Amber Archive Sep 2015: by author

21428087.zju.edu.cn
- [AMBER] mmpbsa with Iodine problems (Fri Sep 04 2015 - 21:48:29 PDT)
Abhilash J
- Re: [AMBER] Implementation of GBSA in AMBER. (Tue Sep 22 2015 - 23:26:03 PDT)
- [AMBER] Implementation of GBSA in AMBER. (Tue Sep 22 2015 - 22:14:07 PDT)
achim.sandmann.chemie.stud.uni-erlangen.de
- Re: [AMBER] Non-equilibrium pulling with plane-point restraints (Tue Sep 01 2015 - 05:42:07 PDT)
Aishani Prem
- Re: [AMBER] AMBER Tutorial B1 Backbone atoms (Wed Sep 23 2015 - 18:51:18 PDT)
- [AMBER] AMBER Tutorial B1 Backbone atoms (Tue Sep 22 2015 - 13:32:28 PDT)
Albert
- [AMBER] keep residue numbering? (Fri Sep 11 2015 - 00:12:24 PDT)
Aleksandra Skoric
- Re: [AMBER] MMPBSA is not performing (Tue Sep 08 2015 - 03:59:04 PDT)
- Re: [AMBER] MMPBSA is not performing (Tue Sep 08 2015 - 02:46:24 PDT)
- Re: [AMBER] MMPBSA is not performing (Tue Sep 08 2015 - 01:30:12 PDT)
- Re: [AMBER] MMPBSA is not performing (Tue Sep 08 2015 - 00:59:21 PDT)
Alessandro Contini
- [AMBER] 12 PhD positions for the Marie Skłodowska-Curie ITN-European MoGglyNet (Tue Sep 29 2015 - 02:23:46 PDT)
- [AMBER] R: Re: degraded GPU performance (Tue Sep 22 2015 - 07:50:08 PDT)
Alessandro Contini (alessandro.contini)
- [AMBER] degraded GPU performance (Tue Sep 22 2015 - 07:22:00 PDT)
Amber Maharaj
- [AMBER] Molecular Dynamics for Porphyrin (Fri Sep 18 2015 - 09:45:47 PDT)
Andrew Bostick
- [AMBER] ambertools14 (Sat Sep 19 2015 - 04:30:55 PDT)
anilkumarsahoo.physics.iisc.ernet.in
- Re: [AMBER] Extracting Information for each Frames Considered for Entropy Calculation by Normal Modes (Mon Sep 21 2015 - 05:17:30 PDT)
- [AMBER] Extracting Information for each Frames Considered for Entropy Calculation by Normal Modes (Sun Sep 20 2015 - 15:09:22 PDT)
ankita mehta
- Re: [AMBER] query (Fri Sep 18 2015 - 07:35:46 PDT)
- Re: [AMBER] query (Wed Sep 16 2015 - 08:22:04 PDT)
- Re: [AMBER] query (Wed Sep 16 2015 - 08:06:35 PDT)
- Re: [AMBER] query (Wed Sep 16 2015 - 03:27:32 PDT)
- [AMBER] query (Tue Sep 15 2015 - 06:22:01 PDT)
Anselm Horn
- Re: [AMBER] cyclic peptides and bond command in leap (Thu Sep 17 2015 - 00:19:13 PDT)
Arjun Sharma
- [AMBER] cphmd reference energy (Wed Sep 16 2015 - 07:44:10 PDT)
- [AMBER] Cphmd (Wed Sep 09 2015 - 08:17:13 PDT)
Aronica, Pietro
- Re: [AMBER] chirality.c (Tue Sep 08 2015 - 07:05:53 PDT)
- [AMBER] chirality.c (Fri Sep 04 2015 - 08:20:39 PDT)
Asma Abro 28-FBAS/MSBI/F09
- Re: [AMBER] MMPBSA is not performing (Tue Sep 08 2015 - 03:02:38 PDT)
- Re: [AMBER] MMPBSA is not performing (Tue Sep 08 2015 - 02:13:29 PDT)
- Re: [AMBER] MMPBSA is not performing (Tue Sep 08 2015 - 00:21:10 PDT)
- [AMBER] MMPBSA is not performing (Sun Sep 06 2015 - 22:03:23 PDT)
asma.msbi28.iiu.edu.pk
- Re: [AMBER] MMPBSA is not performing (Tue Sep 08 2015 - 07:25:37 PDT)
- Re: [AMBER] MMPBSA is not performing (Tue Sep 08 2015 - 05:07:23 PDT)
- Re: [AMBER] MMPBSA is not performing (Tue Sep 08 2015 - 01:35:42 PDT)
- Re: [AMBER] MMPBSA is not performing (Tue Sep 08 2015 - 01:08:33 PDT)
Atila Petrosian
- Re: [AMBER] antechamber error (Fri Sep 18 2015 - 12:57:54 PDT)
- Re: [AMBER] antechamber error (Fri Sep 18 2015 - 11:04:08 PDT)
- Re: [AMBER] antechamber error (Fri Sep 18 2015 - 10:55:26 PDT)
- Re: [AMBER] antechamber error (Fri Sep 18 2015 - 04:29:01 PDT)
- Re: [AMBER] antechamber error (Thu Sep 17 2015 - 23:21:22 PDT)
- Re: [AMBER] antechamber error (Thu Sep 17 2015 - 08:44:08 PDT)
- Re: [AMBER] antechamber error (Thu Sep 17 2015 - 06:56:54 PDT)
- [AMBER] antechamber error (Thu Sep 17 2015 - 06:51:03 PDT)
Ayesha Kanwal
- Re: [AMBER] Error: ptraj is needed for MMPBSA (Wed Sep 30 2015 - 07:46:04 PDT)
- [AMBER] Error: ptraj is needed for MMPBSA (Tue Sep 29 2015 - 15:07:43 PDT)
- [AMBER] Problems with the Amber-14 compilation and using MMPBSA.py with ubuntu (Tue Sep 15 2015 - 23:10:16 PDT)
Bala subramanian
- Re: [AMBER] Simulation stops without errors (Thu Sep 17 2015 - 02:36:22 PDT)
- Re: [AMBER] Simulation stops without errors (Wed Sep 16 2015 - 02:06:26 PDT)
- [AMBER] Simulation stops without errors (Mon Sep 14 2015 - 00:46:49 PDT)
Batuhan Kav
- Re: [AMBER] glycam parameter file (Mon Sep 21 2015 - 07:27:50 PDT)
- Re: [AMBER] glycam parameter file (Mon Sep 21 2015 - 05:45:09 PDT)
- [AMBER] glycam parameter file (Mon Sep 21 2015 - 03:23:39 PDT)
bijyalaxmi athokpam
- Re: [AMBER] HELP in Emperical Valence bond model (EVB) (Thu Sep 24 2015 - 08:19:59 PDT)
- [AMBER] HELP in Emperical Valence bond model (EVB) (Wed Sep 23 2015 - 01:55:54 PDT)
- [AMBER] Usage of off-diagonal coupling parameters for EVB model (Tue Sep 22 2015 - 00:38:17 PDT)
Bill Ross
- Re: [AMBER] Addions Na+ (Tue Sep 22 2015 - 13:44:35 PDT)
- Re: [AMBER] Addions Na+ (Tue Sep 22 2015 - 12:11:10 PDT)
- Re: [AMBER] Minimization (Sat Sep 19 2015 - 18:04:36 PDT)
Brett
- [AMBER] on MD and Ramachandran outlier (Sun Sep 20 2015 - 04:49:12 PDT)
Brian Radak
- Re: [AMBER] Protein - RNA modelling (Tue Sep 22 2015 - 11:45:53 PDT)
Brittany Boykin
- [AMBER] QM/MM Equilibration Errors (Wed Sep 09 2015 - 14:41:55 PDT)
Carlos Simmerling
- Re: [AMBER] Need help regarding references (Wed Sep 30 2015 - 06:45:14 PDT)
- Re: [AMBER] Need help regarding references (Wed Sep 30 2015 - 05:50:30 PDT)
- Re: [AMBER] T-REMD Reproducibility - Cluster v.s Desktop (Fri Sep 25 2015 - 10:04:13 PDT)
- Re: [AMBER] T-REMD Reproducibility - Cluster v.s Desktop (Fri Sep 25 2015 - 09:17:12 PDT)
- Re: [AMBER] on MD and Ramachandran outlier (Sun Sep 20 2015 - 05:04:31 PDT)
- Re: [AMBER] Michaelis complex (Thu Sep 17 2015 - 11:07:49 PDT)
- Re: [AMBER] Michaelis complex (Thu Sep 17 2015 - 08:34:12 PDT)
- Re: [AMBER] Michaelis complex (Thu Sep 17 2015 - 06:48:33 PDT)
- Re: [AMBER] REMD to sample the conformational space of a defined part of the system (Fri Sep 11 2015 - 04:25:55 PDT)
CHAMI F.
- [AMBER] RESP charge fitting (Thu Sep 03 2015 - 11:10:49 PDT)
Chris
- [AMBER] distance based mask problem (Mon Sep 21 2015 - 21:01:19 PDT)
Chris
- Re: [AMBER] distance based mask problem (Mon Sep 28 2015 - 05:57:13 PDT)
- Re: [AMBER] distance based mask problem (Thu Sep 24 2015 - 05:46:10 PDT)
Christina Bergonzo
- Re: [AMBER] Calculating energy of solute (Fri Sep 18 2015 - 14:44:08 PDT)
Christina Berti
- Re: [AMBER] Updates for PBSA energy calculations (Wed Sep 30 2015 - 13:14:04 PDT)
- Re: [AMBER] Updates for PBSA energy calculations (Wed Sep 30 2015 - 08:50:49 PDT)
- [AMBER] Updates for PBSA energy calculations (Mon Sep 28 2015 - 16:17:04 PDT)
Covington, Cody Lance
- Re: [AMBER] wrap problem with QM/MM (Mon Sep 28 2015 - 07:18:49 PDT)
- [AMBER] wrap problem with QM/MM (Sun Sep 27 2015 - 13:49:38 PDT)
- [AMBER] adQMMM multiple solvation regions (Fri Sep 25 2015 - 08:03:31 PDT)
Damiano Spadoni
- Re: [AMBER] hpc error (Sun Sep 27 2015 - 10:23:53 PDT)
- Re: [AMBER] hpc error (Thu Sep 24 2015 - 03:55:45 PDT)
- Re: [AMBER] No output (Mon Sep 14 2015 - 05:50:12 PDT)
- [AMBER] FW: No output (Sat Sep 12 2015 - 13:52:00 PDT)
- Re: [AMBER] hpc error (Thu Sep 03 2015 - 03:16:19 PDT)
Daniel Roe
- Re: [AMBER] Error: ptraj is needed for MMPBSA (Tue Sep 29 2015 - 15:52:16 PDT)
- Re: [AMBER] clustering in PC subspace (Mon Sep 28 2015 - 20:00:48 PDT)
- Re: [AMBER] distance based mask problem (Mon Sep 28 2015 - 08:00:20 PDT)
- Re: [AMBER] distance based mask problem (Thu Sep 24 2015 - 08:19:47 PDT)
- Re: [AMBER] distance based mask problem (Thu Sep 24 2015 - 07:55:32 PDT)
- [AMBER] Command for hbond analysis (Wed Sep 23 2015 - 04:11:57 PDT)
- Re: [AMBER] warning when using cpptraj on BB atoms missing (Mon Sep 21 2015 - 07:54:32 PDT)
- Re: [AMBER] Splitting LES trajectory (Wed Sep 16 2015 - 08:53:32 PDT)
- Re: [AMBER] problem in plotting secondary structure graph (Wed Sep 16 2015 - 08:09:40 PDT)
- Re: [AMBER] pca (Wed Sep 16 2015 - 08:04:23 PDT)
- Re: [AMBER] several peptides in my input can be identified by cpptraj? (Wed Sep 16 2015 - 08:02:07 PDT)
- Re: [AMBER] Contact map residues (Wed Sep 16 2015 - 07:40:01 PDT)
- Re: [AMBER] watershell cpptraj question (Tue Sep 08 2015 - 08:54:01 PDT)
- Re: [AMBER] closest command in cpptraj (Tue Sep 08 2015 - 08:48:02 PDT)
- Re: [AMBER] Problem compiling cpptraj with openmp (Tue Sep 08 2015 - 08:43:50 PDT)
- Re: [AMBER] lifetime analysis (Wed Sep 02 2015 - 07:10:26 PDT)
- Re: [AMBER] lifetime analysis (Wed Sep 02 2015 - 06:43:53 PDT)
- Re: [AMBER] MMPBSA error - start frame (1) > total frames (0) (Tue Sep 01 2015 - 10:48:06 PDT)
David A Case
- Re: [AMBER] Updates for PBSA energy calculations (Wed Sep 30 2015 - 11:41:23 PDT)
- Re: [AMBER] Problem with saving parameters for a complex having Heme group (Mon Sep 28 2015 - 05:28:53 PDT)
- Re: [AMBER] Minimization of steps (Fri Sep 25 2015 - 17:53:34 PDT)
- Re: [AMBER] hpc error (Thu Sep 24 2015 - 05:48:22 PDT)
- Re: [AMBER] analysis from mixed amber 12 and amber 14 simulations (Wed Sep 23 2015 - 18:21:59 PDT)
- Re: [AMBER] Protein - RNA modelling (Wed Sep 23 2015 - 18:21:52 PDT)
- Re: [AMBER] Hoogsteen-Watson Base pair (Wed Sep 23 2015 - 12:21:33 PDT)
- Re: [AMBER] HELP in Emperical Valence bond model (EVB) (Wed Sep 23 2015 - 12:16:13 PDT)
- Re: [AMBER] Addions Na+ (Wed Sep 23 2015 - 06:40:11 PDT)
- Re: [AMBER] Installing AMBER (Tue Sep 22 2015 - 05:17:06 PDT)
- Re: [AMBER] Prepgen (Tue Sep 22 2015 - 05:10:35 PDT)
- Re: [AMBER] Prospective research areas of AMBER (Mon Sep 21 2015 - 11:34:58 PDT)
- Re: [AMBER] SHAKE&Vlimit (Mon Sep 21 2015 - 08:48:01 PDT)
- Re: [AMBER] q4md FF with two "small" molecules (Sun Sep 20 2015 - 05:40:16 PDT)
- Re: [AMBER] Antechamber Flags (Fri Sep 18 2015 - 18:24:45 PDT)
- Re: [AMBER] antechamber error (Fri Sep 18 2015 - 11:56:07 PDT)
- Re: [AMBER] Molecular Dynamics for Porphyrin (Fri Sep 18 2015 - 11:48:09 PDT)
- Re: [AMBER] MG ions being misplaced (Fri Sep 18 2015 - 11:43:27 PDT)
- Re: [AMBER] antechamber error (Fri Sep 18 2015 - 06:02:33 PDT)
- Re: [AMBER] antechamber error (Thu Sep 17 2015 - 11:47:15 PDT)
- Re: [AMBER] antechamber error (Thu Sep 17 2015 - 08:29:17 PDT)
- Re: [AMBER] DISAVE does not work on pmemd.cuda / GPU (Wed Sep 16 2015 - 19:42:13 PDT)
- Re: [AMBER] Leap Connection of Covalent Unit Continued (Wed Sep 16 2015 - 19:27:48 PDT)
- Re: [AMBER] query (Wed Sep 16 2015 - 12:14:22 PDT)
- Re: [AMBER] query (Wed Sep 16 2015 - 07:02:35 PDT)
- Re: [AMBER] help in parallel run (Wed Sep 16 2015 - 05:58:37 PDT)
- Re: [AMBER] Simulation stops without errors (Wed Sep 16 2015 - 05:56:09 PDT)
- Re: [AMBER] Problems with the Amber-14 compilation and using MMPBSA.py with ubuntu (Wed Sep 16 2015 - 05:53:49 PDT)
- Re: [AMBER] cyclic peptides and bond command in leap (Tue Sep 15 2015 - 14:50:59 PDT)
- Re: [AMBER] Antechamber error (Tue Sep 15 2015 - 14:41:08 PDT)
- Re: [AMBER] cyclic peptides and bond command in leap (Tue Sep 15 2015 - 12:02:04 PDT)
- Re: [AMBER] vlimit exceeded and high temperature (Tue Sep 15 2015 - 11:52:01 PDT)
- Re: [AMBER] sqm (Tue Sep 15 2015 - 11:39:57 PDT)
- Re: [AMBER] query (Tue Sep 15 2015 - 11:31:34 PDT)
- Re: [AMBER] Regarding Simulations of Ionic Liquids on GPU (Tue Sep 15 2015 - 05:48:45 PDT)
- Re: [AMBER] Proper Insertion of Covalently Bound Unit in Helical Structure (Mon Sep 14 2015 - 15:04:13 PDT)
- Re: [AMBER] What is wrong with the minimization? (Mon Sep 14 2015 - 14:40:47 PDT)
- Re: [AMBER] What is wrong with the minimization? (Sun Sep 13 2015 - 21:08:41 PDT)
- Re: [AMBER] Proper Insertion of Covalently Bound Unit in Helical Structure (Sun Sep 13 2015 - 21:01:02 PDT)
- Re: [AMBER] keep residue numbering? (Fri Sep 11 2015 - 08:06:09 PDT)
- Re: [AMBER] setting a box (Thu Sep 10 2015 - 09:02:27 PDT)
- Re: [AMBER] xmgrace in microsoft (Thu Sep 10 2015 - 06:37:17 PDT)
- Re: [AMBER] QM/MM Equilibration Errors (Thu Sep 10 2015 - 06:07:02 PDT)
- Re: [AMBER] chirality.c (Sat Sep 05 2015 - 09:13:47 PDT)
- Re: [AMBER] Trouble running Thermodynamic Integration in Amber14 with pmemd. (Thu Sep 03 2015 - 18:14:27 PDT)
- Re: [AMBER] RESP charge fitting (Thu Sep 03 2015 - 11:18:39 PDT)
- Re: [AMBER] error in GPU during equilibration (Wed Sep 02 2015 - 11:40:14 PDT)
David Poole
- [AMBER] Paramfit issues (Mon Sep 14 2015 - 03:31:57 PDT)
Do Yong Kim
- [AMBER] Fw: important (Wed Sep 09 2015 - 00:06:23 PDT)
Dr. Robert Molt Jr.
- Re: [AMBER] Proper Insertion of Covalently Bound Unit in Helical Structure (Mon Sep 14 2015 - 11:29:22 PDT)
Duke, Robert E Jr
- Re: [AMBER] hpc error (Sun Sep 27 2015 - 13:24:25 PDT)
- Re: [AMBER] hpc error (Thu Sep 24 2015 - 09:12:33 PDT)
Ebert Maximilian
- Re: [AMBER] Oxygen parameters for AMBER99SB-ILDN (Wed Sep 30 2015 - 10:42:45 PDT)
- [AMBER] Oxygen parameters for AMBER99SB-ILDN (Wed Sep 30 2015 - 10:04:27 PDT)
Eg eh
- [AMBER] Different result before and after AUTOIMAGE from CPPTRAJ? (Wed Sep 02 2015 - 13:21:50 PDT)
Eiros Zamora, Juan
- Re: [AMBER] [parmed.py] chemistry.exceptions.AmberParmError loading topology file (Thu Sep 10 2015 - 03:41:52 PDT)
- Re: [AMBER] cpptraj script for average 3D protein structure? (Thu Sep 10 2015 - 03:37:59 PDT)
- [AMBER] [parmed.py] chemistry.exceptions.AmberParmError loading topology file (Wed Sep 09 2015 - 10:34:50 PDT)
Eric Berquist
- [AMBER] Addition of single water molecules (Fri Sep 11 2015 - 13:21:06 PDT)
Fabian Glaser
- Re: [AMBER] warning when using cpptraj on BB atoms missing (Mon Sep 21 2015 - 09:09:24 PDT)
Fabian gmail
- [AMBER] warning when using cpptraj on BB atoms missing (Mon Sep 21 2015 - 07:16:43 PDT)
- Re: [AMBER] several peptides in my input can be identified by cpptraj? (Wed Sep 16 2015 - 08:20:58 PDT)
- [AMBER] several peptides in my input can be identified by cpptraj? (Thu Sep 10 2015 - 03:05:50 PDT)
filip fratev
- Re: [AMBER] clustering in PC subspace (Mon Sep 28 2015 - 16:17:14 PDT)
- Re: [AMBER] clustering in PC subspace (Mon Sep 28 2015 - 16:10:18 PDT)
- Re: [AMBER] clustering in PC subspace (Mon Sep 28 2015 - 15:41:59 PDT)
Francesco Pietra
- Re: [AMBER] Fwd: q4md FF with two "small" molecules (Mon Sep 21 2015 - 09:38:44 PDT)
- [AMBER] Fwd: q4md FF with two "small" molecules (Mon Sep 21 2015 - 03:11:00 PDT)
- Re: [AMBER] q4md FF with two "small" molecules (Sun Sep 20 2015 - 07:47:22 PDT)
- [AMBER] q4md FF with two "small" molecules (Sun Sep 20 2015 - 02:01:08 PDT)
- Re: [AMBER] Issues with gaff cd=cc atom type (Sat Sep 19 2015 - 00:21:33 PDT)
- Re: [AMBER] Issues with gaff cd=cc atom type (Fri Sep 18 2015 - 13:39:46 PDT)
- Re: [AMBER] Issues with gaff cd=cc atom type (Fri Sep 18 2015 - 09:57:12 PDT)
- [AMBER] Issues with gaff cd=cc atom type (Fri Sep 18 2015 - 00:46:20 PDT)
FyD
- Re: [AMBER] RESP charge fitting (Thu Sep 03 2015 - 22:57:47 PDT)
- Re: [AMBER] job submission in RED (Thu Sep 03 2015 - 02:12:10 PDT)
George Green
- Re: [AMBER] analysis from mixed amber 12 and amber 14 simulations (Wed Sep 23 2015 - 22:27:27 PDT)
- [AMBER] analysis from mixed amber 12 and amber 14 simulations (Wed Sep 23 2015 - 12:22:24 PDT)
George Tzotzos
- [AMBER] Test (Wed Sep 16 2015 - 05:18:31 PDT)
- [AMBER] Fwd: Mail ceased to work in the last 72 hours (Tue Sep 15 2015 - 19:01:37 PDT)
- [AMBER] Testing the mail server (Sun Sep 13 2015 - 14:51:27 PDT)
Gustavo Seabra
- Re: [AMBER] Need help regarding references (Wed Sep 30 2015 - 07:20:07 PDT)
- Re: [AMBER] T-REMD Reproducibility - Cluster v.s Desktop (Fri Sep 25 2015 - 11:18:20 PDT)
- Re: [AMBER] Freeze atoms to DM (Mon Sep 21 2015 - 12:33:00 PDT)
Hai Nguyen
- Re: [AMBER] Implementation of GBSA in AMBER. (Tue Sep 22 2015 - 22:32:11 PDT)
- Re: [AMBER] OpenMM (Tue Sep 22 2015 - 18:32:39 PDT)
Hannes Loeffler
- Re: [AMBER] AMBER benchmarks (Fri Sep 25 2015 - 03:26:08 PDT)
- Re: [AMBER] sqm (Tue Sep 15 2015 - 07:34:01 PDT)
- Re: [AMBER] sqm (Tue Sep 15 2015 - 07:18:09 PDT)
- Re: [AMBER] Problem compiling cpptraj with openmp (Tue Sep 08 2015 - 08:46:08 PDT)
- [AMBER] index and sort order in prmtop (Tue Sep 08 2015 - 07:55:06 PDT)
hannes.loeffler.stfc.ac.uk
- Re: [AMBER] antechamber error (Thu Sep 17 2015 - 10:29:00 PDT)
- Re: [AMBER] Trouble running Thermodynamic Integration in Amber14 with pmemd. (Fri Sep 04 2015 - 10:17:27 PDT)
- Re: [AMBER] Trouble running Thermodynamic Integration in Amber14 with pmemd. (Thu Sep 03 2015 - 23:38:07 PDT)
Hector A. Baldoni
- Re: [AMBER] Installing AMBER (Tue Sep 22 2015 - 04:12:37 PDT)
- Re: [AMBER] Michaelis complex (Thu Sep 17 2015 - 10:35:48 PDT)
- Re: [AMBER] Michaelis complex (Thu Sep 17 2015 - 06:44:18 PDT)
- [AMBER] Michaelis complex (Wed Sep 16 2015 - 13:11:06 PDT)
Huggins, Esther, C
- Re: [AMBER] What is wrong with the minimization? (Mon Sep 14 2015 - 09:12:07 PDT)
- Re: [AMBER] What is wrong with the minimization? (Mon Sep 14 2015 - 07:14:42 PDT)
- [AMBER] What is wrong with the minimization? (Sun Sep 13 2015 - 17:30:50 PDT)
Jason Swails
- Re: [AMBER] Updates for PBSA energy calculations (Wed Sep 30 2015 - 15:00:18 PDT)
- Re: [AMBER] Oxygen parameters for AMBER99SB-ILDN (Wed Sep 30 2015 - 10:20:59 PDT)
- Re: [AMBER] Error: ptraj is needed for MMPBSA (Wed Sep 30 2015 - 08:37:45 PDT)
- Re: [AMBER] Amber compilation problem (Wed Sep 30 2015 - 05:22:06 PDT)
- Re: [AMBER] Updates for PBSA energy calculations (Mon Sep 28 2015 - 22:07:47 PDT)
- Re: [AMBER] hpc error (Mon Sep 28 2015 - 14:41:14 PDT)
- Re: [AMBER] Problem with saving parameters for a complex having Heme group (Mon Sep 28 2015 - 05:22:29 PDT)
- Re: [AMBER] hpc error (Sun Sep 27 2015 - 12:43:14 PDT)
- Re: [AMBER] T-REMD Reproducibility - Cluster v.s Desktop (Fri Sep 25 2015 - 10:32:58 PDT)
- Re: [AMBER] jfastw=4 and vlimit exceeded (Fri Sep 25 2015 - 08:24:32 PDT)
- Re: [AMBER] jfastw=4 and vlimit exceeded (Fri Sep 25 2015 - 07:27:43 PDT)
- Re: [AMBER] free -COOH at the C-terminus (Thu Sep 24 2015 - 12:13:46 PDT)
- Re: [AMBER] hpc error (Thu Sep 24 2015 - 06:23:39 PDT)
- Re: [AMBER] hpc error (Thu Sep 24 2015 - 05:18:50 PDT)
- Re: [AMBER] CpHMD simulation for non protein residues (Wed Sep 23 2015 - 10:28:54 PDT)
- Re: [AMBER] Implementation of GBSA in AMBER. (Wed Sep 23 2015 - 06:31:37 PDT)
- Re: [AMBER] OpenMM (Wed Sep 23 2015 - 06:23:38 PDT)
- Re: [AMBER] Addions Na+ (Tue Sep 22 2015 - 14:17:02 PDT)
- Re: [AMBER] Addions Na+ (Tue Sep 22 2015 - 12:33:44 PDT)
- Re: [AMBER] help in RDF (Tue Sep 22 2015 - 05:20:01 PDT)
- Re: [AMBER] distance based mask problem (Tue Sep 22 2015 - 05:15:26 PDT)
- Re: [AMBER] Freeze atoms to DM (Mon Sep 21 2015 - 12:34:27 PDT)
- Re: [AMBER] Freeze atoms to DM (Mon Sep 21 2015 - 12:33:37 PDT)
- Re: [AMBER] glycam parameter file (Mon Sep 21 2015 - 06:35:01 PDT)
- Re: [AMBER] SHAKE&Vlimit (Mon Sep 21 2015 - 04:28:21 PDT)
- Re: [AMBER] Fwd: q4md FF with two "small" molecules (Mon Sep 21 2015 - 04:23:50 PDT)
- Re: [AMBER] Problem In Performing MMPBSA Calculation for System containing Ligand and Protein (Mon Sep 21 2015 - 04:19:50 PDT)
- Re: [AMBER] glycam parameter file (Mon Sep 21 2015 - 04:18:01 PDT)
- Re: [AMBER] Extracting Information for each Frames Considered for Entropy Calculation by Normal Modes (Sun Sep 20 2015 - 19:09:32 PDT)
- Re: [AMBER] ambertools14 (Sat Sep 19 2015 - 06:04:49 PDT)
- Re: [AMBER] CpHMD for non protein residues (Fri Sep 18 2015 - 14:04:09 PDT)
- Re: [AMBER] per residue decomposition MMPBSA (Fri Sep 18 2015 - 10:49:43 PDT)
- Re: [AMBER] Issues with gaff cd=cc atom type (Fri Sep 18 2015 - 10:47:57 PDT)
- Re: [AMBER] Molecular Dynamics for Porphyrin (Fri Sep 18 2015 - 09:55:28 PDT)
- Re: [AMBER] parmed.py (Fri Sep 18 2015 - 04:40:43 PDT)
- Re: [AMBER] Issues with gaff cd=cc atom type (Fri Sep 18 2015 - 04:36:52 PDT)
- Re: [AMBER] antechamber error (Fri Sep 18 2015 - 04:34:51 PDT)
- Re: [AMBER] vlimit exceeded and high temperature (Fri Sep 18 2015 - 04:29:13 PDT)
- Re: [AMBER] Michaelis complex (Thu Sep 17 2015 - 10:57:03 PDT)
- Re: [AMBER] Michaelis complex (Thu Sep 17 2015 - 08:20:50 PDT)
- Re: [AMBER] Michaelis complex (Thu Sep 17 2015 - 08:16:59 PDT)
- Re: [AMBER] Simulation stops without errors (Thu Sep 17 2015 - 04:28:56 PDT)
- Re: [AMBER] Michaelis complex (Thu Sep 17 2015 - 04:25:44 PDT)
- Re: [AMBER] query (Wed Sep 16 2015 - 08:17:14 PDT)
- Re: [AMBER] cphmd reference energy (Wed Sep 16 2015 - 08:16:01 PDT)
- Re: [AMBER] vlimit exceeded and high temperature (Wed Sep 16 2015 - 08:07:41 PDT)
- Re: [AMBER] help in parallel run (Wed Sep 16 2015 - 05:41:05 PDT)
- Re: [AMBER] Simulation stops without errors (Wed Sep 16 2015 - 05:28:15 PDT)
- Re: [AMBER] Problems with the Amber-14 compilation and using MMPBSA.py with ubuntu (Wed Sep 16 2015 - 05:25:34 PDT)
- Re: [AMBER] mmpbsa error (Tue Sep 15 2015 - 10:25:48 PDT)
- Re: [AMBER] sqm (Tue Sep 15 2015 - 07:33:10 PDT)
- Re: [AMBER] A question on binding free energy decomposition output (Tue Sep 15 2015 - 07:30:30 PDT)
- Re: [AMBER] mmpbsa error (Tue Sep 15 2015 - 07:27:42 PDT)
- Re: [AMBER] Parmed crash (Mon Sep 14 2015 - 09:44:40 PDT)
- Re: [AMBER] What is wrong with the minimization? (Mon Sep 14 2015 - 09:22:57 PDT)
- Re: [AMBER] Parmed crash (Mon Sep 14 2015 - 09:04:23 PDT)
- Re: [AMBER] What is wrong with the minimization? (Mon Sep 14 2015 - 09:02:20 PDT)
- Re: [AMBER] Simulation stops without errors (Mon Sep 14 2015 - 06:08:56 PDT)
- Re: [AMBER] No output (Mon Sep 14 2015 - 06:04:19 PDT)
- Re: [AMBER] No output (Sat Sep 12 2015 - 20:12:29 PDT)
- Re: [AMBER] CpHMD of Succinic Acid (Sat Sep 12 2015 - 19:56:59 PDT)
- Re: [AMBER] Addition of single water molecules (Fri Sep 11 2015 - 15:40:20 PDT)
- Re: [AMBER] limit exceeded and high temperature (Fri Sep 11 2015 - 08:26:17 PDT)
- Re: [AMBER] xmgrace in microsoft (Thu Sep 10 2015 - 06:31:26 PDT)
- Re: [AMBER] [parmed.py] chemistry.exceptions.AmberParmError loading topology file (Thu Sep 10 2015 - 05:36:16 PDT)
- Re: [AMBER] [parmed.py] chemistry.exceptions.AmberParmError loading topology file (Wed Sep 09 2015 - 18:50:01 PDT)
- Re: [AMBER] Cphmd (Wed Sep 09 2015 - 08:49:50 PDT)
- Re: [AMBER] Changing font size with mdout_analyzer.py (Wed Sep 09 2015 - 08:47:21 PDT)
- Re: [AMBER] ParmEd problem: LJ12_6_4Error: Could not find parameters for ATOM_TYPE CX (Wed Sep 09 2015 - 08:27:54 PDT)
- Re: [AMBER] index and sort order in prmtop (Tue Sep 08 2015 - 13:19:29 PDT)
- Re: [AMBER] REMD to sample the conformational space of a defined part of the system (Tue Sep 08 2015 - 13:15:02 PDT)
- Re: [AMBER] Amber15 compiler error 'undefined reference to `fftw_plan_dft_r2c_3d'' with Cygwin (Tue Sep 08 2015 - 06:38:51 PDT)
- Re: [AMBER] MMPBSA is not performing (Tue Sep 08 2015 - 06:36:07 PDT)
- Re: [AMBER] REMD to sample the conformational space of a defined part of the system (Tue Sep 08 2015 - 04:29:53 PDT)
- Re: [AMBER] Trouble running Thermodynamic Integration in Amber14 with pmemd. (Mon Sep 07 2015 - 10:49:05 PDT)
- Re: [AMBER] Multiplicity in QM/MM calculations (Mon Sep 07 2015 - 10:45:38 PDT)
- Re: [AMBER] MMPBSA is not performing (Mon Sep 07 2015 - 05:31:07 PDT)
- Re: [AMBER] gpu run (Sun Sep 06 2015 - 10:26:03 PDT)
- Re: [AMBER] MMPBSA error (Fri Sep 04 2015 - 04:24:01 PDT)
- Re: [AMBER] hpc error (Thu Sep 03 2015 - 05:25:58 PDT)
- Re: [AMBER] Different result before and after AUTOIMAGE from CPPTRAJ? (Wed Sep 02 2015 - 13:46:14 PDT)
- Re: [AMBER] Amber14 Update 13 fails. (Wed Sep 02 2015 - 08:22:16 PDT)
Jonathan Gough
- Re: [AMBER] cyclic peptides and bond command in leap (Tue Sep 15 2015 - 12:55:49 PDT)
- Re: [AMBER] cyclic peptides and bond command in leap (Tue Sep 15 2015 - 12:11:29 PDT)
- [AMBER] cyclic peptides and bond command in leap (Tue Sep 15 2015 - 10:04:18 PDT)
Joseph Baker
- Re: [AMBER] closest command in cpptraj (Mon Sep 07 2015 - 11:22:57 PDT)
Jovanovic, Srdan
- [AMBER] Parameters for benzene sulfonamide (Mon Sep 07 2015 - 10:16:55 PDT)
Juan Eiros Zamora
- Re: [AMBER] [parmed.py] chemistry.exceptions.AmberParmError loading topology file (Fri Sep 11 2015 - 04:16:26 PDT)
Kalenkiewicz, Andrew (NIH/NICHD) [F]
- [AMBER] MG ions being misplaced (Fri Sep 18 2015 - 09:44:27 PDT)
- [AMBER] Antechamber error (Tue Sep 15 2015 - 11:38:43 PDT)
Karl Kirschner
- Re: [AMBER] Parameters for benzene sulfonamide (Tue Sep 08 2015 - 01:24:30 PDT)
Karolina Markowska
- Re: [AMBER] ParmEd problem: LJ12_6_4Error: Could not find parameters for ATOM_TYPE CX (Wed Sep 09 2015 - 12:21:53 PDT)
- [AMBER] ParmEd problem: LJ12_6_4Error: Could not find parameters for ATOM_TYPE CX (Tue Sep 08 2015 - 14:41:10 PDT)
Kenneth Huang
- Re: [AMBER] Addions Na+ (Tue Sep 22 2015 - 12:26:10 PDT)
- Re: [AMBER] query (Wed Sep 16 2015 - 05:42:20 PDT)
- [AMBER] query (Tue Sep 15 2015 - 06:38:05 PDT)
- Re: [AMBER] gpu run (Sat Sep 05 2015 - 18:12:05 PDT)
- Re: [AMBER] mmpbsa with Iodine problems (Sat Sep 05 2015 - 17:18:17 PDT)
Krantzman, Kristin D
- [AMBER] Calculating energy of solute (Fri Sep 18 2015 - 14:33:10 PDT)
- [AMBER] Changing font size with mdout_analyzer.py (Wed Sep 09 2015 - 08:19:31 PDT)
Kshatresh Dutta Dubey
- Re: [AMBER] MCPB problem (Mon Sep 14 2015 - 10:42:01 PDT)
- Re: [AMBER] MCPB problem (Sat Sep 12 2015 - 20:05:24 PDT)
- Re: [AMBER] MCPB problem (Sat Sep 12 2015 - 19:11:10 PDT)
- Re: [AMBER] MCPB problem (Sat Sep 12 2015 - 07:45:29 PDT)
- Re: [AMBER] MCPB problem (Fri Sep 11 2015 - 09:50:41 PDT)
- Re: [AMBER] MCPB problem (Fri Sep 11 2015 - 09:15:19 PDT)
- [AMBER] MCPB problem (Thu Sep 10 2015 - 13:25:00 PDT)
- [AMBER] Multiplicity in QM/MM calculations (Mon Sep 07 2015 - 10:13:38 PDT)
Lachele Foley
- Re: [AMBER] glycam parameter file (Mon Sep 21 2015 - 06:55:32 PDT)
Lara rajam
- [AMBER] per residue decomposition MMPBSA (Fri Sep 18 2015 - 10:03:29 PDT)
- Re: [AMBER] mmpbsa error (Tue Sep 15 2015 - 09:50:37 PDT)
- [AMBER] mmpbsa error (Mon Sep 14 2015 - 18:40:49 PDT)
- [AMBER] pca (Thu Sep 10 2015 - 08:30:44 PDT)
- Re: [AMBER] gpu run (Sun Sep 06 2015 - 09:41:55 PDT)
- [AMBER] gpu run (Sat Sep 05 2015 - 16:32:13 PDT)
- Re: [AMBER] error in GPU during equilibration (Wed Sep 02 2015 - 15:35:39 PDT)
- Re: [AMBER] error in GPU during equilibration (Wed Sep 02 2015 - 15:17:51 PDT)
- Re: [AMBER] error in GPU during equilibration (Wed Sep 02 2015 - 11:51:41 PDT)
- [AMBER] error in GPU during equilibration (Wed Sep 02 2015 - 09:30:26 PDT)
loic etheve
- Re: [AMBER] lifetime analysis (Wed Sep 02 2015 - 07:14:27 PDT)
- Re: [AMBER] lifetime analysis (Wed Sep 02 2015 - 06:47:39 PDT)
- [AMBER] lifetime analysis (Wed Sep 02 2015 - 06:41:46 PDT)
- [AMBER] lifetime analysis (Wed Sep 02 2015 - 06:37:45 PDT)
Luciano Costa
- Re: [AMBER] xmgrace in microsoft (Fri Sep 11 2015 - 19:14:13 PDT)
Mahmoud A. A. Ibrahim
- Re: [AMBER] Halogen bond force field in AMBER (Wed Sep 23 2015 - 02:00:00 PDT)
Marawan Hussien
- [AMBER] Membrane simulation without a membrane, only lipophilic solvent (membranemimetic) (Thu Sep 24 2015 - 19:11:03 PDT)
- [AMBER] Membrane simulation without a membrane, only lipophilic solvent (membranemimetic) (Thu Sep 24 2015 - 18:10:50 PDT)
Marc van der Kamp
- Re: [AMBER] wrap problem with QM/MM (Mon Sep 28 2015 - 01:01:22 PDT)
- Re: [AMBER] Problem compiling cpptraj with openmp (Tue Sep 08 2015 - 09:05:48 PDT)
- [AMBER] Problem compiling cpptraj with openmp (Tue Sep 08 2015 - 08:32:51 PDT)
Marcelo Andrade Chagas
- [AMBER] Minimization of steps (Fri Sep 25 2015 - 11:26:39 PDT)
- Re: [AMBER] Addions Na+ (Tue Sep 22 2015 - 14:20:26 PDT)
- Re: [AMBER] Addions Na+ (Tue Sep 22 2015 - 14:07:47 PDT)
- Re: [AMBER] Addions Na+ (Tue Sep 22 2015 - 12:20:08 PDT)
- [AMBER] Addions Na+ (Tue Sep 22 2015 - 11:52:44 PDT)
- Re: [AMBER] Freeze atoms to DM (Mon Sep 21 2015 - 12:55:55 PDT)
- [AMBER] Freeze atoms to DM (Mon Sep 21 2015 - 12:21:27 PDT)
- [AMBER] Minimization (Fri Sep 18 2015 - 14:13:25 PDT)
- [AMBER] Parameterization empirical method (Fri Sep 11 2015 - 11:40:41 PDT)
Martina Devi
- [AMBER] Hoogsteen-Watson Base pair (Wed Sep 23 2015 - 08:02:01 PDT)
- Re: [AMBER] Command for hbond analysis (Wed Sep 23 2015 - 07:08:51 PDT)
- [AMBER] Command for hbond analysis (Wed Sep 23 2015 - 00:41:35 PDT)
- Re: [AMBER] xmgrace in microsoft (Thu Sep 17 2015 - 22:43:50 PDT)
- Re: [AMBER] xmgrace in microsoft (Thu Sep 10 2015 - 06:43:13 PDT)
- [AMBER] xmgrace in microsoft (Thu Sep 10 2015 - 06:03:09 PDT)
Michael Shokhen
- Re: [AMBER] cpptraj script for average 3D protein structure? (Thu Sep 10 2015 - 05:53:49 PDT)
- Re: [AMBER] cpptraj script for average 3D protein structure? (Thu Sep 10 2015 - 03:11:09 PDT)
- [AMBER] cpptraj script for average 3D protein structure? (Thu Sep 10 2015 - 01:23:13 PDT)
mohammad r
- Re: [AMBER] setting a box (Thu Sep 10 2015 - 10:45:10 PDT)
- [AMBER] setting a box (Thu Sep 10 2015 - 08:35:07 PDT)
MOHD HOMAIDUR RAHMAN
- [AMBER] Regarding Simulations of Ionic Liquids on GPU (Mon Sep 14 2015 - 22:45:41 PDT)
- Re: [AMBER] Regarding AmberTool 14 installation (Tue Sep 08 2015 - 00:37:10 PDT)
- Re: [AMBER] Regarding AmberTool 14 installation (Mon Sep 07 2015 - 22:32:16 PDT)
Mykola Dimura
- [AMBER] DISAVE does not work on pmemd.cuda / GPU (Wed Sep 16 2015 - 09:57:33 PDT)
- Re: [AMBER] Parmed crash (Mon Sep 14 2015 - 09:23:14 PDT)
- [AMBER] Parmed crash (Mon Sep 14 2015 - 08:50:12 PDT)
Neha Gandhi
- [AMBER] AMBER benchmarks (Fri Sep 25 2015 - 03:05:55 PDT)
- [AMBER] Contact map residues (Wed Sep 09 2015 - 00:30:30 PDT)
Nic Steussy
- Re: [AMBER] antechamber error (Thu Sep 17 2015 - 10:35:42 PDT)
- Re: [AMBER] query (Wed Sep 16 2015 - 08:47:56 PDT)
Nigel Palmer
- Re: [AMBER] Amber15 compiler error 'undefined reference to `fftw_plan_dft_r2c_3d'' with Cygwin (Tue Sep 08 2015 - 06:50:24 PDT)
- [AMBER] Amber15 compiler error 'undefined reference to `fftw_plan_dft_r2c_3d'' with Cygwin (Tue Sep 08 2015 - 06:16:29 PDT)
Oliver Grant
- [AMBER] Amber14 Update 13 fails. (Wed Sep 02 2015 - 07:44:51 PDT)
Pengfei Li
- Re: [AMBER] MCPB problem (Mon Sep 14 2015 - 14:28:42 PDT)
- Re: [AMBER] MCPB problem (Mon Sep 14 2015 - 09:15:29 PDT)
- Re: [AMBER] MCPB problem (Sat Sep 12 2015 - 16:30:02 PDT)
- Re: [AMBER] MCPB problem (Fri Sep 11 2015 - 09:19:52 PDT)
- Re: [AMBER] MCPB problem (Fri Sep 11 2015 - 08:56:14 PDT)
- Re: [AMBER] KeyError: 4018 (Wed Sep 02 2015 - 18:35:15 PDT)
psu4.uic.edu
- [AMBER] Halogen bond force field in AMBER (Tue Sep 22 2015 - 15:49:39 PDT)
Rahul Ramesh
- Re: [AMBER] CpHMD simulation for non protein residues (Wed Sep 23 2015 - 10:55:22 PDT)
- [AMBER] CpHMD simulation for non protein residues (Wed Sep 23 2015 - 09:05:46 PDT)
- Re: [AMBER] CpHMD for non protein residues (Fri Sep 18 2015 - 14:23:02 PDT)
- [AMBER] CpHMD for non protein residues (Fri Sep 18 2015 - 13:59:29 PDT)
- [AMBER] CpHMD of Succinic Acid (Fri Sep 11 2015 - 18:02:24 PDT)
Ray Luo, Ph.D.
- Re: [AMBER] Updates for PBSA energy calculations (Tue Sep 29 2015 - 09:57:05 PDT)
- Re: [AMBER] Problem In Performing MMPBSA Calculation for System containing Ligand and Protein (Tue Sep 22 2015 - 11:28:45 PDT)
Repic Matej
- Re: [AMBER] cpptraj script for average 3D protein structure? (Thu Sep 10 2015 - 02:58:59 PDT)
Robert Molt
- [AMBER] Prepgen (Mon Sep 21 2015 - 18:36:43 PDT)
- [AMBER] Antechamber Flags (Fri Sep 18 2015 - 18:00:04 PDT)
- Re: [AMBER] Issues with gaff cd=cc atom type (Fri Sep 18 2015 - 17:52:24 PDT)
- [AMBER] Leap Connection of Covalent Unit Continued (Wed Sep 16 2015 - 18:30:45 PDT)
- Re: [AMBER] Proper Insertion of Covalently Bound Unit in Helical Structure (Mon Sep 14 2015 - 13:58:22 PDT)
- [AMBER] Proper Insertion of Covalently Bound Unit in Helical Structure (Sun Sep 13 2015 - 17:06:36 PDT)
Robin Betz
- Re: [AMBER] Paramfit issues (Mon Sep 14 2015 - 14:53:44 PDT)
Robin Jain
- [AMBER] help in RDF (Tue Sep 22 2015 - 01:18:57 PDT)
- [AMBER] help in parallel run (Wed Sep 16 2015 - 02:36:36 PDT)
Ross Walker
- Re: [AMBER] degraded GPU performance (Tue Sep 22 2015 - 07:41:47 PDT)
- Re: [AMBER] QM&Lipid14 (Mon Sep 21 2015 - 00:19:30 PDT)
- Re: [AMBER] No output (Sat Sep 12 2015 - 14:02:09 PDT)
- Re: [AMBER] limit exceeded and high temperature (Fri Sep 11 2015 - 08:48:30 PDT)
- Re: [AMBER] HPC (Thu Sep 10 2015 - 12:33:48 PDT)
- Re: [AMBER] gpu run (Sun Sep 06 2015 - 09:14:12 PDT)
- Re: [AMBER] error in GPU during equilibration (Wed Sep 02 2015 - 15:30:31 PDT)
- Re: [AMBER] error in GPU during equilibration (Wed Sep 02 2015 - 12:09:48 PDT)
- Re: [AMBER] error in GPU during equilibration (Wed Sep 02 2015 - 12:04:55 PDT)
Ruth Helena Tichauer
- Re: [AMBER] jfastw=4 and vlimit exceeded (Fri Sep 25 2015 - 08:45:08 PDT)
- Re: [AMBER] jfastw=4 and vlimit exceeded (Fri Sep 25 2015 - 08:08:38 PDT)
- [AMBER] jfastw=4 and vlimit exceeded (Fri Sep 25 2015 - 06:46:06 PDT)
- Re: [AMBER] vlimit exceeded and high temperature (Fri Sep 18 2015 - 05:48:55 PDT)
- Re: [AMBER] vlimit exceeded and high temperature (Fri Sep 18 2015 - 01:52:23 PDT)
- Re: [AMBER] vlimit exceeded and high temperature (Wed Sep 16 2015 - 06:16:29 PDT)
- [AMBER] vlimit exceeded and high temperature (Tue Sep 15 2015 - 09:06:34 PDT)
- Re: [AMBER] limit exceeded and high temperature (Mon Sep 14 2015 - 02:56:46 PDT)
- Re: [AMBER] limit exceeded and high temperature (Fri Sep 11 2015 - 09:06:21 PDT)
- Re: [AMBER] limit exceeded and high temperature (Fri Sep 11 2015 - 08:40:13 PDT)
- [AMBER] limit exceeded and high temperature (Fri Sep 11 2015 - 07:52:05 PDT)
Sabyasachi Sahoo
- Re: [AMBER] Prospective research areas of AMBER (Tue Sep 22 2015 - 02:40:10 PDT)
- [AMBER] Prospective research areas of AMBER (Mon Sep 21 2015 - 10:25:23 PDT)
Saikat Dutta chowdhury
- Re: [AMBER] Need help regarding references (Wed Sep 30 2015 - 06:28:59 PDT)
- [AMBER] Need help regarding references (Wed Sep 30 2015 - 05:42:07 PDT)
Sangeetha B
- [AMBER] MMPBSA error - start frame (1) > total frames (0) (Tue Sep 01 2015 - 08:39:44 PDT)
Sehrish Naz
- [AMBER] problem in plotting secondary structure graph (Tue Sep 15 2015 - 21:11:19 PDT)
Sergey Samsonov
- [AMBER] Splitting LES trajectory (Wed Sep 16 2015 - 08:29:52 PDT)
- Re: [AMBER] REMD to sample the conformational space of a defined part of the system (Fri Sep 11 2015 - 07:46:47 PDT)
- Re: [AMBER] REMD to sample the conformational space of a defined part of the system (Fri Sep 11 2015 - 00:11:21 PDT)
- Re: [AMBER] REMD to sample the conformational space of a defined part of the system (Tue Sep 08 2015 - 07:05:47 PDT)
- [AMBER] REMD to sample the conformational space of a defined part of the system (Tue Sep 08 2015 - 00:50:33 PDT)
Setyanto Md
- Re: [AMBER] Regarding AmberTool 14 installation (Tue Sep 08 2015 - 01:42:55 PDT)
- Re: [AMBER] Regarding AmberTool 14 installation (Mon Sep 07 2015 - 22:44:40 PDT)
- Re: [AMBER] Regarding AmberTool 14 installation (Mon Sep 07 2015 - 22:03:50 PDT)
Sidhu, Khushwant (Dr.)
- [AMBER] Protein - RNA modelling (Tue Sep 22 2015 - 06:50:01 PDT)
Sofia Vasilakaki
- [AMBER] OpenMM (Tue Sep 22 2015 - 17:26:45 PDT)
- [AMBER] QM&Lipid14 (Sun Sep 20 2015 - 16:58:28 PDT)
- Re: [AMBER] sqm (Tue Sep 15 2015 - 12:37:41 PDT)
- Re: [AMBER] sqm (Tue Sep 15 2015 - 07:29:45 PDT)
- [AMBER] sqm (Tue Sep 15 2015 - 07:11:40 PDT)
- Re: [AMBER] A question on binding free energy decomposition output (Tue Sep 15 2015 - 01:01:20 PDT)
- Re: [AMBER] HPC (Thu Sep 10 2015 - 13:32:38 PDT)
- [AMBER] HPC (Thu Sep 10 2015 - 12:17:43 PDT)
sridhar ganesan
- [AMBER] Membrane simulation without a membrane, only lipophilic solvent (membranemimetic) (Thu Sep 24 2015 - 20:10:43 PDT)
sunita gupta
- [AMBER] MMPBSA error (Fri Sep 04 2015 - 00:12:49 PDT)
Sushi Shilpa
- [AMBER] Fwd: ISC-2015-3BS-09 (Sat Sep 26 2015 - 03:39:40 PDT)
- [AMBER] KeyError: 4018 (Tue Sep 01 2015 - 20:42:09 PDT)
Theoretical Research
- Re: [AMBER] Amber compilation problem (Wed Sep 30 2015 - 05:13:59 PDT)
Thiago Lipinski Paes
- Re: [AMBER] T-REMD Reproducibility - Cluster v.s Desktop (Fri Sep 25 2015 - 12:04:16 PDT)
- Re: [AMBER] T-REMD Reproducibility - Cluster v.s Desktop (Fri Sep 25 2015 - 09:58:49 PDT)
- [AMBER] T-REMD Reproducibility - Cluster v.s Desktop (Fri Sep 25 2015 - 09:11:55 PDT)
Thomas Cheatham
- Re: [AMBER] Halogen bond force field in AMBER (Tue Sep 22 2015 - 16:04:56 PDT)
- Re: [AMBER] AMBER Tutorial B1 Backbone atoms (Tue Sep 22 2015 - 13:46:18 PDT)
Timothy Christopher Schutt
- Re: [AMBER] Trouble running Thermodynamic Integration in Amber14 with pmemd. (Mon Sep 07 2015 - 09:48:49 PDT)
- Re: [AMBER] Trouble running Thermodynamic Integration in Amber14 with pmemd. (Fri Sep 04 2015 - 10:10:18 PDT)
- [AMBER] Trouble running Thermodynamic Integration in Amber14 with pmemd. (Thu Sep 03 2015 - 15:04:26 PDT)
Tom Kurtzman
- Re: [AMBER] help in RDF (Tue Sep 22 2015 - 07:26:38 PDT)
Travis Hughes
- [AMBER] watershell cpptraj question (Tue Sep 08 2015 - 08:08:37 PDT)
Urszula Uciechowska
- [AMBER] parmed.py (Fri Sep 18 2015 - 03:31:15 PDT)
Weinzierl, Robert O J
- [AMBER] Amber compilation problem (Wed Sep 30 2015 - 04:43:54 PDT)
wliu
- Re: [AMBER] A question on binding free energy decomposition output (Tue Sep 15 2015 - 18:28:58 PDT)
- [AMBER] A question on binding free energy decomposition output (Mon Sep 14 2015 - 23:22:27 PDT)
Wong Li Zhe
- [AMBER] Installing AMBER (Mon Sep 21 2015 - 20:19:54 PDT)
Xing
- Re: [AMBER] free -COOH at the C-terminus (Thu Sep 24 2015 - 13:01:34 PDT)
- [AMBER] free -COOH at the C-terminus (Thu Sep 24 2015 - 12:11:27 PDT)
- [AMBER] Has anyone tried VMD in the second step of tutorial A1? (Tue Sep 15 2015 - 08:52:33 PDT)
Ye Mei
- Re: [AMBER] xmgrace in microsoft (Thu Sep 17 2015 - 22:55:54 PDT)
杨川
- [AMBER] Problem with saving parameters for a complex having Heme group (Tue Sep 29 2015 - 20:25:36 PDT)
- [AMBER] Problem with saving parameters for a complex having Heme group (Sun Sep 27 2015 - 21:29:35 PDT)
- [AMBER] Problem In Performing MMPBSA Calculation for System containing Ligand and Protein (Mon Sep 21 2015 - 19:15:12 PDT)
- [AMBER] Problem In Performing MMPBSA Calculation for System containing Ligand and Protein (Sun Sep 20 2015 - 21:30:38 PDT)
罗艳玲
- Re: [AMBER] SHAKE&Vlimit (Mon Sep 21 2015 - 04:48:51 PDT)
- [AMBER] SHAKE&Vlimit (Sun Sep 20 2015 - 18:56:30 PDT)

Amber Archive Sep 2015 by author