Amber Archive Jan 2018: by subject

[AMBER] About rerun the same trajectory
- David Sáez (Wed Jan 31 2018 - 09:40:32 PST)
- David Sáez (Wed Jan 31 2018 - 07:49:42 PST)
- David Sáez (Wed Jan 31 2018 - 07:20:54 PST)
[AMBER] Acpype and Gromacs
- Alan (Thu Jan 25 2018 - 00:57:16 PST)
- Ahmed Mashaly (Wed Jan 24 2018 - 12:42:11 PST)
[AMBER] AMBER - QMMM with DFTB
- Goetz, Andreas (Thu Jan 18 2018 - 11:29:21 PST)
- Gustavo Seabra (Thu Jan 18 2018 - 05:22:47 PST)
- daniele selli (Thu Jan 18 2018 - 01:59:50 PST)
[AMBER] Amber 16.12 and 12-6-4 force field Problem
- Jason Swails (Thu Jan 18 2018 - 19:14:06 PST)
- Ross Walker (Sat Jan 13 2018 - 20:19:32 PST)
- Chris Neale (Sat Jan 13 2018 - 19:01:44 PST)
- Pengfei Li (Sat Jan 13 2018 - 18:40:07 PST)
- Ross Walker (Sat Jan 13 2018 - 12:10:01 PST)
- Guanglin Kuang (Thu Jan 11 2018 - 22:01:56 PST)
- David Cerutti (Thu Jan 11 2018 - 21:11:55 PST)
- Guanglin Kuang (Thu Jan 11 2018 - 18:49:22 PST)
[AMBER] Amber 18
- Qinghua Liao (Fri Jan 19 2018 - 07:32:36 PST)
- David A Case (Fri Jan 19 2018 - 06:55:56 PST)
- Qinghua Liao (Fri Jan 19 2018 - 04:47:44 PST)
[AMBER] AMBER GPU-TI implementation - paper?
- Darrin York (Thu Jan 11 2018 - 06:46:03 PST)
- Hadházi Ádám (Thu Jan 11 2018 - 06:26:51 PST)
- Darrin York (Thu Jan 11 2018 - 06:16:02 PST)
- Hadházi Ádám (Thu Jan 11 2018 - 05:37:07 PST)
[AMBER] AMBER intelmpi installation on cluster
- Simon Kit Sang Chu (Tue Jan 02 2018 - 19:48:28 PST)
- Qinghua Liao (Tue Jan 02 2018 - 02:30:24 PST)
- Simon Kit Sang Chu (Mon Jan 01 2018 - 22:31:51 PST)
[AMBER] Amber mailing list
- David A Case (Sat Jan 13 2018 - 06:01:31 PST)
- Angela dos Reis (Fri Jan 12 2018 - 17:54:16 PST)
[AMBER] AMBER tools 17 installation problem
- David A Case (Wed Jan 17 2018 - 15:52:33 PST)
- Hai Nguyen (Wed Jan 17 2018 - 14:36:02 PST)
- maryam azimzadehirani (Wed Jan 17 2018 - 08:20:45 PST)
[AMBER] AMBER workshop registration opened, 4-8 March, Technion, Israel
- Fabian Glaser (Wed Jan 10 2018 - 00:07:14 PST)
[AMBER] Amber16 installation: Segmentation fault (core dumped) error when execute antechamber
- Yuan Hu (Tue Jan 30 2018 - 07:09:16 PST)
- Scott Brozell (Mon Jan 29 2018 - 13:49:15 PST)
- Yuan Hu (Mon Jan 29 2018 - 12:35:45 PST)
- Scott Brozell (Mon Jan 29 2018 - 11:56:28 PST)
- Yuan Hu (Fri Jan 26 2018 - 12:15:53 PST)
- Scott Brozell (Fri Jan 26 2018 - 12:09:07 PST)
- Yuan Hu (Fri Jan 26 2018 - 11:50:44 PST)
- Yuan Hu (Fri Jan 26 2018 - 11:43:06 PST)
- Hai Nguyen (Fri Jan 26 2018 - 11:09:42 PST)
- Scott Brozell (Fri Jan 26 2018 - 10:40:41 PST)
- Yuan Hu (Fri Jan 26 2018 - 05:17:29 PST)
- Scott Brozell (Thu Jan 25 2018 - 10:51:01 PST)
- Yuan Hu (Wed Jan 24 2018 - 05:19:13 PST)
- Hai Nguyen (Tue Jan 23 2018 - 19:30:35 PST)
- Yuan Hu (Tue Jan 23 2018 - 19:06:11 PST)
- Scott Brozell (Tue Jan 23 2018 - 16:13:24 PST)
- Yuan Hu (Tue Jan 23 2018 - 13:27:41 PST)
- Scott Brozell (Tue Jan 23 2018 - 12:12:14 PST)
- Yuan Hu (Mon Jan 22 2018 - 22:41:28 PST)
- David A Case (Mon Jan 22 2018 - 18:44:45 PST)
- Yuan Hu (Mon Jan 22 2018 - 16:03:01 PST)
[AMBER] Amber16+AT17: Several checks failing w/Intel Parallel Studio XE 2018.1
- David A Case (Mon Jan 29 2018 - 09:10:39 PST)
- Patrice Peterson (Tue Jan 23 2018 - 12:55:00 PST)
- Patrice Peterson (Tue Jan 23 2018 - 12:24:20 PST)
- Patrice Peterson (Tue Jan 23 2018 - 12:18:30 PST)
[AMBER] AmberTools with Amber11
- Jason Swails (Thu Jan 18 2018 - 18:58:47 PST)
- Jennifer L. Muzyka (Thu Jan 18 2018 - 11:35:22 PST)
[AMBER] Announcement: AMBER Molecular Dynamics Workshop 2018
- Fabian Glaser (Sun Jan 07 2018 - 06:37:11 PST)
[AMBER] Atom restraints in AMBER
- Nikolay N. Kuzmich (Tue Jan 09 2018 - 18:33:02 PST)
[AMBER] Avoiding pdb4amber renumbering
- Sundar (Tue Jan 23 2018 - 12:55:32 PST)
- David A Case (Tue Jan 23 2018 - 12:14:22 PST)
- Hai Nguyen (Tue Jan 23 2018 - 11:11:42 PST)
- Sundar (Tue Jan 23 2018 - 10:04:22 PST)
[AMBER] Best practices for lipid equilibration - Amber parameters in Gromacs
- Crystal Vander Zanden (Mon Jan 22 2018 - 08:13:30 PST)
[AMBER] Binding energy of ligand with homology model
- Daniel Mermelstein (Wed Jan 03 2018 - 13:31:50 PST)
[AMBER] box size and SMD simulation
- David A Case (Sun Jan 28 2018 - 18:44:47 PST)
- Ibrahim Said (Sun Jan 28 2018 - 10:18:46 PST)
[AMBER] Can amber16 pmemd rigorously combine position restraints with pressure coupling on GPUs ?
- David A Case (Mon Jan 29 2018 - 08:45:36 PST)
- Chris Neale (Fri Jan 26 2018 - 11:48:09 PST)
[AMBER] Cannot match namelist object name 0
- Núbia Prates (Thu Jan 25 2018 - 05:23:02 PST)
- Batuhan Kav (Wed Jan 24 2018 - 09:52:34 PST)
- Núbia Prates (Wed Jan 24 2018 - 08:26:33 PST)
[AMBER] Change a residue in a protein
- David Sáez (Thu Jan 18 2018 - 00:45:47 PST)
[AMBER] command not working
- SHALJA VERMA (Mon Jan 29 2018 - 05:50:38 PST)
- David A Case (Mon Jan 29 2018 - 05:12:58 PST)
- SHALJA VERMA (Mon Jan 29 2018 - 02:28:34 PST)
[AMBER] command problem
- David A Case (Mon Jan 29 2018 - 05:09:44 PST)
- SHALJA VERMA (Mon Jan 29 2018 - 02:27:46 PST)
[AMBER] Compiling AMBER16 with Open MPI 3.x
- Jonas Mansoor (Wed Jan 31 2018 - 01:15:09 PST)
[AMBER] Compressing trajectory file
- Setyanto Md (Tue Jan 30 2018 - 22:37:32 PST)
- David A Case (Fri Jan 26 2018 - 18:09:34 PST)
- Elvis Martis (Fri Jan 26 2018 - 05:56:25 PST)
- Setyanto Md (Fri Jan 26 2018 - 04:16:07 PST)
[AMBER] constant pH md
- Jason Swails (Tue Jan 16 2018 - 06:59:52 PST)
- Daniel Roe (Tue Jan 16 2018 - 06:44:08 PST)
- Jason Swails (Mon Jan 15 2018 - 18:33:10 PST)
- Maciej Maciejczyk (Thu Jan 11 2018 - 04:52:16 PST)
- Cruzeiro,Vinicius Wilian D (Thu Jan 11 2018 - 04:04:06 PST)
- Maciej Maciejczyk (Wed Jan 10 2018 - 23:44:21 PST)
[AMBER] CPPTRAJ HBOND
- Daniel Roe (Tue Jan 02 2018 - 10:21:00 PST)
[AMBER] CPPTRAJ HBond analysis Segmentation fault (core dumped)
- 姚永霖 (Thu Jan 25 2018 - 17:33:30 PST)
- 姚永霖 (Thu Jan 25 2018 - 06:54:00 PST)
[AMBER] cpptraj long writing queue
- Simon Kit Sang Chu (Wed Jan 24 2018 - 06:40:32 PST)
- Daniel Roe (Wed Jan 24 2018 - 03:10:58 PST)
- Simon Kit Sang Chu (Wed Jan 24 2018 - 00:03:49 PST)
[AMBER] CPPTRAJ-Angle between two Helices
- Daniel Roe (Fri Jan 19 2018 - 14:39:24 PST)
- Jag Silwal (Fri Jan 19 2018 - 13:17:03 PST)
- Arati Paudyal (Fri Jan 19 2018 - 13:15:42 PST)
- Daniel Roe (Fri Jan 19 2018 - 12:24:10 PST)
- Jag Silwal (Fri Jan 19 2018 - 10:23:06 PST)
[AMBER] cpptraj.OMP vs cpptraj
- Daniel Roe (Wed Jan 10 2018 - 06:20:43 PST)
- Saikat Pal (Wed Jan 10 2018 - 03:06:25 PST)
[AMBER] Crystal water in Amber 16
- Yuliana Bosken (Sun Jan 21 2018 - 13:14:33 PST)
- David A Case (Thu Jan 18 2018 - 05:23:47 PST)
- Yuliana Bosken (Thu Jan 18 2018 - 04:33:10 PST)
- Hai Nguyen (Wed Jan 17 2018 - 22:05:47 PST)
- Yuliana Bosken (Wed Jan 17 2018 - 21:12:45 PST)
[AMBER] Density equilibration
- Thomas Exner (Sat Jan 06 2018 - 04:23:48 PST)
- Thomas Exner (Fri Jan 05 2018 - 07:21:47 PST)
[AMBER] dftb_chg not working
- David Sáez (Mon Jan 29 2018 - 04:18:53 PST)
- David Sáez (Mon Jan 29 2018 - 03:54:55 PST)
[AMBER] Distance calculation between atoms from two different frames using CPPTRAJ
- anu chandra (Fri Jan 05 2018 - 02:35:32 PST)
- Daniel Roe (Thu Jan 04 2018 - 06:00:38 PST)
- anu chandra (Thu Jan 04 2018 - 03:41:56 PST)
[AMBER] distance to center of geometry
- Daniel Roe (Tue Jan 16 2018 - 06:46:05 PST)
- David Cerutti (Mon Jan 15 2018 - 21:31:05 PST)
- Meng Wu (Mon Jan 15 2018 - 19:27:06 PST)
[AMBER] DNA melting temperature
- matheus froeyen (Tue Jan 09 2018 - 02:56:32 PST)
- Marie Brut (Tue Jan 09 2018 - 01:16:13 PST)
[AMBER] DSSP CPPtraj
- Daniel Roe (Tue Jan 02 2018 - 10:12:51 PST)
[AMBER] email
- khair.bux.iccs.edu (Tue Jan 16 2018 - 01:58:45 PST)
[AMBER] Empty .frcmod file
- ABEL Stephane (Tue Jan 30 2018 - 09:36:02 PST)
- roja rahmani (Tue Jan 30 2018 - 08:15:59 PST)
- roja rahmani (Tue Jan 30 2018 - 08:09:18 PST)
- ABEL Stephane (Tue Jan 30 2018 - 07:38:51 PST)
- roja rahmani (Tue Jan 30 2018 - 06:50:10 PST)
- ABEL Stephane (Tue Jan 30 2018 - 06:34:45 PST)
- ABEL Stephane (Tue Jan 30 2018 - 06:31:39 PST)
- Elvis Martis (Tue Jan 30 2018 - 06:30:53 PST)
- roja rahmani (Tue Jan 30 2018 - 06:20:11 PST)
- roja rahmani (Tue Jan 30 2018 - 06:19:16 PST)
- Elvis Martis (Tue Jan 30 2018 - 05:51:43 PST)
- roja rahmani (Tue Jan 30 2018 - 05:39:56 PST)
[AMBER] error 12-6-4 LJ with the last update (November 2017)
- Jason Swails (Thu Jan 18 2018 - 10:49:44 PST)
- Pengfei Li (Tue Jan 16 2018 - 14:01:32 PST)
- Pengfei Li (Tue Jan 16 2018 - 13:54:47 PST)
- David Cerutti (Thu Jan 11 2018 - 10:55:34 PST)
- Qinghua Liao (Thu Jan 11 2018 - 05:51:52 PST)
- Davide Sala (Thu Jan 11 2018 - 05:49:23 PST)
- David A Case (Thu Jan 11 2018 - 04:52:39 PST)
- Davide Sala (Thu Jan 11 2018 - 02:53:31 PST)
[AMBER] Error during MMPBSA calculation -reg.
- Jeyaram R A (Wed Jan 17 2018 - 03:40:01 PST)
- Jeyaram R A (Wed Jan 10 2018 - 23:06:16 PST)
[AMBER] error during MMPBSA-reg
- Jeyaram R A (Fri Jan 19 2018 - 06:47:34 PST)
[AMBER] Error during the MMPBSA calculation -reg.
- Jeyaram R A (Mon Jan 08 2018 - 20:34:04 PST)
[AMBER] Errors in my installation
- Bhargava Sai M (Wed Jan 17 2018 - 21:29:09 PST)
- Hai Nguyen (Wed Jan 17 2018 - 14:38:08 PST)
- Bhargava Sai M (Tue Jan 16 2018 - 20:52:23 PST)
[AMBER] EVB xch_* values
- David A Case (Mon Jan 29 2018 - 09:14:51 PST)
- Stregone (Tue Jan 23 2018 - 11:44:07 PST)
[AMBER] Extract Velocity (and Force) from Gromacs .trr trajectory using cpptraj
- Mohd Farid Ismail (Thu Jan 25 2018 - 02:19:19 PST)
[AMBER] fatty acid ligand comes out of binding site during md.
- Daniel Roe (Tue Jan 23 2018 - 08:36:47 PST)
- Saman Yousuf ali (Sat Jan 20 2018 - 05:43:11 PST)
[AMBER] Fwd: Hydrophobic interaction VS time in protein interfaces
- Daniel Roe (Tue Jan 16 2018 - 06:41:52 PST)
- Szymon Żaczek (Mon Jan 15 2018 - 03:10:45 PST)
- Jag Silwal (Sun Jan 14 2018 - 09:06:44 PST)
[AMBER] GBSA parameters
- David A Case (Sun Jan 28 2018 - 18:32:21 PST)
- Hai Nguyen (Sun Jan 28 2018 - 17:26:34 PST)
- Carlos Simmerling (Sun Jan 28 2018 - 13:27:17 PST)
- Siddhartha Jain (Sun Jan 28 2018 - 13:09:06 PST)
- Siddhartha Jain (Sun Jan 28 2018 - 11:22:32 PST)
- Carlos Simmerling (Sun Jan 28 2018 - 06:59:49 PST)
- Siddhartha Jain (Sat Jan 27 2018 - 17:11:57 PST)
[AMBER] gnuplot x-axis represented the number of frames how to convert it in nano second time.
- Rana Rehan Khalid (Wed Jan 10 2018 - 07:02:00 PST)
- Daniel Roe (Wed Jan 10 2018 - 07:00:13 PST)
- Rana Rehan Khalid (Wed Jan 10 2018 - 06:53:21 PST)
- Daniel Roe (Wed Jan 10 2018 - 06:13:52 PST)
- Qinghua Liao (Wed Jan 10 2018 - 05:47:34 PST)
- Rana Rehan Khalid (Wed Jan 10 2018 - 05:44:48 PST)
[AMBER] going away for now
- Bill Ross (Fri Jan 12 2018 - 18:26:01 PST)
[AMBER] H-bond analysis in tetrameric protein complexes
- Daniel Roe (Tue Jan 16 2018 - 06:42:37 PST)
- Jag Silwal (Mon Jan 15 2018 - 13:09:44 PST)
[AMBER] hbond analysis on DNA-protein complex
- Kenneth Huang (Mon Jan 29 2018 - 07:26:47 PST)
[AMBER] How to perform Newton-Raphson minimization to protein
- 巩梦雪 (Fri Jan 26 2018 - 01:38:55 PST)
- David A Case (Tue Jan 23 2018 - 05:26:46 PST)
- 巩梦雪 (Mon Jan 22 2018 - 23:30:22 PST)
[AMBER] Hydrophobic interaction VS time in protein interfaces
- Jag Silwal (Tue Jan 09 2018 - 08:45:38 PST)
[AMBER] Installation - NetCDF C compile failed
- Hai Nguyen (Sat Jan 20 2018 - 15:39:06 PST)
- David A Case (Sat Jan 20 2018 - 14:41:41 PST)
- Jiří Dluhoš (Sat Jan 20 2018 - 14:15:12 PST)
- David A Case (Sat Jan 20 2018 - 07:29:35 PST)
- Daniel Roe (Fri Jan 19 2018 - 12:30:06 PST)
- Jiří Dluhoš (Fri Jan 19 2018 - 12:13:19 PST)
- Daniel Roe (Fri Jan 19 2018 - 11:35:03 PST)
- Jiří Dluhoš (Fri Jan 19 2018 - 10:35:27 PST)
- Hai Nguyen (Fri Jan 19 2018 - 10:25:13 PST)
- Jiří Dluhoš (Fri Jan 19 2018 - 10:23:31 PST)
[AMBER] Is there anyway to recover the potential energies obtained after running md
- ABEL Stephane (Wed Jan 31 2018 - 09:23:57 PST)
- Alberto Bencomo (Wed Jan 31 2018 - 08:39:44 PST)
- Carlos Simmerling (Wed Jan 31 2018 - 08:36:23 PST)
- Shamsi, Zahra (Wed Jan 31 2018 - 08:20:57 PST)
[AMBER] KeyError: 'HIE-HD1' MCPB.py
- Pengfei Li (Thu Jan 25 2018 - 10:39:40 PST)
- Thakur, Abhishek (Wed Jan 24 2018 - 12:43:10 PST)
[AMBER] leap
- Szymon Żaczek (Tue Jan 16 2018 - 11:32:33 PST)
- Lara rajam (Tue Jan 16 2018 - 09:26:39 PST)
[AMBER] Ligand modifying softwares.
- Luka Bilić (Fri Jan 19 2018 - 01:28:01 PST)
- Bakary N'tji Diallo (Fri Jan 19 2018 - 01:21:54 PST)
- Vatsal Purohit (Thu Jan 18 2018 - 20:23:21 PST)
[AMBER] ligand outside the binding site - vmd visualisation problem
- David A Case (Wed Jan 10 2018 - 05:19:08 PST)
- M. Pyrka (Wed Jan 10 2018 - 03:47:50 PST)
[AMBER] LIPID17 reference ?
- Marek Maly (Wed Jan 03 2018 - 07:32:39 PST)
- Ross Walker (Wed Jan 03 2018 - 06:32:42 PST)
- Marek Maly (Wed Jan 03 2018 - 05:37:01 PST)
[AMBER] Mail from "Dr. MANAS MONDAL" <manas.pku.edu.cn>.
- Daniel Roe (Fri Jan 19 2018 - 05:31:13 PST)
- Dr. MANAS MONDAL (Fri Jan 19 2018 - 01:48:01 PST)
[AMBER] MCPB
- Pengfei Li (Fri Jan 19 2018 - 11:21:05 PST)
- Thakur, Abhishek (Thu Jan 18 2018 - 14:23:49 PST)
[AMBER] MCPB.py error with ion id
- Thakur, Abhishek (Wed Jan 31 2018 - 08:54:07 PST)
- Pengfei Li (Wed Jan 31 2018 - 07:36:12 PST)
- Thakur, Abhishek (Mon Jan 29 2018 - 07:37:07 PST)
[AMBER] MD run saving only 250 frames
- Jeyaram R A (Tue Jan 16 2018 - 23:14:29 PST)
- Paul Meister (Tue Jan 16 2018 - 11:58:00 PST)
[AMBER] Metadynamics in pmemd
- David A Case (Mon Jan 29 2018 - 09:01:42 PST)
- Celeste Sagui (Thu Jan 25 2018 - 14:51:20 PST)
- Hannes Konegger (Thu Jan 25 2018 - 05:13:39 PST)
[AMBER] Minimization Problem(error shows "... RESTARTED DUE TO LINMIN FAILURE ..." )
- David A Case (Sun Jan 07 2018 - 17:41:19 PST)
- Malay Raul (Sun Jan 07 2018 - 12:28:38 PST)
- David A Case (Sun Jan 07 2018 - 05:37:14 PST)
- Malay Raul (Sat Jan 06 2018 - 13:05:13 PST)
[AMBER] MMGBSA calculation gives very high positive free energy of binding!!!
- David A Case (Thu Jan 11 2018 - 04:38:49 PST)
- Sandip Mondal (Thu Jan 11 2018 - 01:41:12 PST)
[AMBER] MMGBSA calculations with explicit water molecules
- Jason Swails (Sat Jan 20 2018 - 18:06:23 PST)
- Marawan Hussien (Thu Jan 18 2018 - 12:14:15 PST)
[AMBER] more than 100% hydrogen bond population
- Daniel Roe (Tue Jan 16 2018 - 06:57:32 PST)
[AMBER] Non-PBC simulation in a droplet made of organic solvent
- Veronika Jurásková (Wed Jan 24 2018 - 02:45:23 PST)
- David A Case (Tue Jan 23 2018 - 12:38:12 PST)
- Veronika Jurásková (Mon Jan 22 2018 - 02:13:49 PST)
[AMBER] OS High Sierra
- Hallel Freedman (Fri Jan 26 2018 - 07:32:39 PST)
- David A Case (Thu Jan 11 2018 - 04:32:41 PST)
- Hallel Freedman (Wed Jan 10 2018 - 16:36:51 PST)
[AMBER] Parametrization of new amino acid in methanol solvent
- Alessandro Contini (Fri Jan 19 2018 - 05:03:50 PST)
- Chetna Tyagi (Fri Jan 19 2018 - 04:10:51 PST)
[AMBER] parmchk
- Yuliana Bosken (Sun Jan 28 2018 - 05:01:42 PST)
- Kellon Belfon (Sat Jan 27 2018 - 22:37:40 PST)
- Yuliana Bosken (Sat Jan 27 2018 - 20:18:41 PST)
[AMBER] Patent to solve floating point errors
- Kenneth McGuinness (Thu Jan 18 2018 - 14:41:33 PST)
[AMBER] PB Bomb in pb_aaradi(): No radius assigned for atom 7 CB 3C
- Morrow,John Kenneth (Sat Jan 27 2018 - 06:03:46 PST)
- Ray Luo (Fri Jan 19 2018 - 15:57:11 PST)
- Morrow,John Kenneth (Fri Jan 19 2018 - 15:14:12 PST)
[AMBER] pmemd.cuda and rigid CH2Cl2
- Thomas Fox (Fri Jan 12 2018 - 00:38:48 PST)
[AMBER] prmtop.pdf %FLAG SCREEN
- David A Case (Wed Jan 10 2018 - 10:53:08 PST)
- Johannes Kalliauer (Tue Jan 09 2018 - 04:53:21 PST)
[AMBER] PROBLEM ENCOUNTERED WHILE UNDERGOING TUTUORIAL FOR ROOM TEMPERATURE IONIC LIQUID.
- Markowska (Mon Jan 22 2018 - 05:55:55 PST)
- David A Case (Mon Jan 22 2018 - 05:33:32 PST)
- Suman Bhaumik (Sun Jan 21 2018 - 01:46:05 PST)
[AMBER] Problem regarding compiling in cpptraj with openmp
- Daniel Roe (Fri Jan 05 2018 - 05:37:47 PST)
- Bill Ross (Thu Jan 04 2018 - 23:58:52 PST)
- Saikat Pal (Thu Jan 04 2018 - 23:32:17 PST)
- Bill Ross (Thu Jan 04 2018 - 23:05:53 PST)
- Bill Ross (Thu Jan 04 2018 - 22:58:35 PST)
- Saikat Pal (Thu Jan 04 2018 - 22:54:54 PST)
[AMBER] Problem to convert
- David A Case (Fri Jan 26 2018 - 04:51:31 PST)
- Alberto Bencomo (Thu Jan 25 2018 - 08:23:31 PST)
[AMBER] Protonated cytosine and adenine: Parameter file was not saved
- David A Case (Thu Jan 25 2018 - 06:52:16 PST)
- Amen Shamim (Thu Jan 25 2018 - 05:15:28 PST)
[AMBER] pseudo-trajectory in pytraj
- Hai Nguyen (Wed Jan 10 2018 - 09:54:33 PST)
- Abdul-Rashid III Sampaco (Wed Jan 10 2018 - 09:04:17 PST)
[AMBER] QM/MM MD B3LYP
- Goetz, Andreas (Wed Jan 10 2018 - 21:00:20 PST)
- Thakur, Abhishek (Wed Jan 10 2018 - 10:02:51 PST)
- Marcelo Andrade Chagas (Wed Jan 10 2018 - 09:43:58 PST)
- Thakur, Abhishek (Wed Jan 10 2018 - 09:35:29 PST)
- Thakur, Abhishek (Wed Jan 10 2018 - 09:25:05 PST)
[AMBER] QM/MM metadynamics with external QM code
- Qinghua Liao (Fri Jan 26 2018 - 04:05:53 PST)
- Jacopo Sgrignani (Fri Jan 26 2018 - 03:26:44 PST)
- Qinghua Liao (Fri Jan 26 2018 - 02:36:47 PST)
- Goetz, Andreas (Fri Jan 26 2018 - 02:20:18 PST)
- Qinghua Liao (Fri Jan 26 2018 - 01:42:22 PST)
[AMBER] QM/MM SMD with 'external' theory and PBCs
- Ruth Helena Tichauer (Fri Jan 26 2018 - 21:40:46 PST)
- Goetz, Andreas (Fri Jan 26 2018 - 15:20:53 PST)
- Ruth Helena Tichauer (Fri Jan 26 2018 - 06:33:05 PST)
[AMBER] qm2_extern_gau_module
- Thakur, Abhishek (Tue Jan 09 2018 - 09:11:29 PST)
- Thakur, Abhishek (Tue Jan 09 2018 - 08:49:59 PST)
- David Poole (Sat Jan 06 2018 - 14:48:40 PST)
- David Poole (Sat Jan 06 2018 - 14:42:09 PST)
- Goetz, Andreas (Fri Jan 05 2018 - 13:37:55 PST)
- Thakur, Abhishek (Fri Jan 05 2018 - 12:12:03 PST)
- David A Case (Fri Jan 05 2018 - 12:04:18 PST)
- Thakur, Abhishek (Fri Jan 05 2018 - 11:46:50 PST)
[AMBER] Query on thermodynamic integration of complexes involving metal ions
- Muthukumaran Rajagopalan (Wed Jan 31 2018 - 05:16:02 PST)
- Muthukumaran Rajagopalan (Wed Jan 31 2018 - 04:24:55 PST)
[AMBER] Query regarding the ff99SB*ildn force field
- Carlos Simmerling (Wed Jan 31 2018 - 06:01:54 PST)
- Vlad Cojocaru (Wed Jan 31 2018 - 05:55:45 PST)
- David A Case (Wed Jan 31 2018 - 05:32:55 PST)
- Leena Aggarwal (Tue Jan 30 2018 - 20:53:26 PST)
[AMBER] Regarding error in preparation of HEME via MCPB.py
- Pengfei Li (Wed Jan 31 2018 - 07:37:11 PST)
- Aashish Bhatt (Thu Jan 25 2018 - 22:47:02 PST)
- Pengfei Li (Thu Jan 25 2018 - 10:34:38 PST)
- Aashish Bhatt (Mon Jan 22 2018 - 03:33:43 PST)
- Pengfei Li (Tue Jan 16 2018 - 12:07:04 PST)
- Aashish Bhatt (Mon Jan 08 2018 - 20:47:34 PST)
[AMBER] REMD job stops on loadleveler
- David A Case (Tue Jan 09 2018 - 08:23:42 PST)
- Andreas Tosstorff (Mon Jan 08 2018 - 11:56:21 PST)
[AMBER] Reorienting the protein during simulation
- Ahmed Mashaly (Fri Jan 19 2018 - 08:25:22 PST)
- Daniel Roe (Wed Jan 17 2018 - 07:55:13 PST)
- Ahmed Mashaly (Wed Jan 17 2018 - 02:39:01 PST)
- Daniel Roe (Tue Jan 16 2018 - 06:54:33 PST)
- Ahmed Mashaly (Tue Jan 16 2018 - 02:52:20 PST)
[AMBER] Replica exchange thermodynamic integration in AMBER
- Jason Swails (Thu Jan 18 2018 - 10:51:15 PST)
- Roma Mukhopadhyay (Thu Jan 11 2018 - 15:45:55 PST)
[AMBER] resources for summer researches
- Mahendra B Thapa (Mon Jan 08 2018 - 10:35:33 PST)
[AMBER] RESP charges for capped C termimal glycine: NHCH2CONH2
- David A Case (Sun Jan 14 2018 - 06:01:30 PST)
- ABEL Stephane (Sun Jan 14 2018 - 04:02:05 PST)
- David Cerutti (Sat Jan 13 2018 - 20:33:57 PST)
- ABEL Stephane (Sat Jan 13 2018 - 05:50:17 PST)
[AMBER] scaling of electrostatic interactions
- Antonija Tomić (Thu Jan 11 2018 - 02:49:12 PST)
- Lorenzo Gontrani (Thu Jan 11 2018 - 02:19:49 PST)
- Antonija Tomić (Thu Jan 11 2018 - 02:18:00 PST)
[AMBER] Transformation from cartesian to torsion space
- David Cerutti (Mon Jan 22 2018 - 13:39:50 PST)
- Siddhartha Jain (Mon Jan 22 2018 - 12:00:39 PST)
[AMBER] Trying to use AMBER parameters in GROMACS
- Jason Swails (Fri Jan 05 2018 - 21:18:37 PST)
- Jason Swails (Fri Jan 05 2018 - 21:18:04 PST)
- Crystal Vander Zanden (Wed Jan 03 2018 - 08:49:35 PST)
[AMBER] umbrella sampling process
- Andreas Tosstorff (Wed Jan 17 2018 - 10:22:50 PST)
- krishna.2015.iitg.ernet.in (Wed Jan 17 2018 - 10:04:33 PST)
[AMBER] Unreplicable AMBER tutorial 3
- Audrius Laurynėnas (Tue Jan 23 2018 - 04:22:21 PST)
[AMBER] Use amber output velocity for different system
- David A Case (Mon Jan 29 2018 - 11:57:58 PST)
- Khabiri, Morteza (Mon Jan 29 2018 - 08:48:11 PST)
[AMBER] use_template = 0
- Thakur, Abhishek (Wed Jan 10 2018 - 09:04:20 PST)
- Thakur, Abhishek (Wed Jan 10 2018 - 09:02:54 PST)
- David A Case (Wed Jan 10 2018 - 08:43:19 PST)
- Thakur, Abhishek (Wed Jan 10 2018 - 08:34:27 PST)
[AMBER] Which command to use for printing X Y Z coordinates of the given atom ?
- Daniel Roe (Fri Jan 05 2018 - 06:02:50 PST)
- Hai Nguyen (Thu Jan 04 2018 - 19:09:03 PST)
- Marek Maly (Thu Jan 04 2018 - 17:54:07 PST)
[AMBER] Writing mdcrd to inpcrd
- Jeyaram R A (Mon Jan 22 2018 - 08:32:08 PST)
- David A Case (Mon Jan 22 2018 - 05:31:02 PST)
- Batuhan Kav (Mon Jan 22 2018 - 05:20:44 PST)
- Simon Kit Sang Chu (Mon Jan 22 2018 - 03:29:09 PST)
[AMBER] xmgr x-axis change to ns.
- Rana Rehan Khalid (Sun Jan 07 2018 - 09:25:41 PST)
- Rana Rehan Khalid (Sun Jan 07 2018 - 06:55:43 PST)
- MOHD HOMAIDUR RAHMAN (Sun Jan 07 2018 - 01:26:07 PST)
- Rana Rehan Khalid (Sat Jan 06 2018 - 08:30:31 PST)

Amber Archive Jan 2018 by subject