Amber Archive Jul 2016: by subject

[AMBER] a question about resp restraints strength
- Bahaa Mostafa (Sat Jul 16 2016 - 09:43:55 PDT)
- FyD (Fri Jul 15 2016 - 10:22:13 PDT)
- Bahaa Mostafa (Thu Jul 14 2016 - 05:56:24 PDT)
- David A Case (Thu Jul 14 2016 - 04:26:48 PDT)
- Bahaa Mostafa (Thu Jul 14 2016 - 04:10:27 PDT)
- Bahaa Mostafa (Thu Jul 14 2016 - 04:04:13 PDT)
- Bahaa Mostafa (Wed Jul 13 2016 - 05:40:44 PDT)
[AMBER] A question on SMD simulations
- Hai Nguyen (Wed Jul 06 2016 - 15:11:21 PDT)
- Ming Tang (Wed Jul 06 2016 - 14:59:42 PDT)
[AMBER] addAtomType problem
- Lea Natalia Toledo Carvajal (Fri Jul 08 2016 - 15:18:25 PDT)
- David A Case (Sat Jul 02 2016 - 05:55:16 PDT)
[AMBER] adding missing ligand records to $AMBERHOME/dat/reduce_wwPDB_het_dict.txt
- David A Case (Sat Jul 02 2016 - 04:58:41 PDT)
- Jose Manuel (Sat Jul 02 2016 - 01:46:09 PDT)
[AMBER] adding non-standard residue to RNA strand
- FyD (Tue Jul 12 2016 - 14:03:16 PDT)
- David A Case (Sat Jul 09 2016 - 15:29:41 PDT)
- Martina Devi (Sat Jul 09 2016 - 10:21:28 PDT)
[AMBER] Amber 16 Installation
- David A Case (Mon Jul 18 2016 - 17:13:55 PDT)
- Corum, Katharine W (Mon Jul 18 2016 - 12:39:56 PDT)
- Hai Nguyen (Mon Jul 18 2016 - 07:24:45 PDT)
- David A Case (Mon Jul 18 2016 - 06:07:11 PDT)
- Beale, John (Mon Jul 18 2016 - 00:44:27 PDT)
- Bill Ross (Mon Jul 18 2016 - 00:43:31 PDT)
- Beale, John (Mon Jul 18 2016 - 00:17:35 PDT)
[AMBER] AMBER Digest, Vol 1646, Issue 1
- bharat gupta (Mon Jul 25 2016 - 22:21:49 PDT)
[AMBER] Amber with Amoeba force field
- David A Case (Fri Jul 22 2016 - 05:23:21 PDT)
- Xiaoliu Zhang (Thu Jul 21 2016 - 08:26:38 PDT)
[AMBER] Amber12 or lated on POWER8 platform
- Jason Swails (Wed Jul 06 2016 - 05:50:54 PDT)
- Sanman Sabane (Wed Jul 06 2016 - 03:22:40 PDT)
[AMBER] Amber16 Parallel CUDA Tests
- Steven Ford (Mon Jul 25 2016 - 12:06:20 PDT)
- Ross Walker (Sat Jul 23 2016 - 15:32:59 PDT)
- Ross Walker (Thu Jul 21 2016 - 02:34:19 PDT)
- Steven Ford (Wed Jul 20 2016 - 13:19:16 PDT)
[AMBER] Amber16 tutorials
- Corum, Katharine W (Thu Jul 07 2016 - 08:26:02 PDT)
- Daniel Roe (Thu Jul 07 2016 - 08:23:46 PDT)
- Hai Nguyen (Thu Jul 07 2016 - 08:20:39 PDT)
- Corum, Katharine W (Thu Jul 07 2016 - 08:13:15 PDT)
- Daniel Roe (Thu Jul 07 2016 - 08:03:53 PDT)
- Corum, Katharine W (Thu Jul 07 2016 - 07:54:12 PDT)
- Hirdesh Kumar (Thu Jul 07 2016 - 07:52:20 PDT)
- Corum, Katharine W (Thu Jul 07 2016 - 07:43:36 PDT)
- Corum, Katharine W (Wed Jul 06 2016 - 14:16:06 PDT)
- Hai Nguyen (Wed Jul 06 2016 - 14:14:49 PDT)
- Corum, Katharine W (Wed Jul 06 2016 - 14:11:37 PDT)
- Corum, Katharine W (Wed Jul 06 2016 - 14:07:01 PDT)
[AMBER] Ambertool16 - MCPB.py angle cut off and Error with Pdbsearcher.py
- Pengfei Li (Sat Jul 09 2016 - 14:30:09 PDT)
- Bilal Nizami (Wed Jul 06 2016 - 05:37:19 PDT)
- Pengfei Li (Tue Jul 05 2016 - 18:30:50 PDT)
- Bilal Nizami (Mon Jul 04 2016 - 01:39:33 PDT)
[AMBER] aMD with chloroform
- Stephan Schott (Tue Jul 19 2016 - 08:19:24 PDT)
[AMBER] An attempt for TI with QM/MM Hamiltonian
- Xiangyu Jia (Thu Jul 07 2016 - 06:13:51 PDT)
[AMBER] Applying different restraints to different sets of atoms
- David A Case (Mon Jul 25 2016 - 09:50:47 PDT)
- Dmitry Suplatov (Mon Jul 25 2016 - 05:38:52 PDT)
[AMBER] average pdb distorted
- kenfack cyril (Sat Jul 30 2016 - 12:27:10 PDT)
- Thakur, Abhishek (Tue Jul 26 2016 - 11:24:29 PDT)
- Marc van der Kamp (Tue Jul 26 2016 - 00:55:05 PDT)
- David A Case (Mon Jul 25 2016 - 18:43:48 PDT)
- Thakur, Abhishek (Mon Jul 25 2016 - 12:33:42 PDT)
- Hai Nguyen (Mon Jul 25 2016 - 12:28:34 PDT)
- Thakur, Abhishek (Mon Jul 25 2016 - 12:20:34 PDT)
[AMBER] bad atom type decomp
- Jason Swails (Tue Jul 05 2016 - 11:27:55 PDT)
- Bruno Falcone (Tue Jul 05 2016 - 07:04:21 PDT)
- Bruno Falcone (Thu Jun 30 2016 - 20:45:48 PDT)
[AMBER] Binding deltaG in ligand pose selction
- David A Case (Thu Jul 21 2016 - 08:30:05 PDT)
- anu chandra (Wed Jul 20 2016 - 09:14:03 PDT)
[AMBER] Born Mayer Potential
- Jason Swails (Tue Jul 12 2016 - 19:28:25 PDT)
- David A Case (Tue Jul 12 2016 - 18:37:30 PDT)
- Hai Nguyen (Tue Jul 12 2016 - 09:53:57 PDT)
- Vivien Ramothe (Tue Jul 12 2016 - 08:36:22 PDT)
[AMBER] Calculating lipid diffusion using stfcdiffusion
- Daniel Roe (Thu Jul 28 2016 - 13:21:23 PDT)
- Daniel Roe (Tue Jul 26 2016 - 12:53:14 PDT)
- Dickson, Callum J (Mon Jul 25 2016 - 13:14:42 PDT)
- Amy Rice (Mon Jul 25 2016 - 09:24:04 PDT)
- Dickson, Callum J (Wed Jul 20 2016 - 14:25:40 PDT)
- Amy Rice (Wed Jul 20 2016 - 11:57:32 PDT)
- Amy Rice (Wed Jul 20 2016 - 11:34:14 PDT)
- Daniel Roe (Tue Jul 19 2016 - 08:26:01 PDT)
- Dickson, Callum J (Mon Jul 18 2016 - 13:25:17 PDT)
- Amy Rice (Thu Jul 14 2016 - 09:13:57 PDT)
- Amy Rice (Thu Jul 07 2016 - 10:49:07 PDT)
[AMBER] Calculating Salt bridge interactions- Protein and RNA
- Muthukumaran R (Sat Jul 30 2016 - 00:27:51 PDT)
[AMBER] can amber14 be run with gtx1060
- Ross Walker (Fri Jul 29 2016 - 05:03:59 PDT)
- xjq (Fri Jul 29 2016 - 02:43:08 PDT)
[AMBER] can MCPB build non amino-acid containing complex?
- Zhenyu Meng (Sat Jul 02 2016 - 06:49:56 PDT)
- Zhenyu Meng (Sat Jul 02 2016 - 03:02:03 PDT)
- Pengfei Li (Fri Jul 01 2016 - 08:54:08 PDT)
- zoran matovic (Fri Jul 01 2016 - 08:13:32 PDT)
- Zhenyu Meng (Fri Jul 01 2016 - 05:37:26 PDT)
[AMBER] carbon nanotube
- FyD (Fri Jul 15 2016 - 10:17:39 PDT)
- Jason Swails (Thu Jul 14 2016 - 06:30:22 PDT)
- Neha Gandhi (Wed Jul 13 2016 - 19:15:55 PDT)
- Jason Swails (Wed Jul 13 2016 - 19:12:59 PDT)
- Neha Gandhi (Wed Jul 13 2016 - 18:43:15 PDT)
- Carlos Simmerling (Wed Jul 13 2016 - 18:20:18 PDT)
- Neha Gandhi (Wed Jul 13 2016 - 18:18:31 PDT)
[AMBER] charmmlipid2amber not found
- Adrian Roitberg (Mon Jul 25 2016 - 09:14:31 PDT)
- Kshatresh Dutta Dubey (Mon Jul 25 2016 - 08:26:03 PDT)
- David A Case (Mon Jul 25 2016 - 07:16:43 PDT)
- Kshatresh Dutta Dubey (Mon Jul 25 2016 - 01:08:23 PDT)
[AMBER] Compute SASA through molsurf
- Francesco Gentile (Wed Jul 13 2016 - 15:02:21 PDT)
[AMBER] convert amber topology and coordinates files into gromacs topology
- David A Case (Thu Jul 07 2016 - 20:45:20 PDT)
- Ming Tang (Thu Jul 07 2016 - 19:21:35 PDT)
- Ming Tang (Thu Jul 07 2016 - 19:06:57 PDT)
- Jason Swails (Sun Jul 03 2016 - 19:57:49 PDT)
- Ming Tang (Sun Jul 03 2016 - 17:27:47 PDT)
[AMBER] CPPTRAJ
- Jason Swails (Mon Jul 25 2016 - 08:10:08 PDT)
- Anna Cebrian Prats (Thu Jul 21 2016 - 03:30:20 PDT)
- Hai Nguyen (Sun Jul 17 2016 - 22:15:12 PDT)
- Dd H (Sun Jul 17 2016 - 18:13:15 PDT)
- Hai Nguyen (Sun Jul 17 2016 - 09:25:25 PDT)
- Hai Nguyen (Sun Jul 17 2016 - 09:24:22 PDT)
- Dd H (Sun Jul 17 2016 - 05:57:55 PDT)
[AMBER] Cpptraj - Stat bug?
- Daniel Roe (Fri Jul 29 2016 - 07:17:48 PDT)
- Markus Schneider (Fri Jul 29 2016 - 06:56:43 PDT)
- Daniel Roe (Thu Jul 28 2016 - 16:00:16 PDT)
- Daniel Roe (Thu Jul 28 2016 - 15:03:33 PDT)
- Daniel Roe (Thu Jul 28 2016 - 14:05:17 PDT)
- Markus Schneider (Fri Jul 22 2016 - 05:22:44 PDT)
[AMBER] cpptraj grid command multiple trajectories
- Daniel Roe (Tue Jul 26 2016 - 13:31:34 PDT)
- Sarah Graham (Tue Jul 26 2016 - 13:26:12 PDT)
- Daniel Roe (Tue Jul 26 2016 - 12:11:19 PDT)
- Sarah Graham (Tue Jul 26 2016 - 10:17:47 PDT)
[AMBER] cpptraj.hbond: water in the complex
- Daniel Roe (Fri Jul 01 2016 - 10:37:12 PDT)
- chemjxn (Thu Jun 30 2016 - 18:10:42 PDT)
[AMBER] Create x.out and x.rst from x.mdcrd
- David A Case (Sat Jul 23 2016 - 07:17:02 PDT)
- Mijiddorj Batsaikhan (Sat Jul 23 2016 - 06:27:54 PDT)
[AMBER] Creating topology file in MMPBSA
- Jason Swails (Mon Jul 25 2016 - 08:05:41 PDT)
- Hirdesh Kumar (Mon Jul 25 2016 - 07:25:39 PDT)
- Anwesha Sarkar (Mon Jul 25 2016 - 05:51:35 PDT)
[AMBER] Decomposition in minimization step
- Daniel Roe (Wed Jul 13 2016 - 07:22:10 PDT)
- Atila Petrosian (Tue Jul 12 2016 - 23:14:57 PDT)
[AMBER] Defining reaction coordinate for US
- bharat gupta (Thu Jul 07 2016 - 01:38:33 PDT)
[AMBER] Dielectric asymptotic parameter of mixtures for DRISM in rism1d
- Shijie Sheng (Wed Jul 20 2016 - 17:14:41 PDT)
- Tyler Luchko (Lists) (Wed Jul 20 2016 - 16:28:46 PDT)
- Shijie Sheng (Wed Jul 20 2016 - 16:01:48 PDT)
- Tyler Luchko (Lists) (Wed Jul 20 2016 - 10:48:34 PDT)
- Shijie Sheng (Tue Jul 19 2016 - 23:14:25 PDT)
[AMBER] Difference of two trajectories
- C.D. Okafor (Wed Jul 20 2016 - 14:25:54 PDT)
[AMBER] Discrepancy between mdcrd and output files for MD run
- Carlos Simmerling (Sun Jul 17 2016 - 14:08:21 PDT)
- jandre17 (Sun Jul 17 2016 - 13:21:31 PDT)
[AMBER] DPPC simulation temperature
- gsottile.unq.edu.ar (Wed Jul 06 2016 - 14:15:35 PDT)
[AMBER] dssp xlabel conversion.
- Daniel Roe (Sat Jul 30 2016 - 07:41:26 PDT)
- Saman Yousuf ali (Sat Jul 30 2016 - 00:38:04 PDT)
[AMBER] EEL become ****** in minimization
- David A Case (Thu Jul 28 2016 - 15:46:38 PDT)
- Thakur, Abhishek (Thu Jul 28 2016 - 11:37:42 PDT)
- Suguru ASAI (Thu Jul 28 2016 - 08:15:55 PDT)
- Osman, Roman (Thu Jul 28 2016 - 08:00:56 PDT)
- David Cerutti (Thu Jul 28 2016 - 07:44:08 PDT)
- Suguru ASAI (Thu Jul 28 2016 - 07:04:56 PDT)
[AMBER] Energy overflow in MD with distance restraint under PBC (aMD problem?)
- David A Case (Fri Jul 22 2016 - 09:36:56 PDT)
- Stephan Schott (Thu Jul 21 2016 - 10:25:49 PDT)
[AMBER] Error cuda
- Anna Cebrian Prats (Tue Jul 26 2016 - 07:33:39 PDT)
[AMBER] Error during amber 12 installation
- Daniel Roe (Tue Jul 05 2016 - 06:38:04 PDT)
- bharat gupta (Tue Jul 05 2016 - 06:07:37 PDT)
[AMBER] Error MCPB when send the input
- Pengfei Li (Tue Jul 26 2016 - 07:28:45 PDT)
- Tiffani Rovira (Mon Jul 25 2016 - 10:05:23 PDT)
[AMBER] Exposed hydrophobic surface area
- Daniel Roe (Fri Jul 29 2016 - 19:15:05 PDT)
- anu chandra (Fri Jul 29 2016 - 16:50:43 PDT)
[AMBER] Failed to solvate the molecule during the TUTORIAL A8
- Kenneth Huang (Tue Jul 26 2016 - 06:14:33 PDT)
- Nikolay N. Kuzmich (Tue Jul 26 2016 - 04:18:49 PDT)
[AMBER] ff14SB compatible with Glycam_06j-1?
- David A Case (Sat Jul 16 2016 - 05:42:27 PDT)
- yunshi11 . (Sat Jul 16 2016 - 03:06:13 PDT)
[AMBER] ff99SB*-ildn again
- Vlad Cojocaru (Thu Jul 14 2016 - 07:45:45 PDT)
- Jason Swails (Thu Jul 14 2016 - 06:58:00 PDT)
- Vlad Cojocaru (Thu Jul 14 2016 - 05:21:29 PDT)
- Neha Gandhi (Thu Jul 14 2016 - 05:10:15 PDT)
- Vlad Cojocaru (Thu Jul 14 2016 - 05:03:27 PDT)
- Vlad Cojocaru (Thu Jul 14 2016 - 04:59:25 PDT)
- David A Case (Thu Jul 14 2016 - 04:50:28 PDT)
- Thomas Evangelidis (Thu Jul 14 2016 - 04:40:37 PDT)
- Vlad Cojocaru (Thu Jul 14 2016 - 03:31:22 PDT)
- Vlad Cojocaru (Thu Jul 14 2016 - 03:28:54 PDT)
- Alessandro Contini (Thu Jul 14 2016 - 02:57:24 PDT)
- Neha Gandhi (Thu Jul 14 2016 - 02:45:37 PDT)
- Vlad Cojocaru (Thu Jul 14 2016 - 00:56:23 PDT)
- Neha Gandhi (Wed Jul 13 2016 - 23:47:07 PDT)
[AMBER] figure legend problem in the tutorial?
- Robin Betz (Fri Jul 29 2016 - 13:25:33 PDT)
- Albert (Fri Jul 29 2016 - 12:50:53 PDT)
[AMBER] Gaussian error with MCPB ion modeling calculation
- Bilal Nizami (Fri Jul 22 2016 - 01:19:36 PDT)
[AMBER] Generating a HETATM database to use with reduce
- Kucharski Jr., Amir N (Fri Jul 15 2016 - 13:58:00 PDT)
- David A Case (Fri Jul 15 2016 - 11:30:31 PDT)
- Kucharski Jr., Amir N (Fri Jul 15 2016 - 09:51:46 PDT)
- David A Case (Fri Jul 15 2016 - 05:12:18 PDT)
- Kucharski Jr., Amir N (Thu Jul 14 2016 - 18:04:54 PDT)
- David A Case (Thu Jul 14 2016 - 17:51:23 PDT)
- Kucharski Jr., Amir N (Wed Jul 13 2016 - 21:01:37 PDT)
[AMBER] GLYCAM naming
- Lachele Foley (Thu Jul 07 2016 - 12:45:13 PDT)
- Fabrício Bracht (Thu Jul 07 2016 - 11:56:05 PDT)
[AMBER] Gunning GIST in parallel
- Daniel Roe (Thu Jul 07 2016 - 08:04:56 PDT)
- ATUL KUMAR (Thu Jul 07 2016 - 03:05:07 PDT)
[AMBER] Help with SMD
- Feng Pan (Tue Jul 12 2016 - 10:21:08 PDT)
- bharat gupta (Tue Jul 12 2016 - 01:02:31 PDT)
[AMBER] Help with Umbrella Sampling
- bharat gupta (Tue Jul 05 2016 - 22:31:57 PDT)
[AMBER] Help: make test fails during parallel amber installation
- Hai Nguyen (Thu Jun 30 2016 - 22:34:47 PDT)
- Dr. M. K. Yadav (Thu Jun 30 2016 - 20:52:03 PDT)
[AMBER] Hii
- Daniel Roe (Sun Jul 31 2016 - 06:58:12 PDT)
- ankita mehta (Sun Jul 31 2016 - 06:22:34 PDT)
[AMBER] HMR 4fs failure?
- Gerald Monard (Fri Jul 15 2016 - 15:12:48 PDT)
- Gerald Monard (Fri Jul 15 2016 - 14:56:11 PDT)
- David Cerutti (Fri Jul 15 2016 - 14:53:32 PDT)
- Adrian Roitberg (Fri Jul 15 2016 - 14:18:14 PDT)
- Gerald Monard (Fri Jul 15 2016 - 14:14:44 PDT)
- David Cerutti (Fri Jul 15 2016 - 12:57:50 PDT)
- Hai Nguyen (Fri Jul 15 2016 - 12:56:10 PDT)
- Gerald Monard (Fri Jul 15 2016 - 12:54:29 PDT)
[AMBER] how to fix COM of a group of atoms?
- Ming Tang (Tue Jul 19 2016 - 15:50:45 PDT)
- Ming Tang (Fri Jul 15 2016 - 00:03:56 PDT)
- Thakur, Abhishek (Mon Jul 11 2016 - 13:51:31 PDT)
- Jason Swails (Mon Jul 11 2016 - 10:34:35 PDT)
- Ming Tang (Sun Jul 10 2016 - 17:45:19 PDT)
- Himanshu Joshi (Sat Jul 09 2016 - 22:02:10 PDT)
- Ming Tang (Fri Jul 08 2016 - 06:01:05 PDT)
[AMBER] How to modify forcefield to use TIP4P-D water model
- Suguru ASAI (Wed Jul 27 2016 - 20:03:17 PDT)
- David A Case (Wed Jul 27 2016 - 05:44:05 PDT)
- Suguru ASAI (Wed Jul 27 2016 - 03:24:29 PDT)
[AMBER] hydrogen bond occupancy plot cpptraj
- Saman Yousuf ali (Sat Jul 30 2016 - 15:15:59 PDT)
[AMBER] ibelly to fix protein.
- Saman Yousuf ali (Mon Jul 25 2016 - 05:21:49 PDT)
[AMBER] Implicit solvent with Glycam force field
- David A Case (Mon Jul 25 2016 - 07:08:52 PDT)
- Carlos Simmerling (Mon Jul 25 2016 - 04:00:56 PDT)
- Lachele Foley (Sun Jul 24 2016 - 19:27:01 PDT)
- yunshi11 . (Sun Jul 24 2016 - 17:58:48 PDT)
[AMBER] InVacuoWithDielc
- David A Case (Sat Jul 30 2016 - 07:51:01 PDT)
- JAIME RUBIO MARTINEZ (Thu Jul 28 2016 - 23:38:17 PDT)
[AMBER] Is the surf or the molsurf calculate the protein surface?
- David A Case (Wed Jul 20 2016 - 06:46:27 PDT)
- Windy CC (Tue Jul 19 2016 - 19:46:15 PDT)
- David A Case (Sun Jul 17 2016 - 04:27:27 PDT)
- windy (Thu Jul 14 2016 - 19:08:02 PDT)
- windy (Thu Jul 14 2016 - 01:44:08 PDT)
[AMBER] iwrap=0
- Daniel Roe (Tue Jul 05 2016 - 04:56:49 PDT)
- Ming Tang (Tue Jul 05 2016 - 04:25:13 PDT)
[AMBER] Library errors while using NAB on Amber16
- Slava Chushak (Mon Jul 11 2016 - 07:22:52 PDT)
- David A Case (Fri Jul 08 2016 - 13:22:49 PDT)
- Slava Chushak (Fri Jul 08 2016 - 07:15:55 PDT)
[AMBER] ligand bond distortion during MD run.
- Daniel Roe (Fri Jul 08 2016 - 13:12:26 PDT)
- zoran matovic (Fri Jul 08 2016 - 11:20:04 PDT)
- Saman Yousuf ali (Fri Jul 08 2016 - 10:48:21 PDT)
[AMBER] Ligand RMSD
- anu chandra (Tue Jul 19 2016 - 07:59:01 PDT)
- David A Case (Mon Jul 18 2016 - 12:49:48 PDT)
- anu chandra (Mon Jul 18 2016 - 10:27:26 PDT)
[AMBER] Lipid14 with ntr=1
- Himanshu Joshi (Sat Jul 09 2016 - 12:49:24 PDT)
- Himanshu Joshi (Mon Jul 04 2016 - 00:17:39 PDT)
[AMBER] make test.cuda failed
- Marcos Serrou do Amaral (Thu Jul 28 2016 - 07:53:03 PDT)
- Nikolay N. Kuzmich (Thu Jul 28 2016 - 06:50:52 PDT)
[AMBER] MCPB
- Fabrício Bracht (Thu Jul 07 2016 - 13:53:58 PDT)
- Pengfei Li (Thu Jul 07 2016 - 13:46:35 PDT)
- Fabrício Bracht (Wed Jul 06 2016 - 12:51:37 PDT)
- Fabrício Bracht (Wed Jul 06 2016 - 10:51:27 PDT)
- Pengfei Li (Tue Jul 05 2016 - 18:17:54 PDT)
- Fabrício Bracht (Tue Jul 05 2016 - 10:27:37 PDT)
- Fabrício Bracht (Tue Jul 05 2016 - 10:16:39 PDT)
- Pengfei Li (Mon Jul 04 2016 - 20:05:39 PDT)
- Pengfei Li (Mon Jul 04 2016 - 16:19:57 PDT)
- Marcelo Andrade Chagas (Mon Jul 04 2016 - 13:02:54 PDT)
- Fabrício Bracht (Mon Jul 04 2016 - 11:49:16 PDT)
- Fabrício Bracht (Fri Jul 01 2016 - 16:29:58 PDT)
[AMBER] MCPB.py
- Marcelo Andrade Chagas (Wed Jul 20 2016 - 06:53:33 PDT)
- Anna Cebrian Prats (Wed Jul 20 2016 - 06:44:08 PDT)
[AMBER] MCPB.py - coordinate sphere FE
- Anna Cebrian Prats (Wed Jul 20 2016 - 07:35:15 PDT)
- Pengfei Li (Wed Jul 20 2016 - 07:16:34 PDT)
- Anna Cebrian Prats (Wed Jul 20 2016 - 05:44:01 PDT)
[AMBER] MCPB.py cannot recognize Cl
- Pengfei Li (Mon Jul 11 2016 - 12:18:19 PDT)
- Zhenyu Meng (Mon Jul 11 2016 - 01:16:20 PDT)
- Pengfei Li (Sat Jul 09 2016 - 08:50:56 PDT)
- zoran matovic (Fri Jul 08 2016 - 02:10:08 PDT)
- zoran matovic (Fri Jul 08 2016 - 02:06:05 PDT)
- Zhenyu Meng (Fri Jul 08 2016 - 01:55:21 PDT)
- zoran matovic (Fri Jul 08 2016 - 01:16:13 PDT)
- Zhenyu Meng (Fri Jul 08 2016 - 00:22:47 PDT)
- Pengfei Li (Tue Jul 05 2016 - 18:21:11 PDT)
- Zhenyu Meng (Mon Jul 04 2016 - 23:44:08 PDT)
- zoran matovic (Mon Jul 04 2016 - 23:37:28 PDT)
- Zhenyu Meng (Mon Jul 04 2016 - 23:29:43 PDT)
- zoran matovic (Mon Jul 04 2016 - 23:12:58 PDT)
- Zhenyu Meng (Mon Jul 04 2016 - 20:38:31 PDT)
- Zhenyu Meng (Mon Jul 04 2016 - 20:23:43 PDT)
- Pengfei Li (Mon Jul 04 2016 - 20:17:21 PDT)
- Zhenyu Meng (Mon Jul 04 2016 - 20:14:32 PDT)
- Pengfei Li (Mon Jul 04 2016 - 20:07:43 PDT)
- Zhenyu Meng (Mon Jul 04 2016 - 20:00:11 PDT)
[AMBER] MD of an elongated active site protein.
- Saman Yousuf ali (Sat Jul 09 2016 - 07:58:02 PDT)
[AMBER] MD simulation can not proceed normally
- Carlos Simmerling (Thu Jul 21 2016 - 04:54:41 PDT)
- 乔艳 (Thu Jul 21 2016 - 04:31:22 PDT)
[AMBER] MDCRD
- David A Case (Sat Jul 23 2016 - 07:11:01 PDT)
- nida baig (Sat Jul 23 2016 - 00:46:45 PDT)
- David A Case (Fri Jul 22 2016 - 05:29:04 PDT)
- nida baig (Fri Jul 22 2016 - 04:19:49 PDT)
[AMBER] MDGX tutorial?
- Dickson, Callum J (Mon Jul 25 2016 - 15:40:42 PDT)
- David Cerutti (Mon Jul 25 2016 - 13:50:24 PDT)
- Dickson, Callum J (Mon Jul 25 2016 - 13:20:01 PDT)
[AMBER] Minimization of a small molecule in gas phase
- David A Case (Thu Jul 21 2016 - 18:23:46 PDT)
- David A Case (Thu Jul 21 2016 - 18:22:45 PDT)
- Tiffani Rovira (Thu Jul 21 2016 - 08:31:38 PDT)
[AMBER] MMPBSA
- Thakur, Abhishek (Mon Jul 11 2016 - 14:33:41 PDT)
- Hai Nguyen (Mon Jul 11 2016 - 13:57:53 PDT)
- Thakur, Abhishek (Mon Jul 11 2016 - 13:53:27 PDT)
- Hai Nguyen (Mon Jul 11 2016 - 13:49:37 PDT)
- Thakur, Abhishek (Mon Jul 11 2016 - 13:46:54 PDT)
- Hai Nguyen (Mon Jul 11 2016 - 13:41:40 PDT)
- Thakur, Abhishek (Mon Jul 11 2016 - 13:31:32 PDT)
- Thakur, Abhishek (Fri Jul 08 2016 - 14:14:08 PDT)
- Daniel Roe (Fri Jul 08 2016 - 13:09:46 PDT)
- Thakur, Abhishek (Fri Jul 08 2016 - 11:42:13 PDT)
- Thakur, Abhishek (Fri Jul 08 2016 - 11:38:34 PDT)
- Thakur, Abhishek (Fri Jul 08 2016 - 11:20:25 PDT)
- Hai Nguyen (Fri Jul 08 2016 - 11:07:46 PDT)
- Thakur, Abhishek (Fri Jul 08 2016 - 11:02:45 PDT)
- Nhai (Fri Jul 08 2016 - 10:03:40 PDT)
- Thakur, Abhishek (Fri Jul 08 2016 - 09:57:16 PDT)
[AMBER] MMPBSA (inp=1 or inp=2)??
- Ray Luo (Fri Jul 15 2016 - 13:30:27 PDT)
- Ray Luo (Fri Jul 15 2016 - 13:27:42 PDT)
- Thakur, Abhishek (Fri Jul 15 2016 - 09:16:14 PDT)
- Thakur, Abhishek (Fri Jul 15 2016 - 08:53:44 PDT)
[AMBER] MMPBSA (MD or aMD)
- Daniel Roe (Fri Jul 29 2016 - 19:13:46 PDT)
- Jason Swails (Fri Jul 29 2016 - 17:43:05 PDT)
- Thakur, Abhishek (Fri Jul 29 2016 - 13:40:11 PDT)
- Thakur, Abhishek (Fri Jul 29 2016 - 13:04:38 PDT)
- Jason Swails (Fri Jul 29 2016 - 12:56:39 PDT)
- Thakur, Abhishek (Fri Jul 29 2016 - 12:27:21 PDT)
[AMBER] MMPBSA -O: command not found
- David A Case (Sat Jul 02 2016 - 04:50:23 PDT)
- Thakur, Abhishek (Fri Jul 01 2016 - 13:26:51 PDT)
- Hai Nguyen (Fri Jul 01 2016 - 13:17:11 PDT)
- Thakur, Abhishek (Fri Jul 01 2016 - 12:58:38 PDT)
[AMBER] MMPBSA.py for complex or receptor or ligand only
- Jason Swails (Fri Jul 15 2016 - 10:53:38 PDT)
- Bruno Falcone (Fri Jul 15 2016 - 07:10:17 PDT)
[AMBER] mmpbsa.py to calculate binding energy between protein and a ligand when there are two ligands combined with the protein.
- Hai Nguyen (Mon Jul 11 2016 - 21:56:28 PDT)
- Hai Nguyen (Mon Jul 11 2016 - 21:36:02 PDT)
- Thakur, Abhishek (Mon Jul 11 2016 - 21:21:20 PDT)
- Jason Swails (Mon Jul 11 2016 - 20:13:12 PDT)
- ZHU JH (Mon Jul 11 2016 - 19:55:27 PDT)
- Jason Swails (Mon Jul 11 2016 - 10:33:02 PDT)
- Thakur, Abhishek (Mon Jul 11 2016 - 08:50:46 PDT)
- 朱婧涵 (Mon Jul 11 2016 - 02:19:28 PDT)
[AMBER] modified potentials
- David Cerutti (Fri Jul 29 2016 - 09:33:22 PDT)
- Carlos Simmerling (Fri Jul 29 2016 - 08:46:14 PDT)
- Irem Altan (Fri Jul 29 2016 - 08:38:13 PDT)
- David Cerutti (Fri Jul 29 2016 - 07:55:31 PDT)
- Irem Altan (Fri Jul 29 2016 - 06:52:07 PDT)
[AMBER] Multiple Replicas on a Single GPU
- Bin Sun (Tue Jul 19 2016 - 18:12:32 PDT)
[AMBER] Multiplicity in antechamber
- Jason Swails (Wed Jul 06 2016 - 13:35:12 PDT)
- Fabrício Bracht (Wed Jul 06 2016 - 11:22:44 PDT)
[AMBER] NAB
- ABHIJEET CHOWDHURY (Sat Jul 23 2016 - 06:23:04 PDT)
- Indrajit Deb (Sat Jul 23 2016 - 05:07:57 PDT)
- ABHIJEET CHOWDHURY (Sat Jul 23 2016 - 05:02:06 PDT)
[AMBER] NEW parameters with AMBER
- Anna Cebrian Prats (Thu Jul 14 2016 - 06:52:43 PDT)
- David A Case (Thu Jul 14 2016 - 04:59:06 PDT)
- Anna Cebrian Prats (Thu Jul 14 2016 - 02:55:16 PDT)
[AMBER] NMode binding entropy Error -- Line minimizer aborted
- David A Case (Sat Jul 23 2016 - 07:14:18 PDT)
- 康宁 (Sat Jul 23 2016 - 03:16:24 PDT)
[AMBER] NMR restraint
- David A Case (Fri Jul 29 2016 - 06:35:08 PDT)
- Ming Tang (Thu Jul 28 2016 - 17:36:35 PDT)
- Ming Tang (Sun Jul 24 2016 - 17:51:17 PDT)
- Ming Tang (Wed Jul 20 2016 - 18:21:19 PDT)
- Ming Tang (Wed Jul 20 2016 - 18:10:54 PDT)
- David A Case (Wed Jul 20 2016 - 14:31:39 PDT)
- Ming Tang (Wed Jul 20 2016 - 06:18:07 PDT)
[AMBER] NMR restraints not responding to 'value' flags in AMBER16 (pmemd.cuda)
- David A Case (Tue Jul 26 2016 - 13:40:52 PDT)
- Wesley Michael Botello-Smith (Tue Jul 26 2016 - 11:11:37 PDT)
- David A Case (Mon Jul 25 2016 - 19:13:47 PDT)
- Wesley Michael Botello-Smith (Mon Jul 25 2016 - 16:17:14 PDT)
- Wesley Michael Botello-Smith (Mon Jul 25 2016 - 14:29:00 PDT)
- Wesley Michael Botello-Smith (Mon Jul 25 2016 - 10:52:11 PDT)
- Adrian Roitberg (Mon Jul 25 2016 - 10:23:20 PDT)
- Wesley Michael Botello-Smith (Mon Jul 25 2016 - 10:21:31 PDT)
- ankita mehta (Mon Jul 25 2016 - 00:34:56 PDT)
- ankita mehta (Mon Jul 25 2016 - 00:32:58 PDT)
- David A Case (Sat Jul 23 2016 - 15:22:44 PDT)
- ankita mehta (Sat Jul 23 2016 - 10:39:23 PDT)
- Wesley Michael Botello-Smith (Sat Jul 23 2016 - 09:39:05 PDT)
- David A Case (Sat Jul 23 2016 - 07:05:33 PDT)
- ankita mehta (Sat Jul 23 2016 - 01:09:16 PDT)
- Wesley Michael Botello-Smith (Fri Jul 22 2016 - 16:01:12 PDT)
[AMBER] ntr vs ibelly.
- David A Case (Tue Jul 26 2016 - 07:40:17 PDT)
- Barbault Florent (Tue Jul 26 2016 - 03:56:24 PDT)
- Saman Yousuf ali (Tue Jul 26 2016 - 03:45:06 PDT)
- Adrian Roitberg (Tue Jul 26 2016 - 03:28:16 PDT)
- Barbault Florent (Tue Jul 26 2016 - 03:13:21 PDT)
- Saman Yousuf ali (Tue Jul 26 2016 - 02:38:42 PDT)
[AMBER] paramfit
- Robin Betz (Fri Jul 29 2016 - 13:31:54 PDT)
- David Cerutti (Wed Jul 27 2016 - 10:02:02 PDT)
- Igor Marques (Wed Jul 27 2016 - 09:34:45 PDT)
[AMBER] ParmEd
- Neha Gandhi (Mon Jul 04 2016 - 20:37:26 PDT)
- Jason Swails (Mon Jul 04 2016 - 19:30:16 PDT)
- Daniel Roe (Mon Jul 04 2016 - 19:22:01 PDT)
- Neha Gandhi (Mon Jul 04 2016 - 19:09:06 PDT)
- Jason Swails (Mon Jul 04 2016 - 18:50:43 PDT)
- Neha Gandhi (Mon Jul 04 2016 - 18:10:04 PDT)
- Hai Nguyen (Mon Jul 04 2016 - 08:34:12 PDT)
- Neha Gandhi (Mon Jul 04 2016 - 01:26:46 PDT)
[AMBER] parmed chamber
- Neha Gandhi (Fri Jul 22 2016 - 06:14:30 PDT)
- Song-Ho Chong (Fri Jul 22 2016 - 05:57:13 PDT)
- Neha Gandhi (Fri Jul 22 2016 - 05:35:23 PDT)
- David A Case (Fri Jul 22 2016 - 05:33:02 PDT)
- Neha Gandhi (Fri Jul 22 2016 - 04:58:50 PDT)
[AMBER] Patching Plumed 1.3 with Amber12
- bharat gupta (Thu Jul 07 2016 - 18:04:39 PDT)
[AMBER] phosphorylated residues
- Carlos Simmerling (Tue Jul 19 2016 - 03:38:35 PDT)
- Neha Gandhi (Mon Jul 18 2016 - 23:40:36 PDT)
[AMBER] Potential on each atom
- Jason Swails (Wed Jul 06 2016 - 07:38:05 PDT)
- Elisa Pieri (Wed Jul 06 2016 - 07:17:51 PDT)
- Elisa Pieri (Wed Jul 06 2016 - 02:11:55 PDT)
- Adrian Roitberg (Tue Jul 05 2016 - 11:21:39 PDT)
- Jason Swails (Tue Jul 05 2016 - 11:17:49 PDT)
- Elisa Pieri (Tue Jul 05 2016 - 09:20:24 PDT)
- Adrian Roitberg (Mon Jul 04 2016 - 09:23:33 PDT)
- Elisa Pieri (Mon Jul 04 2016 - 07:43:20 PDT)
[AMBER] predicting RDCs for un-restrained bonds
- Thomas Pochapsky (Tue Jul 12 2016 - 05:36:35 PDT)
- David A Case (Mon Jul 11 2016 - 18:36:38 PDT)
- Thomas Pochapsky (Mon Jul 11 2016 - 06:23:03 PDT)
[AMBER] Problem setting AMBERHOME as environment variable Ambertools 16 Linux
- Daniel Roe (Fri Jul 29 2016 - 09:24:25 PDT)
- Elissa Fink (Fri Jul 29 2016 - 09:15:59 PDT)
[AMBER] Problem to extending Simulation
- David A Case (Thu Jul 07 2016 - 05:43:22 PDT)
- Bill Ross (Thu Jul 07 2016 - 01:37:41 PDT)
- ATUL KUMAR (Wed Jul 06 2016 - 23:23:27 PDT)
- Daniel Roe (Wed Jul 06 2016 - 08:32:18 PDT)
- ATUL KUMAR (Wed Jul 06 2016 - 06:43:27 PDT)
- Jason Swails (Wed Jul 06 2016 - 05:53:00 PDT)
- ATUL KUMAR (Wed Jul 06 2016 - 04:38:16 PDT)
[AMBER] Problem with Gaussian09 with B97D/def2TZVPPD basis set from EMSL
- Indrajit Deb (Thu Jul 14 2016 - 05:55:07 PDT)
[AMBER] Problem with Gaussian09 with B97D/def2TZVPPD basis set fromEMSL
- zoran matovic (Thu Jul 14 2016 - 06:22:32 PDT)
[AMBER] Proton wanders away from tryptophan and histadine sidechain carbon
- Carlos Simmerling (Tue Jul 19 2016 - 08:23:06 PDT)
- Ross Cheloha (Tue Jul 19 2016 - 07:50:53 PDT)
[AMBER] Proton wanders away from tryptophan and histidine sidechain carbon
- David A Case (Wed Jul 20 2016 - 14:40:58 PDT)
- Ross Cheloha (Wed Jul 20 2016 - 07:53:04 PDT)
[AMBER] QM/MM issue
- Dr. Andreas W. Goetz (Thu Jul 07 2016 - 21:41:22 PDT)
- Morteza Chehel Amirani (Thu Jul 07 2016 - 14:13:10 PDT)
[AMBER] QM/MM problems with Amber/Gaussian
- Adrian Roitberg (Tue Jul 12 2016 - 08:17:23 PDT)
- Allen Zou (Tue Jul 12 2016 - 08:11:25 PDT)
[AMBER] QM/MM simulations with Amber/deMon2k
- Joan Torras (Thu Jul 07 2016 - 23:18:29 PDT)
- Andreas Goetz (Thu Jul 07 2016 - 21:04:52 PDT)
- Morteza Chehel Amirani (Thu Jul 07 2016 - 14:19:53 PDT)
[AMBER] Query on SMD
- Ming Tang (Wed Jul 06 2016 - 14:49:02 PDT)
[AMBER] Question about Charge derivation for GLYCAM force field
- Lachele Foley (Mon Jul 04 2016 - 22:44:00 PDT)
- Casalini Tommaso (Mon Jul 04 2016 - 07:03:00 PDT)
[AMBER] Question about QM/MM
- Dr. Andreas W. Goetz (Fri Jul 29 2016 - 18:14:30 PDT)
- Anna Cebrian Prats (Fri Jul 29 2016 - 06:45:19 PDT)
[AMBER] Question on SMD
- Ming Tang (Wed Jul 06 2016 - 14:46:02 PDT)
[AMBER] RDF
- David A Case (Mon Jul 18 2016 - 12:56:03 PDT)
- Mahmood Jasim (Mon Jul 18 2016 - 10:32:45 PDT)
[AMBER] re-imaging bilayer
- Sally Pias (Tue Jul 19 2016 - 19:49:20 PDT)
- Amy Rice (Thu Jul 07 2016 - 09:12:48 PDT)
- Dickson, Callum J (Thu Jul 07 2016 - 08:43:37 PDT)
- Daniel Roe (Thu Jul 07 2016 - 07:37:57 PDT)
- Sally Pias (Thu Jul 07 2016 - 06:41:17 PDT)
[AMBER] Regarding GIST calculation
- Steven Ramsey (Fri Jul 01 2016 - 07:12:03 PDT)
- ATUL KUMAR (Thu Jun 30 2016 - 22:51:58 PDT)
[AMBER] Regarding ho parameter in gaff
- David A Case (Sat Jul 02 2016 - 05:51:11 PDT)
[AMBER] Regarding Parameter file not saved
- zoran matovic (Tue Jul 19 2016 - 01:00:24 PDT)
- zoran matovic (Mon Jul 18 2016 - 14:10:43 PDT)
- zoran matovic (Mon Jul 18 2016 - 11:58:58 PDT)
- Nhai (Mon Jul 18 2016 - 09:06:52 PDT)
- Thakur, Abhishek (Mon Jul 18 2016 - 09:06:41 PDT)
- Vishal Nemaysh (Mon Jul 18 2016 - 08:17:02 PDT)
- Aleksandra Skoric (Mon Jul 18 2016 - 06:21:31 PDT)
- Bilal Nizami (Mon Jul 18 2016 - 04:58:42 PDT)
- Vishal Nemaysh (Mon Jul 18 2016 - 03:09:37 PDT)
- Vishal Nemaysh (Mon Jul 18 2016 - 02:31:42 PDT)
- Hai Nguyen (Sun Jul 17 2016 - 11:15:28 PDT)
- Vishal Nemaysh (Sun Jul 17 2016 - 10:52:32 PDT)
[AMBER] REMD Reg
- Hai Nguyen (Mon Jul 18 2016 - 20:33:22 PDT)
- Annie Ancy (Fri Jul 15 2016 - 04:23:18 PDT)
[AMBER] Remove rotation in postoprocess
- Jean-Marc Billod (Wed Jul 20 2016 - 13:25:49 PDT)
- Fabrício Bracht (Wed Jul 20 2016 - 13:15:31 PDT)
[AMBER] Restrain COM of a group of atoms
- Ming Tang (Sat Jul 09 2016 - 18:18:11 PDT)
[AMBER] restraintmask: select residues around the coordinates of a point
- David A Case (Mon Jul 25 2016 - 18:47:32 PDT)
- Thomas Evangelidis (Mon Jul 25 2016 - 15:02:09 PDT)
- David A Case (Mon Jul 25 2016 - 14:03:06 PDT)
- Thomas Evangelidis (Mon Jul 25 2016 - 11:03:11 PDT)
- David A Case (Mon Jul 25 2016 - 07:05:18 PDT)
- Thomas Evangelidis (Sun Jul 24 2016 - 16:51:43 PDT)
[AMBER] rism1d convergence for solvent mixtures
- sshen004.ucr.edu (Mon Jul 11 2016 - 19:32:55 PDT)
- Tyler Luchko (Lists) (Mon Jul 11 2016 - 19:18:25 PDT)
- Shijie Sheng (Mon Jul 11 2016 - 16:30:42 PDT)
[AMBER] rmsd calculations on multiple trajectories
- Daniel Roe (Fri Jul 29 2016 - 14:52:49 PDT)
- Hirdesh Kumar (Fri Jul 29 2016 - 14:33:19 PDT)
- Daniel Roe (Fri Jul 29 2016 - 14:27:59 PDT)
- Hirdesh Kumar (Fri Jul 29 2016 - 14:25:26 PDT)
- Daniel Roe (Fri Jul 29 2016 - 14:20:36 PDT)
- Hirdesh Kumar (Fri Jul 29 2016 - 14:09:45 PDT)
- Daniel Roe (Fri Jul 29 2016 - 13:45:57 PDT)
- Hirdesh Kumar (Fri Jul 29 2016 - 12:52:31 PDT)
- Hai Nguyen (Fri Jul 29 2016 - 12:02:38 PDT)
- Carlos Simmerling (Fri Jul 29 2016 - 08:47:23 PDT)
- Daniel Roe (Fri Jul 29 2016 - 08:36:35 PDT)
- Daniel Roe (Fri Jul 29 2016 - 08:34:25 PDT)
- Carlos Simmerling (Fri Jul 29 2016 - 08:30:34 PDT)
- Hirdesh Kumar (Fri Jul 29 2016 - 08:08:34 PDT)
- Carlos Simmerling (Fri Jul 29 2016 - 08:04:33 PDT)
- Hirdesh Kumar (Fri Jul 29 2016 - 08:00:03 PDT)
- Daniel Roe (Fri Jul 29 2016 - 07:31:56 PDT)
- Hirdesh Kumar (Fri Jul 29 2016 - 05:26:54 PDT)
[AMBER] rmsd plot error
- Vlad Cojocaru (Fri Jul 08 2016 - 08:17:34 PDT)
- zoran matovic (Fri Jul 08 2016 - 07:48:24 PDT)
- Daniel Roe (Fri Jul 08 2016 - 07:47:46 PDT)
- Vlad Cojocaru (Fri Jul 08 2016 - 07:29:45 PDT)
- zoran matovic (Fri Jul 08 2016 - 07:13:07 PDT)
- Saman Yousuf ali (Fri Jul 08 2016 - 05:58:19 PDT)
- Vlad Cojocaru (Fri Jul 08 2016 - 05:47:48 PDT)
- Saman Yousuf ali (Fri Jul 08 2016 - 05:28:28 PDT)
- Vlad Cojocaru (Fri Jul 08 2016 - 05:17:23 PDT)
- Saman Yousuf ali (Fri Jul 08 2016 - 04:42:08 PDT)
- zoran matovic (Fri Jul 08 2016 - 04:17:00 PDT)
- Saman Yousuf ali (Fri Jul 08 2016 - 03:55:51 PDT)
[AMBER] RMSD plot query
- Hai Nguyen (Thu Jul 14 2016 - 07:57:10 PDT)
- esther nehu (Thu Jul 14 2016 - 07:29:41 PDT)
[AMBER] Sander bomb: how to create a larger box
- Bilal Nizami (Sat Jul 30 2016 - 13:58:29 PDT)
- Ruth Helena Tichauer (Thu Jul 28 2016 - 07:48:43 PDT)
[AMBER] sander QM/MM MD
- Dr. Andreas W. Goetz (Wed Jul 20 2016 - 11:23:30 PDT)
- Masoud Kazemi (Wed Jul 20 2016 - 05:26:50 PDT)
[AMBER] Save individual PDBs from MD trajectory
- Carlos Simmerling (Thu Jul 21 2016 - 06:55:07 PDT)
- Iqbal, Muhammad Sajid (Thu Jul 21 2016 - 06:52:50 PDT)
[AMBER] selecting frames with distribution
- Nhai (Thu Jul 21 2016 - 23:08:31 PDT)
- Neha Gandhi (Thu Jul 21 2016 - 22:02:45 PDT)
[AMBER] Slow performance of Amber12 on cluster
- Ross Walker (Fri Jul 01 2016 - 08:03:00 PDT)
- Hai Nguyen (Thu Jun 30 2016 - 22:43:47 PDT)
- bharat gupta (Thu Jun 30 2016 - 22:03:14 PDT)
[AMBER] SMD and free energy value
- bharat gupta (Thu Jul 21 2016 - 07:20:47 PDT)
[AMBER] SMD at constant force
- Ming Tang (Thu Jul 21 2016 - 04:01:19 PDT)
- Jason Swails (Mon Jul 04 2016 - 19:34:12 PDT)
- Ming Tang (Mon Jul 04 2016 - 19:06:25 PDT)
[AMBER] SMD simulation protocols
- Dwight McGee (Sun Jul 24 2016 - 14:55:41 PDT)
- Ibrahim Said (Sun Jul 24 2016 - 13:08:28 PDT)
- Adrian Roitberg (Sun Jul 24 2016 - 10:35:50 PDT)
- Ibrahim Said (Sun Jul 24 2016 - 09:25:47 PDT)
[AMBER] Steered Molecular Dynamics
- Adrian Roitberg (Mon Jul 25 2016 - 00:06:11 PDT)
- bharat gupta (Mon Jul 25 2016 - 00:00:26 PDT)
- Fair, Ryan (Mon Jul 11 2016 - 09:05:38 PDT)
[AMBER] strategies to speed up MM/GBSA screening
- Jason Swails (Thu Jul 14 2016 - 13:22:34 PDT)
- Thomas Evangelidis (Thu Jul 14 2016 - 07:29:12 PDT)
- Jason Swails (Wed Jul 13 2016 - 18:38:44 PDT)
- Carlos Simmerling (Wed Jul 13 2016 - 18:23:54 PDT)
- Thomas Evangelidis (Wed Jul 13 2016 - 16:09:31 PDT)
- Jason Swails (Wed Jul 13 2016 - 05:14:24 PDT)
- Thomas Evangelidis (Wed Jul 13 2016 - 04:08:31 PDT)
[AMBER] Structural refinement of the protein complexed with metalo-ions
- James Starlight (Mon Jul 04 2016 - 04:39:50 PDT)
- Pengfei Li (Fri Jul 01 2016 - 08:51:07 PDT)
- James Starlight (Fri Jul 01 2016 - 01:37:14 PDT)
[AMBER] Stuck somewhere using antechamber
- David A Case (Thu Jul 07 2016 - 05:40:13 PDT)
- Hai Nguyen (Wed Jul 06 2016 - 16:03:56 PDT)
- Xiaoyu Wang (Wed Jul 06 2016 - 16:00:37 PDT)
[AMBER] Umbrella Sampling
- bharat gupta (Sat Jul 02 2016 - 06:19:45 PDT)
- bharat gupta (Thu Jun 30 2016 - 22:00:58 PDT)
[AMBER] VMD
- Nhai (Thu Jul 07 2016 - 09:57:02 PDT)
- Daniel Roe (Thu Jul 07 2016 - 09:48:08 PDT)
- Thakur, Abhishek (Thu Jul 07 2016 - 09:44:53 PDT)
[AMBER] WHAM-2D analysis
- Alessandra Lacetera (Thu Jul 14 2016 - 02:31:55 PDT)
- Christina Bergonzo (Wed Jul 13 2016 - 10:03:21 PDT)
- Amy Rice (Wed Jul 13 2016 - 10:02:03 PDT)
- Alessandra Lacetera (Wed Jul 13 2016 - 09:55:20 PDT)
[AMBER] where is amber.jupyter?
- Albert (Sat Jul 30 2016 - 01:59:30 PDT)
- Hai Nguyen (Sat Jul 30 2016 - 01:47:09 PDT)
- Albert (Sat Jul 30 2016 - 01:35:19 PDT)
- Albert (Sat Jul 30 2016 - 01:32:47 PDT)
- Hai Nguyen (Sat Jul 30 2016 - 01:11:21 PDT)
- Albert (Sat Jul 30 2016 - 00:59:24 PDT)
- Hai Nguyen (Sat Jul 30 2016 - 00:26:42 PDT)
- Albert (Sat Jul 30 2016 - 00:17:08 PDT)
[AMBER] Wierd line in amber-TI output Files
- Scott Brozell (Fri Jul 22 2016 - 14:10:40 PDT)
- Khabiri, Morteza (Thu Jul 21 2016 - 10:52:53 PDT)
MD simulation can not proceed normally
- Carlos Simmerling (Thu Jul 21 2016 - 07:45:51 PDT)
- 乔艳 (Thu Jul 21 2016 - 07:28:13 PDT)

Amber Archive Jul 2016 by subject