Amber Archive May 2016: by author

Abelak, Kavin
- Re: [AMBER] nativecontacts (Mon May 23 2016 - 02:40:02 PDT)
- Re: [AMBER] How to deal with Heme? (Wed May 18 2016 - 05:16:32 PDT)
- Re: [AMBER] pdb2pqr PDB processing for Amber force field (Thu May 05 2016 - 05:14:16 PDT)
Adams, John E.
- Re: [AMBER] Installing AmberTools16 on OSX 10.11 (Tue May 10 2016 - 10:42:36 PDT)
- [AMBER] Installing AmberTools16 on OSX 10.11 (Tue May 10 2016 - 07:48:54 PDT)
Adrian Roitberg
- Re: [AMBER] Units in dist_vs_t file from SMD simulation (Sat May 07 2016 - 16:33:03 PDT)
Aishani Prem
- Re: [AMBER] Rotating the protein along x-axis (Mon May 02 2016 - 16:04:09 PDT)
- [AMBER] Rotating the protein along x-axis (Mon May 02 2016 - 14:53:27 PDT)
Alessio Atzori
- [AMBER] HMR with protein-ligand system (Thu May 05 2016 - 00:36:26 PDT)
ALINE THOMAS
- [AMBER] obtain or build parameters for non-natural residues (Fri May 20 2016 - 00:45:10 PDT)
ankita mehta
- Re: [AMBER] query (Wed May 25 2016 - 23:30:28 PDT)
- [AMBER] query (Tue May 24 2016 - 22:57:07 PDT)
- Re: [AMBER] Scripts to gradually remove NMR restraints during MD simulation (Fri May 13 2016 - 03:02:48 PDT)
Anna Cebrian Prats
- Re: [AMBER] How to deal with Heme? (Wed May 18 2016 - 09:15:14 PDT)
- Re: [AMBER] How to deal with Heme? (Wed May 18 2016 - 07:32:59 PDT)
- Re: [AMBER] tleap - protein + ligand + heme group (Fri May 06 2016 - 04:23:50 PDT)
- Re: [AMBER] tleap - protein + ligand + heme group (Tue May 03 2016 - 03:16:18 PDT)
- Re: [AMBER] tleap - protein + ligand + heme group (Tue May 03 2016 - 02:47:55 PDT)
anu chandra
- Re: [AMBER] How to modify the LENNARD_JONES_BCOEF in amber topology (Mon May 09 2016 - 03:51:57 PDT)
- [AMBER] How to modify the LENNARD_JONES_BCOEF in amber topology (Sat May 07 2016 - 08:52:25 PDT)
- Re: [AMBER] Calculating LJ parameters in Amber format (Thu May 05 2016 - 08:15:52 PDT)
- [AMBER] Calculating LJ parameters in Amber format (Thu May 05 2016 - 06:45:58 PDT)
Arati Paudyal
- Re: [AMBER] Protein moving out of the water box (Sat May 21 2016 - 06:32:51 PDT)
- Re: [AMBER] Protein moving out of the water box (Fri May 20 2016 - 17:21:33 PDT)
- Re: [AMBER] Protein moving out of the water box (Fri May 20 2016 - 12:58:31 PDT)
- [AMBER] Protein moving out of the water box (Thu May 19 2016 - 19:11:17 PDT)
Arthi Venkat
- Re: [AMBER] amber error - reg (Wed May 11 2016 - 04:50:58 PDT)
- [AMBER] amber error - reg (Wed May 11 2016 - 02:35:17 PDT)
asdda asa
- Re: [AMBER] MM-PBSA result (Wed May 25 2016 - 04:36:28 PDT)
- [AMBER] MM-PBSA result (Tue May 24 2016 - 15:20:43 PDT)
- Re: [AMBER] MMPBSA Results (Thu May 19 2016 - 15:02:33 PDT)
- [AMBER] MMPBSA Results (Thu May 19 2016 - 02:19:45 PDT)
ATUL KUMAR
- [AMBER] problem in calculating velocity autocorrelation (Sun May 15 2016 - 06:34:09 PDT)
- Re: [AMBER] Combining .mdvel and .nc(NetCDF) into one file (Sat May 14 2016 - 06:26:59 PDT)
- [AMBER] Combining .mdvel and .nc(NetCDF) into one file (Sat May 14 2016 - 00:12:55 PDT)
- Re: [AMBER] Problem in Restarting production run (Thu May 12 2016 - 00:46:52 PDT)
- [AMBER] Problem in Restarting production run (Thu May 12 2016 - 00:19:04 PDT)
Batuhan Kav
- [AMBER] Constant area simulation (Fri May 27 2016 - 02:07:39 PDT)
Bill Ross
- Re: [AMBER] CUDA MPI issues (Mon May 23 2016 - 04:01:05 PDT)
- Re: [AMBER] rms to pdb for a subset of atoms [cpptraj] (Thu May 19 2016 - 12:13:18 PDT)
- [AMBER] slinky on a hot tin roof (Fri May 13 2016 - 01:25:12 PDT)
- Re: [AMBER] Error during frames generation from production run (Thu May 12 2016 - 01:37:56 PDT)
- Re: [AMBER] Error during frames generation from production run (Thu May 12 2016 - 01:33:27 PDT)
- Re: [AMBER] Error during frames generation from production run (Thu May 12 2016 - 01:21:27 PDT)
- Re: [AMBER] Problem in Restarting production run (Thu May 12 2016 - 01:00:13 PDT)
- Re: [AMBER] Problem in Restarting production run (Thu May 12 2016 - 00:23:08 PDT)
- Re: [AMBER] live dCAT simulation (Wed May 11 2016 - 21:39:27 PDT)
- Re: [AMBER] live dCAT simulation (Wed May 11 2016 - 21:25:29 PDT)
- Re: [AMBER] amber error - reg (Wed May 11 2016 - 03:13:16 PDT)
- Re: [AMBER] live dCAT simulation (Wed May 11 2016 - 03:05:32 PDT)
- Re: [AMBER] Regarding joining of two pdb file (Tue May 10 2016 - 23:14:34 PDT)
- Re: [AMBER] live dCAT simulation (Tue May 10 2016 - 22:39:49 PDT)
- Re: [AMBER] live dCAT simulation (Tue May 10 2016 - 20:09:04 PDT)
- Re: [AMBER] live dCAT simulation (Tue May 10 2016 - 19:42:22 PDT)
- Re: [AMBER] tleap - protein + ligand + heme group (Fri May 06 2016 - 05:48:39 PDT)
- [AMBER] live dCAT simulation (Thu May 05 2016 - 16:52:40 PDT)
- Re: [AMBER] non zero net charge on molecule from AM1-BCC charge parameter fit (Wed May 04 2016 - 13:06:33 PDT)
- Re: [AMBER] MMPBSA: question of pairwise per residue decomposition (Wed May 04 2016 - 12:36:11 PDT)
- Re: [AMBER] bad data error in sander run (Wed May 04 2016 - 07:57:46 PDT)
- Re: [AMBER] cpptraj rms fit to rst file (Tue May 03 2016 - 23:23:02 PDT)
- [AMBER] cpptraj rms fit to rst file (Tue May 03 2016 - 21:22:04 PDT)
- Re: [AMBER] Rotating the protein along x-axis (Mon May 02 2016 - 16:55:13 PDT)
- Re: [AMBER] angle between normals to dna bases? (Sun May 01 2016 - 20:57:56 PDT)
- [AMBER] angle between normals to dna bases? (Sun May 01 2016 - 20:00:50 PDT)
Biplab Ghosh
- Re: [AMBER] CUDA MPI issues (Fri May 27 2016 - 00:12:49 PDT)
- Re: [AMBER] CUDA MPI issues (Thu May 26 2016 - 11:12:18 PDT)
- Re: [AMBER] CUDA MPI issues (Thu May 26 2016 - 10:40:56 PDT)
- Re: [AMBER] CUDA MPI issues (Wed May 25 2016 - 23:00:53 PDT)
- [AMBER] CUDA MPI issues (Mon May 23 2016 - 03:45:08 PDT)
Bisignano, Paola
- Re: [AMBER] standard parameter for sialic acid (Thu May 26 2016 - 12:02:22 PDT)
- [AMBER] standard parameter for sialic acid (Wed May 25 2016 - 16:43:53 PDT)
boyken.divms.uiowa.edu
- [AMBER] Amber 8 on RHEL 6 (Mon May 02 2016 - 09:30:41 PDT)
Brent Krueger
- Re: [AMBER] CUDA MPI issues (Fri May 27 2016 - 04:36:55 PDT)
Brett
- [AMBER] on GAFF (Mon May 09 2016 - 06:55:45 PDT)
- [AMBER] on antechamber of AMBER (Mon May 02 2016 - 06:02:48 PDT)
Brett
- Re: [AMBER] on antechamber of AMBER (Mon May 02 2016 - 08:01:13 PDT)
- Re: [AMBER] on antechamber (Sat Apr 30 2016 - 20:51:58 PDT)
Carlos Romero
- [AMBER] calculating binding free energy (Thu May 26 2016 - 17:18:56 PDT)
Carlos Simmerling
- Re: [AMBER] Regarding Force Field Inquiry (Wed May 25 2016 - 04:34:20 PDT)
- Re: [AMBER] issues with NONBOND LIST? (Tue May 17 2016 - 12:37:51 PDT)
- Re: [AMBER] issues with NONBOND LIST? (Tue May 17 2016 - 12:01:31 PDT)
- Re: [AMBER] Fix dimension of the box throughout the MD simulations (Sat May 14 2016 - 14:59:18 PDT)
- Re: [AMBER] Fix dimension of the box throughout the MD simulations (Sat May 14 2016 - 12:56:24 PDT)
- Re: [AMBER] Restrain a single atom in the residue during minimization, instead of all the atoms in a residue with RES option (Tue May 10 2016 - 02:47:02 PDT)
- Re: [AMBER] Restrain a single atom in the residue during minimization, instead of all the atoms in a residue with RES option (Mon May 09 2016 - 13:34:31 PDT)
- Re: [AMBER] on GAFF (Mon May 09 2016 - 07:18:41 PDT)
- Re: [AMBER] bad data error in sander run (Wed May 04 2016 - 04:19:40 PDT)
- Re: [AMBER] iwrap=1 issue (Mon May 02 2016 - 05:11:02 PDT)
Charles Lin
- Re: [AMBER] Amber compilation fail after plumed patch (Fri May 13 2016 - 13:39:42 PDT)
- Re: [AMBER] live dCAT simulation (Tue May 10 2016 - 20:55:54 PDT)
- Re: [AMBER] live dCAT simulation (Tue May 10 2016 - 19:59:28 PDT)
- Re: [AMBER] Query about amber 16, external electric field support (Sun May 01 2016 - 07:15:46 PDT)
Chi Jin
- [AMBER] RESP charges (Thu May 05 2016 - 15:11:16 PDT)
Christopher Jesudason
- [AMBER] Choline Chloride (Sun May 29 2016 - 13:06:20 PDT)
colvin
- [AMBER] cpptraj - rmsd/rmsf & reference structure (Thu May 26 2016 - 02:19:16 PDT)
colvin chin
- Re: [AMBER] cpptraj - rmsd/rmsf & reference structure (Thu May 26 2016 - 07:58:34 PDT)
- Re: [AMBER] cpptraj - rmsd/rmsf & reference structure (Thu May 26 2016 - 06:56:03 PDT)
conor parks
- Re: [AMBER] help identifying dihedral parameters for paracetemol using Antechamber (Thu May 05 2016 - 16:13:28 PDT)
- Re: [AMBER] non zero net charge on molecule from AM1-BCC charge parameter fit (Wed May 04 2016 - 12:54:29 PDT)
- [AMBER] non zero net charge on molecule from AM1-BCC charge parameter fit (Tue May 03 2016 - 20:25:44 PDT)
- Re: [AMBER] help identifying dihedral parameters for paracetemol using Antechamber (Tue May 03 2016 - 13:13:05 PDT)
- Re: [AMBER] help identifying dihedral parameters for paracetemol using Antechamber (Tue May 03 2016 - 08:51:06 PDT)
- Re: [AMBER] help identifying dihedral parameters for paracetemol using Antechamber (Mon May 02 2016 - 09:11:28 PDT)
- [AMBER] help identifying dihedral parameters for paracetemol using Antechamber (Sat Apr 30 2016 - 21:13:49 PDT)
Damiano Spadoni
- [AMBER] How adding cluster to a model (Tue May 10 2016 - 04:57:14 PDT)
Daniel Roe
- Re: [AMBER] cpptraj clustering based on ligand cavity (Tue May 31 2016 - 08:00:18 PDT)
- Re: [AMBER] calculated rmsd (Tue May 31 2016 - 07:58:19 PDT)
- Re: [AMBER] nativecontacts resout command change with AmberTools16 [cpptraj] (Tue May 31 2016 - 07:53:33 PDT)
- Re: [AMBER] Clustering of MD trajectories: ptraj, cpptraj (Fri May 27 2016 - 13:31:17 PDT)
- Re: [AMBER] nativecontacts resout command change with AmberTools16 [cpptraj] (Fri May 27 2016 - 13:22:22 PDT)
- Re: [AMBER] cpptraj + nastruct (Fri May 27 2016 - 08:03:17 PDT)
- Re: [AMBER] nativecontacts resout command change with AmberTools16 [cpptraj] (Fri May 27 2016 - 07:54:06 PDT)
- Re: [AMBER] cpptraj - rmsd/rmsf & reference structure (Thu May 26 2016 - 08:07:29 PDT)
- Re: [AMBER] cpptraj - rmsd/rmsf & reference structure (Thu May 26 2016 - 07:42:04 PDT)
- Re: [AMBER] cpptraj + nastruct (Thu May 26 2016 - 07:21:08 PDT)
- Re: [AMBER] cpptraj - rmsd/rmsf & reference structure (Thu May 26 2016 - 06:22:55 PDT)
- Re: [AMBER] cpptraj + nastruct (Thu May 26 2016 - 06:16:03 PDT)
- Re: [AMBER] query (Wed May 25 2016 - 13:55:36 PDT)
- Re: [AMBER] How to do QHA with outputs after considering every n-frames of trajectory? (Tue May 24 2016 - 12:18:21 PDT)
- Re: [AMBER] Regarding parameter file not saved (Tue May 24 2016 - 10:10:31 PDT)
- Re: [AMBER] autoimage and TI (Tue May 24 2016 - 08:06:02 PDT)
- Re: [AMBER] rms to pdb for a subset of atoms [cpptraj] (Thu May 19 2016 - 07:37:31 PDT)
- Re: [AMBER] Problems with pairwise command in cpptraj (Wed May 18 2016 - 11:43:49 PDT)
- Re: [AMBER] Problems with pairwise command in cpptraj (Wed May 18 2016 - 11:01:36 PDT)
- Re: [AMBER] Combining .mdvel and .nc(NetCDF) into one file (Sat May 14 2016 - 05:13:16 PDT)
- Re: [AMBER] Error during frames generation from production run (Thu May 12 2016 - 08:50:23 PDT)
- Re: [AMBER] error in cluster analysis by cpptraj (Thu May 12 2016 - 07:21:48 PDT)
- Re: [AMBER] Problem with closest command in cpptraj (Wed May 11 2016 - 09:49:30 PDT)
- Re: [AMBER] Problem with closest command in cpptraj (Wed May 11 2016 - 08:03:40 PDT)
- Re: [AMBER] Analysis of protein-protein interaction (Tue May 10 2016 - 07:12:14 PDT)
- Re: [AMBER] Problem interpreting cpptraj hbond output file (Tue May 03 2016 - 06:44:08 PDT)
- Re: [AMBER] rdf cpptraj. (Tue May 03 2016 - 06:41:25 PDT)
- Re: [AMBER] water residence time calculation (Mon May 02 2016 - 07:44:59 PDT)
- Re: [AMBER] iwrap=1 issue (Mon May 02 2016 - 07:40:28 PDT)
- Re: [AMBER] water residence time calculation (Sun May 01 2016 - 08:42:20 PDT)
- Re: [AMBER] cpptraj mask command (Sun May 01 2016 - 08:40:20 PDT)
David A Case
- Re: [AMBER] Magnesium ion in AMBER (Mon May 30 2016 - 06:19:36 PDT)
- Re: [AMBER] mdl file for 1d-rism (Fri May 27 2016 - 18:22:06 PDT)
- Re: [AMBER] Replacing water with a H2O2 and restart the simulation (Fri May 27 2016 - 04:51:17 PDT)
- Re: [AMBER] CUDA MPI issues (Fri May 27 2016 - 04:44:24 PDT)
- Re: [AMBER] query (Thu May 26 2016 - 04:46:29 PDT)
- Re: [AMBER] standard parameter for sialic acid (Wed May 25 2016 - 17:02:39 PDT)
- Re: [AMBER] Regarding Force Field Inquiry (Wed May 25 2016 - 04:41:40 PDT)
- Re: [AMBER] Solvation free energy in rism1d (Wed May 25 2016 - 04:38:48 PDT)
- Re: [AMBER] MM-PBSA result (Wed May 25 2016 - 04:34:10 PDT)
- Re: [AMBER] Organic solvent box - Amber do not see the molecule but its atoms (Tue May 24 2016 - 06:03:37 PDT)
- Re: [AMBER] MMPBSA final results of MMPBSA.py different fromtutorial (Sat May 21 2016 - 10:01:08 PDT)
- Re: [AMBER] Protein moving out of the water box (Sat May 21 2016 - 09:58:05 PDT)
- Re: [AMBER] MMPBSA final results of MMPBSA.py different from tutorial (Sat May 21 2016 - 05:25:53 PDT)
- Re: [AMBER] Protein moving out of the water box (Sat May 21 2016 - 05:21:18 PDT)
- Re: [AMBER] GAFF2 setup (Thu May 19 2016 - 05:06:23 PDT)
- Re: [AMBER] How to deal with Heme? (Wed May 18 2016 - 09:06:11 PDT)
- Re: [AMBER] issues with NONBOND LIST? (Wed May 18 2016 - 04:51:02 PDT)
- Re: [AMBER] .nc trajectory format (Wed May 18 2016 - 04:44:19 PDT)
- Re: [AMBER] tleap: opls-ua parm for an arbitrary molecule (Tue May 17 2016 - 08:47:57 PDT)
- Re: [AMBER] Fix dimension of the box throughout the MD simulations (Mon May 16 2016 - 11:50:49 PDT)
- Re: [AMBER] Fix dimension of the box throughout the MD simulations (Sat May 14 2016 - 14:52:57 PDT)
- Re: [AMBER] How to deal with Heme? (Sat May 14 2016 - 06:16:45 PDT)
- Re: [AMBER] Unable to run Antechamber (Fri May 13 2016 - 07:55:36 PDT)
- Re: [AMBER] How to deal with Heme? (Fri May 13 2016 - 05:21:04 PDT)
- Re: [AMBER] Problem in Restarting production run (Thu May 12 2016 - 03:57:29 PDT)
- Re: [AMBER] Regarding joining of two pdb file (Wed May 11 2016 - 05:08:13 PDT)
- Re: [AMBER] amber error - reg (Wed May 11 2016 - 05:04:43 PDT)
- Re: [AMBER] Fw: (Sat May 07 2016 - 06:07:00 PDT)
- Re: [AMBER] help identifying dihedral parameters for paracetemol using Antechamber (Thu May 05 2016 - 17:50:49 PDT)
- Re: [AMBER] Calculating LJ parameters in Amber format (Thu May 05 2016 - 07:28:20 PDT)
- Re: [AMBER] help: what cause Sandar crash (Thu May 05 2016 - 07:01:06 PDT)
- Re: [AMBER] Regarding RMSF calculation of protein using AMBER (Thu May 05 2016 - 06:54:53 PDT)
- Re: [AMBER] DNA Origami (Wed May 04 2016 - 12:36:44 PDT)
- Re: [AMBER] bad data error in sander run (Wed May 04 2016 - 04:46:39 PDT)
- Re: [AMBER] help identifying dihedral parameters for paracetemol using Antechamber (Tue May 03 2016 - 12:53:58 PDT)
- Re: [AMBER] help identifying dihedral parameters for paracetemol using Antechamber (Tue May 03 2016 - 08:05:31 PDT)
- Re: [AMBER] Ewald force using debugf (Tue May 03 2016 - 07:48:08 PDT)
- Re: [AMBER] on antechamber of AMBER (Mon May 02 2016 - 07:25:30 PDT)
- Re: [AMBER] on antechamber (Mon May 02 2016 - 04:56:57 PDT)
- Re: [AMBER] Ewald force using debugf (Mon May 02 2016 - 04:52:05 PDT)
- Re: [AMBER] help identifying dihedral parameters for paracetemol using Antechamber (Sun May 01 2016 - 05:42:21 PDT)
David Cerutti
- Re: [AMBER] obtain or build parameters for non-natural residues (Mon May 23 2016 - 07:12:23 PDT)
- Re: [AMBER] optimised corrections to ff03 (Sun May 22 2016 - 19:21:07 PDT)
- Re: [AMBER] About harmonic restraints on dihedral angle in pmemd.cuda (Thu May 12 2016 - 07:05:24 PDT)
- Re: [AMBER] Ewald force using debugf (Tue May 03 2016 - 12:06:56 PDT)
David Poole
- [AMBER] Paramfit'ing forces (Thu May 05 2016 - 17:53:53 PDT)
- [AMBER] Paramfit trajectory read error (Sun May 01 2016 - 21:28:56 PDT)
Dr. Andreas W. Goetz
- Re: [AMBER] adaptive qm/mm NVT not reaching target temperature (Wed May 25 2016 - 16:45:50 PDT)
- Re: [AMBER] QM/MM Interface (Mon May 23 2016 - 19:44:41 PDT)
Dr. Anselm Horn
- Re: [AMBER] Regarding Force Field Inquiry (Wed May 25 2016 - 04:51:05 PDT)
- Re: [AMBER] error in cluster analysis by cpptraj (Thu May 12 2016 - 05:05:43 PDT)
- Re: [AMBER] error in cluster analysis by cpptraj (Thu May 12 2016 - 03:28:29 PDT)
Duggan, Brendan
- Re: [AMBER] NMR restraints violation limit (Tue May 31 2016 - 12:04:56 PDT)
Eiros Zamora, Juan
- [AMBER] nativecontacts resout command change with AmberTools16 [cpptraj] (Fri May 27 2016 - 02:25:23 PDT)
- [AMBER] rms to pdb for a subset of atoms [cpptraj] (Thu May 19 2016 - 06:55:25 PDT)
Ekaterina Ratkova
- [AMBER] tleap: opls-ua parm for an arbitrary molecule (Tue May 17 2016 - 07:02:33 PDT)
Elvis Martis
- Re: [AMBER] Problems with GTX titan-X GPU (Tue May 24 2016 - 05:20:13 PDT)
- Re: [AMBER] Problems with GTX titan-X GPU (Mon May 23 2016 - 17:27:08 PDT)
- [AMBER] Problems with GTX titan-X GPU (Sat May 21 2016 - 03:19:54 PDT)
Fabian gmail
- [AMBER] metal ion models for Zn+2 (Wed May 04 2016 - 06:10:33 PDT)
Fabrício Bracht
- Re: [AMBER] Amber compilation fail after plumed patch (Fri May 13 2016 - 13:36:34 PDT)
- [AMBER] Amber compilation fail after plumed patch (Fri May 13 2016 - 13:29:41 PDT)
Fatemeh Arabi
- [AMBER] Fw: (Sat May 07 2016 - 05:42:09 PDT)
- [AMBER] Fw: (Sat May 07 2016 - 00:16:15 PDT)
Feng Pan
- Re: [AMBER] Amber16: COM's in GPU version (Fri May 27 2016 - 13:29:51 PDT)
- Re: [AMBER] Adaptively Biased MD: Problems with executing groupfile (Fri May 27 2016 - 13:09:26 PDT)
Francesco Gentile
- [AMBER] clustering with ptraj (Thu May 19 2016 - 17:08:37 PDT)
- [AMBER] Clustering of MD trajectories: ptraj, cpptraj (Thu May 19 2016 - 11:41:16 PDT)
FyD
- Re: [AMBER] Simulation of DNA structure with a three-phosphate at 5' (Sun May 29 2016 - 23:55:38 PDT)
- Re: [AMBER] acetone as solvent for simulation (Wed May 25 2016 - 23:11:38 PDT)
- Re: [AMBER] Can I build parameters of hydroxyapatites? (Wed May 25 2016 - 10:45:22 PDT)
- Re: [AMBER] obtain or build parameters for non-natural residues (Wed May 25 2016 - 00:09:19 PDT)
- Re: [AMBER] Opening mol2 file in xleap (Wed May 25 2016 - 00:04:29 PDT)
George Tzotzos
- [AMBER] ante-mmpbsa.py: general question (Thu May 26 2016 - 11:33:44 PDT)
- Re: [AMBER] MMPBSA: question of pairwise per residue decomposition (Thu May 05 2016 - 03:23:12 PDT)
- Re: [AMBER] MMPBSA: question of pairwise per residue decomposition (Wed May 04 2016 - 12:42:39 PDT)
- [AMBER] MMPBSA: question of pairwise per residue decomposition (Wed May 04 2016 - 12:27:21 PDT)
Gustavo Seabra
- Re: [AMBER] Amino Acid Residues in QM/MM Simulation (Tue May 24 2016 - 12:00:44 PDT)
Hai Nguyen
- Re: [AMBER] cpptraj + nastruct (Thu May 26 2016 - 06:48:14 PDT)
- Re: [AMBER] Regarding parameter file not saved (Tue May 24 2016 - 09:38:36 PDT)
- Re: [AMBER] Protein moving out of the water box (Fri May 20 2016 - 13:37:18 PDT)
- Re: [AMBER] Working with pytraj (Mon May 16 2016 - 12:28:05 PDT)
- Re: [AMBER] problem in calculating velocity autocorrelation (Sun May 15 2016 - 09:22:15 PDT)
- Re: [AMBER] parmed units and version numbers (Sat May 14 2016 - 09:01:56 PDT)
- Re: [AMBER] Visualization of all-in-one mdcrd file in VMD (Tue May 10 2016 - 12:24:11 PDT)
- Re: [AMBER] Visualization of all-in-one mdcrd file in VMD (Tue May 10 2016 - 12:21:57 PDT)
- Re: [AMBER] Installing AmberTools16 on OSX 10.11 (Tue May 10 2016 - 09:48:31 PDT)
- Re: [AMBER] Amber12 install error (Mon May 09 2016 - 09:48:26 PDT)
- Re: [AMBER] Amber12 install error (Mon May 09 2016 - 09:41:39 PDT)
- Re: [AMBER] Rotating the protein along x-axis (Mon May 02 2016 - 16:13:18 PDT)
- Re: [AMBER] Rotating the protein along x-axis (Mon May 02 2016 - 16:02:23 PDT)
- Re: [AMBER] angle between normals to dna bases? (Sun May 01 2016 - 20:46:41 PDT)
Hannes Loeffler
- [AMBER] Release of FESetup 1.2 (Tue May 24 2016 - 12:55:19 PDT)
- [AMBER] GAFF2 setup (Thu May 19 2016 - 02:03:25 PDT)
- Re: [AMBER] No leaprc.ff14SB anymore in AmberTools16 - reason? (Mon May 16 2016 - 08:42:55 PDT)
- Re: [AMBER] problem installing AmberTools16 pytraj on Mac (Mon May 16 2016 - 08:37:14 PDT)
- Re: [AMBER] No leaprc.ff14SB anymore in AmberTools16 - reason? (Mon May 16 2016 - 08:33:04 PDT)
hannes.loeffler.stfc.ac.uk
- [AMBER] parmed units and version numbers (Sat May 14 2016 - 06:49:24 PDT)
- Re: [AMBER] xLeap (Thu May 05 2016 - 00:46:54 PDT)
- Re: [AMBER] Thermodynamic Integration introduce charge (Tue May 03 2016 - 23:10:23 PDT)
Hector A. Baldoni
- Re: [AMBER] About harmonic restraints on dihedral angle in pmemd.cuda (Thu May 12 2016 - 16:55:26 PDT)
Hirdesh Kumar
- [AMBER] iwrap=1 issue (Mon May 02 2016 - 04:57:07 PDT)
Ho Leung Ng
- Re: [AMBER] Best Linux Choice (Fri May 20 2016 - 16:13:36 PDT)
Ibrahim Said
- [AMBER] Amber 12 and VMware workstation 12 player (Tue May 03 2016 - 13:00:42 PDT)
Ignacio J. General
- Re: [AMBER] Thermodynamic Integration introduce charge (Wed May 04 2016 - 04:15:35 PDT)
Ilyas Yildirim
- Re: [AMBER] Amber16: COM's in GPU version (Fri May 27 2016 - 06:26:47 PDT)
- Re: [AMBER] Amber16: COM's in GPU version (Thu May 26 2016 - 10:01:27 PDT)
Indrajit Deb
- Re: [AMBER] Problem with closest command in cpptraj (Wed May 11 2016 - 10:17:33 PDT)
- Re: [AMBER] Problem with closest command in cpptraj (Wed May 11 2016 - 08:38:54 PDT)
- [AMBER] Problem with closest command in cpptraj (Wed May 11 2016 - 07:16:14 PDT)
Iqbal, Muhammad Sajid
- Re: [AMBER] AMBER Digest, Vol 1578, Issue 1 (Mon May 16 2016 - 22:21:12 PDT)
- Re: [AMBER] Fix dimension of the box throughout the MD simulations (Mon May 16 2016 - 08:56:15 PDT)
- [AMBER] Fix dimension of the box throughout the MD simulations (Sat May 14 2016 - 12:49:43 PDT)
Jacopo Sgrignani
- [AMBER] Licence (Wed May 18 2016 - 08:46:36 PDT)
- [AMBER] DFTB convergence (Tue May 03 2016 - 12:23:17 PDT)
JAIME RUBIO MARTINEZ
- Re: [AMBER] How to modify the LENNARD_JONES_BCOEF in amber topologyer (Sun May 08 2016 - 06:12:28 PDT)
James Starlight
- Re: [AMBER] VMD visualization of netcdf trajectories through the terminal (Tue May 10 2016 - 04:28:03 PDT)
- [AMBER] VMD visualization of netcdf trajectories through the terminal (Tue May 10 2016 - 02:24:57 PDT)
- [AMBER] Analysis of protein-protein interaction (Mon May 09 2016 - 03:10:22 PDT)
- Re: [AMBER] pdb2pqr PDB processing for Amber force field (Thu May 05 2016 - 06:46:41 PDT)
- [AMBER] pdb2pqr PDB processing for Amber force field (Thu May 05 2016 - 03:39:49 PDT)
Jason Imamoto
- [AMBER] Adaptively Biased MD: Problems with executing groupfile (Fri May 27 2016 - 10:20:07 PDT)
Jason Swails
- Re: [AMBER] "sanderf" (Tue May 31 2016 - 10:11:36 PDT)
- Re: [AMBER] ante-mmpbsa.py: general question (Fri May 27 2016 - 05:57:54 PDT)
- Re: [AMBER] Amber16: COM's in GPU version (Thu May 26 2016 - 11:07:16 PDT)
- Re: [AMBER] MMPBSA (Tue May 24 2016 - 08:57:04 PDT)
- Re: [AMBER] Amber coordinates to chemshell coords file (coords.c) (Tue May 24 2016 - 08:23:04 PDT)
- Re: [AMBER] CUDA MPI issues (Mon May 23 2016 - 06:22:20 PDT)
- Re: [AMBER] MMPBSA- topology files preparation (Mon May 23 2016 - 05:57:44 PDT)
- Re: [AMBER] MMPBSA.py issue with complex prmtop file (Mon May 23 2016 - 05:53:50 PDT)
- Re: [AMBER] Best Linux Choice (Fri May 20 2016 - 11:04:59 PDT)
- Re: [AMBER] MMPBSA Results (Thu May 19 2016 - 05:22:13 PDT)
- Re: [AMBER] mmpbsa (Wed May 18 2016 - 10:53:54 PDT)
- Re: [AMBER] parmed units and version numbers (Sat May 14 2016 - 19:50:15 PDT)
- Re: [AMBER] Error during frames generation from production run (Thu May 12 2016 - 13:10:38 PDT)
- Re: [AMBER] MMPBSA doubt (Thu May 12 2016 - 10:50:40 PDT)
- Re: [AMBER] MMPBSA doubt (Wed May 11 2016 - 05:25:34 PDT)
- Re: [AMBER] amber error - reg (Wed May 11 2016 - 05:16:57 PDT)
- Re: [AMBER] amber error - reg (Wed May 11 2016 - 03:42:56 PDT)
- Re: [AMBER] MMPBSA doubt (Wed May 11 2016 - 03:25:37 PDT)
- Re: [AMBER] Installing AmberTools16 on OSX 10.11 (Tue May 10 2016 - 08:57:31 PDT)
- Re: [AMBER] Constant pH simulation (Tue May 10 2016 - 07:12:33 PDT)
- Re: [AMBER] How to modify the LENNARD_JONES_BCOEF in amber topology (Mon May 09 2016 - 09:23:10 PDT)
- Re: [AMBER] Problems with cpinutil.py in CpHMD as adding a new titratable ligand (Fri May 06 2016 - 15:27:41 PDT)
- Re: [AMBER] Calculating LJ parameters in Amber format (Thu May 05 2016 - 07:08:38 PDT)
- Re: [AMBER] MMPBSA: question of pairwise per residue decomposition (Thu May 05 2016 - 06:09:26 PDT)
- Re: [AMBER] MMPBSA: question of pairwise per residue decomposition (Wed May 04 2016 - 18:03:28 PDT)
- Re: [AMBER] non zero net charge on molecule from AM1-BCC charge parameter fit (Wed May 04 2016 - 18:01:47 PDT)
- Re: [AMBER] bad data error in sander run (Wed May 04 2016 - 05:22:13 PDT)
- Re: [AMBER] Amber 12 and VMware workstation 12 player (Tue May 03 2016 - 17:20:56 PDT)
- Re: [AMBER] Amber 8 on RHEL 6 (Mon May 02 2016 - 18:03:59 PDT)
Jenner Bonanata
- [AMBER] Amber coordinates to chemshell coords file (coords.c) (Fri May 20 2016 - 06:10:25 PDT)
Jingyi Yan
- [AMBER] mdl file for 1d-rism (Fri May 27 2016 - 15:39:41 PDT)
- [AMBER] Solvation free energy in rism1d (Tue May 24 2016 - 15:51:39 PDT)
Johannes Loeffler
- [AMBER] Thermodynamic Integration introduce charge (Tue May 03 2016 - 22:36:39 PDT)
julian.zachmann selvita.home.pl
- [AMBER] Parametrisation of ligand with ions (Fri May 13 2016 - 02:30:27 PDT)
Kalenkiewicz, Andrew (NIH/NICHD) [F]
- Re: [AMBER] MMPBSA.py issue with complex prmtop file (Mon May 23 2016 - 14:33:59 PDT)
- [AMBER] MMPBSA.py issue with complex prmtop file (Fri May 20 2016 - 15:23:16 PDT)
Karl Kirschner
- Re: [AMBER] obtain or build parameters for non-natural residues (Mon May 23 2016 - 00:31:24 PDT)
- Re: [AMBER] Best Linux Choice (Fri May 20 2016 - 23:55:40 PDT)
- Re: [AMBER] help identifying dihedral parameters for paracetemol using Antechamber (Sat May 07 2016 - 12:16:00 PDT)
- Re: [AMBER] help identifying dihedral parameters for paracetemol using Antechamber (Wed May 04 2016 - 01:28:34 PDT)
Karolina Markowska
- Re: [AMBER] VMD visualization of netcdf trajectories through the terminal (Tue May 10 2016 - 02:36:29 PDT)
Kat G
- [AMBER] MMPBSA- topology files preparation (Sat May 21 2016 - 19:44:56 PDT)
- [AMBER] MMPBSA for homo-dimer system with ligands (Sun May 15 2016 - 22:03:35 PDT)
Kenneth Huang
- Re: [AMBER] Best Linux Choice (Fri May 20 2016 - 07:02:36 PDT)
- [AMBER] MMPBSA doubt (Wed May 11 2016 - 04:43:38 PDT)
Kenneth McGuinness
- Re: [AMBER] iwrap=1 issue (Mon May 02 2016 - 08:26:43 PDT)
- Re: [AMBER] iwrap=1 issue (Mon May 02 2016 - 06:53:16 PDT)
Kevin Hauser
- Re: [AMBER] Regarding Force Field Inquiry (Wed May 25 2016 - 06:31:30 PDT)
Khabiri, Morteza
- [AMBER] autoimage and TI (Tue May 24 2016 - 07:44:34 PDT)
Kshatresh Dutta Dubey
- Re: [AMBER] Query about amber 16, external electric field support (Sun May 01 2016 - 07:25:03 PDT)
- [AMBER] Query about amber 16, external electric field support (Sun May 01 2016 - 06:54:50 PDT)
Lachele Foley
- Re: [AMBER] standard parameter for sialic acid (Wed May 25 2016 - 22:08:28 PDT)
Lara rajam
- [AMBER] MMPBSA (Tue May 24 2016 - 06:15:41 PDT)
LI An-Bang
- Re: [AMBER] MMPBSA final results of MMPBSA.py different fromtutorial (Sat May 21 2016 - 06:29:04 PDT)
- [AMBER] MMPBSA final results of MMPBSA.py different from tutorial (Fri May 20 2016 - 19:38:17 PDT)
M. Reza Ganjalikhany
- Re: [AMBER] Simulation of DNA structure with a three-phosphate at 5' (Sun May 29 2016 - 05:23:50 PDT)
- Re: [AMBER] Simulation of DNA structure with a three-phosphate at 5' (Fri May 27 2016 - 02:32:06 PDT)
- [AMBER] Simulation of DNA structure with a three-phosphate at 5' (Fri May 27 2016 - 01:11:30 PDT)
Mahmoud A. A. Ibrahim
- [AMBER] Bug: Gasteiger parameters for S(-1) (Wed May 18 2016 - 00:42:02 PDT)
Marc van der Kamp
- Re: [AMBER] problem installing AmberTools16 pytraj on Mac (Mon May 16 2016 - 08:39:32 PDT)
- Re: [AMBER] No leaprc.ff14SB anymore in AmberTools16 - reason? (Mon May 16 2016 - 08:37:11 PDT)
- [AMBER] No leaprc.ff14SB anymore in AmberTools16 - reason? (Mon May 16 2016 - 08:27:38 PDT)
- [AMBER] problem installing AmberTools16 pytraj on Mac (Mon May 16 2016 - 08:23:11 PDT)
- Re: [AMBER] DFTB convergence (Tue May 03 2016 - 13:35:47 PDT)
Marcelo Andrade Chagas
- Re: [AMBER] Nickel parameters in Amber (Fri May 13 2016 - 08:40:22 PDT)
Marcos Serrou do Amaral
- Re: [AMBER] Best Linux Choice (Fri May 20 2016 - 06:54:47 PDT)
Mark Abraham
- Re: [AMBER] Best Linux Choice (Sat May 21 2016 - 10:48:44 PDT)
Mary Varughese
- Re: [AMBER] MMPBSA doubt (Thu May 12 2016 - 21:07:54 PDT)
- Re: [AMBER] MMPBSA doubt (Wed May 11 2016 - 21:26:46 PDT)
- Re: [AMBER] MMPBSA doubt (Wed May 11 2016 - 04:28:03 PDT)
- [AMBER] MMPBSA doubt (Tue May 10 2016 - 21:01:03 PDT)
- Re: [AMBER] bad data error in sander run (Wed May 04 2016 - 09:44:49 PDT)
- Re: [AMBER] bad data error in sander run (Wed May 04 2016 - 05:11:09 PDT)
- [AMBER] bad data error in sander run (Wed May 04 2016 - 04:07:47 PDT)
maryam azimzadehirani
- [AMBER] Problem interpreting cpptraj hbond output file (Tue May 03 2016 - 05:00:03 PDT)
- Re: [AMBER] water residence time calculation (Sun May 01 2016 - 20:55:18 PDT)
- [AMBER] water residence time calculation (Sun May 01 2016 - 05:59:57 PDT)
Michael Shokhen
- Re: [AMBER] error in cluster analysis by cpptraj (Thu May 12 2016 - 04:12:48 PDT)
- [AMBER] error in cluster analysis by cpptraj (Thu May 12 2016 - 03:06:39 PDT)
Mijiddorj Batsaikhan
- [AMBER] Can I build parameters of hydroxyapatites? (Wed May 25 2016 - 02:34:39 PDT)
- [AMBER] Hydroxyapatites force field (Sat May 07 2016 - 00:03:57 PDT)
- [AMBER] Hydroxyapatites force field (Sat May 07 2016 - 00:00:40 PDT)
mish
- [AMBER] About AMBER Advanced Tutorial 17 on GPUs (Fri May 27 2016 - 07:44:08 PDT)
- Re: [AMBER] About harmonic restraints on dihedral angle in pmemd.cuda (Thu May 12 2016 - 16:16:27 PDT)
- [AMBER] About harmonic restraints on dihedral angle in pmemd.cuda (Thu May 12 2016 - 06:58:21 PDT)
MOHD HOMAIDUR RAHMAN
- [AMBER] Working with pytraj (Mon May 16 2016 - 12:05:00 PDT)
- Re: [AMBER] Regarding joining of two pdb file (Wed May 11 2016 - 07:12:12 PDT)
- [AMBER] Regarding joining of two pdb file (Tue May 10 2016 - 22:53:14 PDT)
Morteza Chehel Amirani
- [AMBER] Replacing water with a H2O2 and restart the simulation (Thu May 26 2016 - 15:21:16 PDT)
- Re: [AMBER] How to deal with Heme? (Fri May 13 2016 - 15:44:20 PDT)
- [AMBER] How to deal with Heme? (Thu May 12 2016 - 10:53:44 PDT)
Muriel Jourdan
- Re: [AMBER] problem with new residu in Xleap (Tue May 17 2016 - 08:06:07 PDT)
- [AMBER] problem with new residu in Xleap (Tue May 17 2016 - 07:15:10 PDT)
Neha Gandhi
- [AMBER] cpptraj clustering based on ligand cavity (Sun May 29 2016 - 18:12:10 PDT)
- [AMBER] nativecontacts (Mon May 23 2016 - 00:25:36 PDT)
- [AMBER] optimised corrections to ff03 (Sun May 22 2016 - 18:09:04 PDT)
- Re: [AMBER] .nc trajectory format (Wed May 18 2016 - 18:19:30 PDT)
- [AMBER] .nc trajectory format (Tue May 17 2016 - 21:35:01 PDT)
Nhai
- Re: [AMBER] Protein moving out of the water box (Thu May 19 2016 - 19:26:38 PDT)
- Re: [AMBER] clustering with ptraj (Thu May 19 2016 - 17:20:13 PDT)
- Re: [AMBER] tleap: opls-ua parm for an arbitrary molecule (Tue May 17 2016 - 09:05:32 PDT)
- Re: [AMBER] No leaprc.ff14SB anymore in AmberTools16 - reason? (Mon May 16 2016 - 08:30:49 PDT)
- Re: [AMBER] Visualization of all-in-one mdcrd file in VMD (Tue May 10 2016 - 11:33:25 PDT)
- Re: [AMBER] Amber 8 on RHEL 6 (Mon May 02 2016 - 09:42:37 PDT)
Niel Henriksen
- Re: [AMBER] HMR with protein-ligand system (Thu May 05 2016 - 10:43:03 PDT)
Nikolay N. Kuzmich
- [AMBER] Opening mol2 file in xleap (Fri May 20 2016 - 06:36:19 PDT)
Nisler, Collin R.
- [AMBER] Amino Acid Residues in QM/MM Simulation (Mon May 23 2016 - 19:25:23 PDT)
- Re: [AMBER] RE_POSITION (Mon May 23 2016 - 18:15:24 PDT)
- Re: [AMBER] QM/MM Interface (Sun May 22 2016 - 23:27:13 PDT)
- Re: [AMBER] QM/MM Interface (Sun May 22 2016 - 16:46:39 PDT)
- Re: [AMBER] QM/MM Interface (Sat May 21 2016 - 17:19:13 PDT)
- Re: [AMBER] QM/MM Interface (Sat May 21 2016 - 16:00:52 PDT)
- [AMBER] QM/MM Interface (Fri May 20 2016 - 22:37:11 PDT)
- [AMBER] Units in dist_vs_t file from SMD simulation (Fri May 06 2016 - 14:08:34 PDT)
Odin Zeus
- [AMBER] "sanderf" (Tue May 31 2016 - 06:37:23 PDT)
Osman, Roman
- Re: [AMBER] Problems with pairwise command in cpptraj (Thu May 19 2016 - 07:17:36 PDT)
- Re: [AMBER] Problems with pairwise command in cpptraj (Wed May 18 2016 - 11:14:38 PDT)
- [AMBER] Problems with pairwise command in cpptraj (Wed May 18 2016 - 10:47:13 PDT)
- [AMBER] Problems with pairwise command in cpptraj (Tue May 17 2016 - 13:24:41 PDT)
Pengfei Li
- Re: [AMBER] Magnesium ion in AMBER (Tue May 31 2016 - 07:36:15 PDT)
- Re: [AMBER] Nickel parameters in Amber (Fri May 13 2016 - 13:56:00 PDT)
- Re: [AMBER] How to modify the LENNARD_JONES_BCOEF in amber topology (Mon May 09 2016 - 07:23:33 PDT)
- Re: [AMBER] How to modify the LENNARD_JONES_BCOEF in amber topology (Sat May 07 2016 - 19:55:58 PDT)
- Re: [AMBER] Hydroxyapatites force field (Sat May 07 2016 - 19:45:53 PDT)
Ramkumar B
- [AMBER] DNA Origami (Fri May 06 2016 - 10:26:55 PDT)
- Re: [AMBER] xLeap (Thu May 05 2016 - 04:33:29 PDT)
- [AMBER] xLeap (Thu May 05 2016 - 00:20:55 PDT)
- [AMBER] DNA Origami (Wed May 04 2016 - 11:35:27 PDT)
Ray Luo
- Re: [AMBER] MMPBSA final results of MMPBSA.py different fromtutorial (Sun May 22 2016 - 08:47:15 PDT)
Rebeca García Fandiño
- [AMBER] Nickel parameters in Amber (Fri May 13 2016 - 08:14:44 PDT)
Robert Molt
- Re: [AMBER] Best Linux Choice (Sat May 21 2016 - 13:28:04 PDT)
- [AMBER] Best Linux Choice (Fri May 20 2016 - 06:03:27 PDT)
Robin Betz
- Re: [AMBER] Paramfit'ing forces (Sat May 07 2016 - 10:45:43 PDT)
Ross Walker
- Re: [AMBER] About AMBER Advanced Tutorial 17 on GPUs (Fri May 27 2016 - 10:50:43 PDT)
- Re: [AMBER] CUDA MPI issues (Thu May 26 2016 - 10:57:14 PDT)
- Re: [AMBER] Amber16: COM's in GPU version (Thu May 26 2016 - 10:12:55 PDT)
- Re: [AMBER] CUDA MPI issues (Thu May 26 2016 - 09:20:10 PDT)
- Re: [AMBER] Amber16: COM's in GPU version (Thu May 26 2016 - 09:06:42 PDT)
- Re: [AMBER] Problems with GTX titan-X GPU (Tue May 24 2016 - 07:40:30 PDT)
- Re: [AMBER] CUDA MPI issues (Mon May 23 2016 - 08:47:36 PDT)
- Re: [AMBER] Problems with GTX titan-X GPU (Mon May 23 2016 - 08:35:23 PDT)
- Re: [AMBER] Best Linux Choice (Fri May 20 2016 - 07:51:17 PDT)
Ruth Helena Tichauer
- [AMBER] process_mdout.perl script (Tue May 03 2016 - 06:35:47 PDT)
Saman Yousuf ali
- [AMBER] rdf cpptraj. (Tue May 03 2016 - 02:37:48 PDT)
- [AMBER] cpptraj mask command (Sun May 01 2016 - 08:29:43 PDT)
SHAILESH KUMAR
- [AMBER] How to do QHA with outputs after considering every n-frames of trajectory? (Tue May 24 2016 - 11:16:56 PDT)
Shilpa Gupta
- [AMBER] acetone as solvent for simulation (Wed May 25 2016 - 22:39:22 PDT)
- [AMBER] acetone as solvent for simulation (Mon May 09 2016 - 22:53:48 PDT)
Shreeramesh
- [AMBER] Magnesium ion in AMBER (Mon May 30 2016 - 05:03:46 PDT)
- [AMBER] Unable to run Antechamber (Fri May 13 2016 - 05:12:48 PDT)
Sivanandam M
- [AMBER] Regarding RMSF calculation of protein using AMBER (Thu May 05 2016 - 05:46:34 PDT)
Sneha Rai
- Re: [AMBER] Error during frames generation from production run (Thu May 12 2016 - 02:07:25 PDT)
- [AMBER] Error during frames generation from production run (Thu May 12 2016 - 01:18:34 PDT)
Stanislav Simko
- [AMBER] adaptive qm/mm NVT not reaching target temperature (Wed May 25 2016 - 05:58:39 PDT)
- Re: [AMBER] QM/MM Interface (Sun May 22 2016 - 02:31:58 PDT)
- Re: [AMBER] QM/MM Interface (Sat May 21 2016 - 16:44:40 PDT)
- Re: [AMBER] QM/MM Interface (Sat May 21 2016 - 00:37:58 PDT)
- [AMBER] QM/MM energy minimization (Fri May 20 2016 - 03:34:28 PDT)
Stregone
- [AMBER] Organic solvent box - Amber do not see the molecule but its atoms (Tue May 24 2016 - 04:27:40 PDT)
Surya Prakash Tiwari
- Re: [AMBER] Problem with MCPB.py (Thu May 05 2016 - 10:37:59 PDT)
Tanmoy Paul
- [AMBER] Constant pH simulation (Tue May 10 2016 - 06:16:18 PDT)
Thomas C. Bishop
- Re: [AMBER] cpptraj + nastruct (Thu May 26 2016 - 12:27:42 PDT)
- Re: [AMBER] cpptraj + nastruct (Thu May 26 2016 - 05:49:38 PDT)
- [AMBER] cpptraj + nastruct (Wed May 25 2016 - 16:31:23 PDT)
Thomas Cheatham
- Re: [AMBER] Phosphorylated-RNA (Mon May 09 2016 - 19:11:30 PDT)
- Re: [AMBER] non zero net charge on molecule from AM1-BCC charge parameter fit (Wed May 04 2016 - 13:49:29 PDT)
- Re: [AMBER] non zero net charge on molecule from AM1-BCC charge parameter fit (Tue May 03 2016 - 22:22:09 PDT)
Thomas Pochapsky
- Re: [AMBER] issues with NONBOND LIST? (Tue May 17 2016 - 13:05:20 PDT)
- Re: [AMBER] issues with NONBOND LIST? (Tue May 17 2016 - 12:27:40 PDT)
- [AMBER] issues with NONBOND LIST? (Tue May 17 2016 - 11:45:32 PDT)
Trang Nguyen
- Re: [AMBER] Visualization of all-in-one mdcrd file in VMD (Tue May 10 2016 - 12:46:54 PDT)
- Re: [AMBER] Visualization of all-in-one mdcrd file in VMD (Tue May 10 2016 - 11:53:08 PDT)
- [AMBER] Visualization of all-in-one mdcrd file in VMD (Tue May 10 2016 - 11:26:02 PDT)
Vasantha Kumar
- [AMBER] NMR restraints violation limit (Mon May 30 2016 - 07:38:10 PDT)
- Re: [AMBER] query (Thu May 26 2016 - 05:27:30 PDT)
- Re: [AMBER] query (Thu May 26 2016 - 02:24:33 PDT)
- [AMBER] Scripts to gradually remove NMR restraints during MD simulation (Fri May 13 2016 - 02:46:10 PDT)
- Re: [AMBER] Restrain a single atom in the residue during minimization, instead of all the atoms in a residue with RES option (Tue May 10 2016 - 02:28:55 PDT)
- Re: [AMBER] Restrain a single atom in the residue during minimization, instead of all the atoms in a residue with RES option (Tue May 10 2016 - 01:32:54 PDT)
- [AMBER] Restrain a single atom in the residue during minimization, instead of all the atoms in a residue with RES option (Mon May 09 2016 - 13:32:39 PDT)
Vishal Nemaysh
- Re: [AMBER] Regarding Force Field Inquiry (Wed May 25 2016 - 05:41:01 PDT)
- [AMBER] Regarding Force Field Inquiry (Wed May 25 2016 - 04:22:48 PDT)
- Re: [AMBER] Regarding parameter file not saved (Tue May 24 2016 - 10:02:07 PDT)
- [AMBER] Regarding parameter file not saved (Tue May 24 2016 - 09:21:10 PDT)
Vlad Cojocaru
- Re: [AMBER] Simulation of DNA structure with a three-phosphate at 5' (Sun May 29 2016 - 05:44:52 PDT)
- Re: [AMBER] Simulation of DNA structure with a three-phosphate at 5' (Fri May 27 2016 - 01:25:30 PDT)
- Re: [AMBER] cpptraj + nastruct (Thu May 26 2016 - 07:09:51 PDT)
- Re: [AMBER] cpptraj + nastruct (Thu May 26 2016 - 00:33:52 PDT)
- [AMBER] Modified ARG LYS parameters (Wed May 25 2016 - 04:51:35 PDT)
- Re: [AMBER] Best Linux Choice (Fri May 20 2016 - 08:38:35 PDT)
Wesley Michael Botello-Smith
- Re: [AMBER] Best Linux Choice (Fri May 20 2016 - 15:42:49 PDT)
Wong Li Zhe
- [AMBER] RE_POSITION (Mon May 23 2016 - 18:07:15 PDT)
- [AMBER] MD Output File (Tue May 17 2016 - 00:56:59 PDT)
Yang, Hui
- [AMBER] help: what cause Sandar crash (Thu May 05 2016 - 06:23:23 PDT)
yhzahsc
- [AMBER] Phosphorylated-RNA (Mon May 09 2016 - 17:48:38 PDT)
Yong Wang
- [AMBER] Problems with cpinutil.py in CpHMD as adding a new titratable ligand (Fri May 06 2016 - 13:43:20 PDT)
Yves Boulard
- Re: [AMBER] Opening mol2 file in xleap (Fri May 20 2016 - 06:51:23 PDT)
Zhang Marc
- [AMBER] choice of lipid type in MD simulation (Fri May 20 2016 - 00:51:40 PDT)
Zhenyu Meng
- Re: [AMBER] Ewald force using debugf (Tue May 03 2016 - 20:28:42 PDT)
- Re: [AMBER] Ewald force using debugf (Tue May 03 2016 - 04:43:20 PDT)
- [AMBER] Ewald force using debugf (Mon May 02 2016 - 04:07:17 PDT)
Ziba Bahadori
- [AMBER] calculated rmsd (Tue May 31 2016 - 00:12:29 PDT)
- [AMBER] mmpbsa (Tue May 24 2016 - 11:14:24 PDT)
- [AMBER] mmpbsa (Wed May 18 2016 - 10:37:26 PDT)
Åsmund Røhr Kjendseth
- [AMBER] Amber16: COM's in GPU version (Thu May 26 2016 - 05:50:52 PDT)
유효정
- [AMBER] Amber12 install error (Mon May 09 2016 - 08:39:11 PDT)

Amber Archive May 2016 by author