 2018 - 22:05:17 PDT)
[AMBER] Query regarding minimization
- Rakesh Srivastava (Thu Mar 15 2018 - 05:17:24 PDT)
- David A Case (Thu Mar 15 2018 - 04:50:02 PDT)
- Rakesh Srivastava (Thu Mar 15 2018 - 00:37:44 PDT)
[AMBER] Question about Parmbsc1 Force Field
- David A Case (Sat Mar 03 2018 - 05:59:36 PST)
- Dan Gil (Fri Mar 02 2018 - 08:11:30 PST)
- Vlad Cojocaru (Fri Mar 02 2018 - 07:44:21 PST)
- Dan Gil (Fri Mar 02 2018 - 07:24:45 PST)
- Dan Gil (Thu Mar 01 2018 - 11:38:39 PST)
- ABEL Stephane (Thu Mar 01 2018 - 08:32:54 PST)
- Vlad Cojocaru (Thu Mar 01 2018 - 08:09:35 PST)
- Dan Gil (Thu Mar 01 2018 - 07:09:53 PST)
[AMBER] Question about using cpptraj - Script
- Daniel Roe (Thu Mar 01 2018 - 03:30:53 PST)
[AMBER] radial distribution function results
- Lizelle Lubbe (Tue Mar 13 2018 - 12:16:17 PDT)
- Daniel Roe (Tue Mar 13 2018 - 10:44:04 PDT)
- Lizelle Lubbe (Thu Mar 08 2018 - 09:52:45 PST)
[AMBER] Random seed reproducibility
- Daniel Roe (Thu Mar 29 2018 - 06:17:41 PDT)
- Sergey Samsonov (Thu Mar 29 2018 - 01:32:04 PDT)
[AMBER] Reaction Coordinate that is the Difference of two Distances
- diego.soler.uam.es (Wed Mar 14 2018 - 09:19:21 PDT)
- Ruth Helena Tichauer (Wed Mar 14 2018 - 08:40:23 PDT)
- diego.soler.uam.es (Wed Mar 14 2018 - 08:24:01 PDT)
[AMBER] reaidt.f problem
- Premila Samuel Mohan Dass (Sun Mar 04 2018 - 12:54:10 PST)
- Premila Samuel Mohan Dass (Sun Mar 04 2018 - 12:26:52 PST)
- Barış Kurt (Sun Mar 04 2018 - 12:19:12 PST)
- Barış Kurt (Sun Mar 04 2018 - 12:11:35 PST)
- David A Case (Sun Mar 04 2018 - 05:41:43 PST)
- Barış Kurt (Sat Mar 03 2018 - 14:50:40 PST)
[AMBER] Regarding PLP and Lys parameter
- David A Case (Fri Mar 09 2018 - 05:06:58 PST)
- Aashish Bhatt (Thu Mar 08 2018 - 06:38:57 PST)
- Aashish Bhatt (Sat Mar 03 2018 - 03:35:05 PST)
[AMBER] Replica Exchange Cut > 999.0 - Necessitates Very Large Water Box?
- Carlos Simmerling (Fri Mar 02 2018 - 14:49:41 PST)
- Jason Ku Wang (Fri Mar 02 2018 - 14:42:31 PST)
[AMBER] restraintmask, error in reading namelist cntrl
- Nikolay N. Kuzmich (Mon Mar 19 2018 - 02:14:17 PDT)
- David A Case (Sat Mar 17 2018 - 06:28:30 PDT)
- Nikolay N. Kuzmich (Fri Mar 16 2018 - 08:53:38 PDT)
- David A Case (Wed Mar 14 2018 - 13:09:39 PDT)
- Dr. M. Shahid (Wed Mar 14 2018 - 08:51:25 PDT)
- Nikolay N. Kuzmich (Wed Mar 14 2018 - 08:10:37 PDT)
[AMBER] Resume AMD simulation
- Rosellen, Martin (Wed Mar 21 2018 - 06:24:35 PDT)
[AMBER] RMSD of individual sub unit of a protein complex.
- David A Case (Tue Mar 27 2018 - 15:15:14 PDT)
- Jag Silwal (Tue Mar 27 2018 - 14:40:20 PDT)
[AMBER] Selection of interactions that persisted for over 75% of MD time
- Manivel Panneerselvam (Mon Mar 26 2018 - 22:39:30 PDT)
[AMBER] Simulation does not restart from restart file written in previous step.
- Abhilash J (Thu Mar 08 2018 - 04:31:25 PST)
- David A Case (Wed Mar 07 2018 - 05:52:36 PST)
- Abhilash J (Wed Mar 07 2018 - 02:37:22 PST)
- Ruchika Bhat (Tue Mar 06 2018 - 23:13:49 PST)
- David A Case (Tue Mar 06 2018 - 15:53:39 PST)
- Abhilash J (Tue Mar 06 2018 - 05:53:01 PST)
[AMBER] Slab of water
- M Conte (Mon Mar 05 2018 - 15:28:18 PST)
[AMBER] Sudden termination of the heating simulation with sander.MPI
- Nikolay N. Kuzmich (Thu Mar 22 2018 - 08:42:47 PDT)
- Carlos Simmerling (Wed Mar 21 2018 - 05:52:51 PDT)
- malkeet singh Bahia (Wed Mar 21 2018 - 05:47:44 PDT)
- Nikolay N. Kuzmich (Wed Mar 21 2018 - 05:24:44 PDT)
[AMBER] Suitability of amber force fields for very low temperature MD simulations?
- Andreas Tosstorff (Sun Mar 11 2018 - 00:31:45 PST)
- David A Case (Thu Mar 08 2018 - 11:10:56 PST)
- Carolin Berner (Wed Mar 07 2018 - 06:28:43 PST)
[AMBER] Temperature-Based Replica Exchange: Number of Replicas
- Chris Neale (Wed Mar 21 2018 - 19:40:58 PDT)
- Cruzeiro,Vinicius Wilian D (Wed Mar 21 2018 - 16:37:47 PDT)
- Jason Ku Wang (Wed Mar 21 2018 - 16:15:12 PDT)
[AMBER] TI simulation with a solvateCap: vlimit exceeded for step
- David A Case (Sun Mar 18 2018 - 12:00:28 PDT)
- Meiting Wang (Tue Mar 13 2018 - 08:31:38 PDT)
[AMBER] Turn of SMD after reaching target.
- Feng Pan (Fri Mar 02 2018 - 15:55:55 PST)
- David Sáez (Fri Mar 02 2018 - 08:19:40 PST)
[AMBER] upper limit of water with solvateBox
- Scott Brozell (Fri Mar 23 2018 - 09:38:23 PDT)
- Ikuo KURISAKI (Wed Mar 21 2018 - 17:54:18 PDT)
- David A Case (Wed Mar 21 2018 - 07:35:21 PDT)
- Ahmed Mashaly (Wed Mar 21 2018 - 07:07:18 PDT)
- Ikuo KURISAKI (Wed Mar 21 2018 - 06:06:28 PDT)
[AMBER] Using center of mass dihedral restraints using PMEMD
- Stefan Lenz (Sat Mar 03 2018 - 06:19:37 PST)
- David A Case (Sat Mar 03 2018 - 06:06:47 PST)
- Lenz, Stefan (Fri Mar 02 2018 - 15:34:42 PST)
[AMBER] van der Waals interactions, electrostatic interactions and long-range corrections
- David A Case (Tue Mar 06 2018 - 15:47:57 PST)
- balaahme (Tue Mar 06 2018 - 12:37:42 PST)
[AMBER] vlimit exceed error
- Daniel Roe (Wed Mar 07 2018 - 10:07:09 PST)
- sangita kachhap (Tue Mar 06 2018 - 07:47:16 PST)
[AMBER] vlimit exceeded for step
- David A Case (Fri Mar 09 2018 - 18:37:00 PST)
- ASMITA SEN (Fri Mar 09 2018 - 12:11:00 PST)
- David A Case (Mon Mar 05 2018 - 05:09:28 PST)
- ASMITA SEN (Thu Mar 01 2018 - 05:32:53 PST)
- ASMITA SEN (Thu Mar 01 2018 - 05:31:26 PST)
[AMBER] Volume occupied during MD
- Lizelle Lubbe (Thu Mar 15 2018 - 06:31:28 PDT)
[AMBER] WESTPA workshop August 2-3, 2018
- Lillian Chong (Tue Mar 27 2018 - 10:54:13 PDT)
[AMBER] When will you update this tutorial?
- Barış Kurt (Fri Mar 09 2018 - 10:01:37 PST)
- Barış Kurt (Fri Mar 09 2018 - 09:58:26 PST)
- David A Case (Fri Mar 09 2018 - 04:53:29 PST)
- Barış Kurt (Thu Mar 08 2018 - 06:04:12 PST)
[AMBER] which geometry is used in am1bcc charge in antechamber in amber tools 17?
- Dai, Shuo (Fri Mar 23 2018 - 01:35:00 PDT)
- David A Case (Thu Mar 22 2018 - 18:27:17 PDT)
- Dai, Shuo (Thu Mar 22 2018 - 17:03:06 PDT)
AMBER support and extra-point of charge (RESP) issue
- Jonathan David (Sun Mar 18 2018 - 23:21:37 PDT)
- Mahmoud A. A. Ibrahim (Thu Mar 15 2018 - 06:46:13 PDT)
- Jonathan David (Thu Mar 08 2018 - 23:33:53 PST)

Amber Archive Mar 2018 by subject